Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007772.1 Hibiscus syriacus cultivar Beakdansim tig00110053_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: 1636317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:1494 original size:19 final size:19
Alignment explanation
Indices: 1472--1536 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1462 GTAAATTACT
1472 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1491 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1505 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1524 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1537 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1742 original size:14 final size:14
Alignment explanation
Indices: 1719--1752 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
1709 TCAATTAAAC
1719 AATCAACTTTTACA
1 AATCAACTTTTACA
*
1733 AATCACCTTTTACA
1 AATCAACTTTTACA
1747 AATCAA
1 AATCAA
1753 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:3160 original size:21 final size:21
Alignment explanation
Indices: 3136--3205 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
3126 TGACAGTGGC
3136 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGA
* * ** *
3157 CTCTCG-AGGAATGATAGGGGC
1 CTCTTGAACG-ATGGGAGGGGA
* * *
3178 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGATGGGAGGGGA
3199 CTCTTGA
1 CTCTTGA
3206 GGGATGATAG
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGA
Found at i:3179 original size:42 final size:42
Alignment explanation
Indices: 3133--3216 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
3123 CGATGACAGT
* *
3133 GGCCTCTTGAACGATGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
3175 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
3217 CAAGTCGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:5284 original size:32 final size:33
Alignment explanation
Indices: 5227--5324 Score: 135
Period size: 32 Copynumber: 3.0 Consensus size: 33
5217 ACGAGATAAT
*
5227 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
5261 GAGAATCGCAACGC-AAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
5293 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
5325 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 29 0.51
33 14 0.25
34 14 0.25
ACGTcount: A:0.40, C:0.27, G:0.22, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:5318 original size:19 final size:19
Alignment explanation
Indices: 5296--5364 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
5286 GCGACCAGAC
5296 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
5315 AATCGCAACCGCGAAAT-AA
1 AATCGCAA-CGCGAAATGAA
5334 AATCGCAACGCG-AATGAA
1 AATCGCAACGCGAAATGAA
*
5352 AATCGCAATGCGA
1 AATCGCAACGCGA
5365 TTTTGGTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
17 3 0.07
18 17 0.37
19 18 0.39
20 8 0.17
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:5347 original size:18 final size:19
Alignment explanation
Indices: 5203--5364 Score: 116
Period size: 20 Copynumber: 9.1 Consensus size: 19
5193 CTTTTGGTTA
*
5203 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
*
5222 ATAATGAGAATCGCAACGCGG
1 A-AATGAAAATCGCAACGC-G
**
5243 AAATGACTATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
5260 --A-GAGAATCGCAACGC-
1 AAATGAAAATCGCAACGCG
** *
5275 AAATGACTATCGCGAC-C-
1 AAATGAAAATCGCAACGCG
*
5292 --A-GACAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
5308 AAATGAAAATCGCAACCGCG
1 AAATGAAAATCGCAA-CGCG
5328 AAAT-AAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
5346 -AATGAAAATCGCAATGCG
1 AAATGAAAATCGCAACGCG
5364 A
1 A
5365 TTTTGGTTTC
Statistics
Matches: 115, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
14 19 0.17
15 3 0.03
16 1 0.01
17 6 0.05
18 28 0.24
19 21 0.18
20 35 0.30
21 2 0.02
ACGTcount: A:0.43, C:0.23, G:0.22, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:5382 original size:19 final size:19
Alignment explanation
Indices: 5360--5404 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
5350 AAAATCGCAA
*
5360 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
5379 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
5398 TGCGATT
1 TGCGATT
5405 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:6021 original size:41 final size:41
Alignment explanation
Indices: 5969--6046 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
5959 CGAAAGTCAG
* * *
5969 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
6010 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
6047 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:6043 original size:20 final size:20
Alignment explanation
Indices: 5950--6043 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
5940 GGCTATGTAA
*
5950 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
5970 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
5990 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
6011 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
6031 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
6044 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:6061 original size:21 final size:21
Alignment explanation
Indices: 6032--6128 Score: 142
Period size: 21 Copynumber: 4.7 Consensus size: 21
6022 ATAGTCAGTA
*
6032 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
6053 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
* **
6074 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTCCCAAT
*
6094 TCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTCCCAAT
6115 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
6129 ACTTTGCATT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
20 16 0.24
21 50 0.76
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCCAAT
Found at i:6062 original size:41 final size:41
Alignment explanation
Indices: 5969--6064 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
5959 CGAAAGTCAG
* * * ** *
5969 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
6010 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
6052 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
6065 TTTCCCAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:6084 original size:62 final size:62
Alignment explanation
Indices: 6012--6128 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 62
6002 TTTTTTATTA
6012 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
* * *
6074 TCGCGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTT
1 TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTT
6129 ACTTTGCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 2 0.04
61 2 0.04
62 46 0.92
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (62 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTTCCCAAT
Found at i:6096 original size:41 final size:41
Alignment explanation
Indices: 6051--6132 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
6041 GATTTTCCCA
*
6051 ATTCGCGTTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
6092 ATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
6133 TGCATTGCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (41 bp):
ATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTT
Found at i:20215 original size:2 final size:2
Alignment explanation
Indices: 20205--20244 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
20195 TATATTACGT
20205 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20245 TACCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:20458 original size:17 final size:17
Alignment explanation
Indices: 20433--20479 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
20423 TCCTTTTCCT
20433 TTTATTTTATTTTTTTTC
1 TTTA-TTTATTTTTTTTC
* *
20451 TTTATTTATTATTTTTG
1 TTTATTTATTTTTTTTC
*
20468 TATA-TTATTTTT
1 TTTATTTATTTTT
20480 ATTTATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTTTTTC
Found at i:23305 original size:312 final size:312
Alignment explanation
Indices: 22740--24288 Score: 2954
Period size: 312 Copynumber: 5.0 Consensus size: 312
22730 AGTCTACGTC
*
22740 CACTACCTTAGCTATCCACACTAAGGATTTTTCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
1 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
* *
22805 CAAAGGGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCTAAA
66 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
22870 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
131 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
22935 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
196 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
23000 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
261 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
*
23052 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTATCTTTCTTTTGAGGA
1 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
23117 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
66 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
*
23182 GAGAATAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
131 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
23247 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
196 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
23312 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
261 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
23364 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
1 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
23429 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
66 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
*
23494 GAGAACAATACAAATTTGTAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
131 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
*
23559 AGAACAAAGAAAAGAACACTCAATAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
196 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
*
23624 ATGAATATTGAATGAAAAATAGGCTTGAAATACTCAAACTTAGGATTTTCCA
261 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
* *
23676 CACTACCTTAGTTATCCACACTAAGGATTTTCCACAAATTCACTAATTTATCTTTCTTTTGAGGA
1 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
* *
23741 CAAAGAGTAAACTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTTTCCCAAA
66 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
23806 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
131 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
23871 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
196 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
23936 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
261 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
*
23988 CACTACCTTAGTTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
1 CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
24053 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
66 CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
* *
24118 TAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACATGGTAGATTGTTTGCACAATTCT
131 GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
24183 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
196 AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
*
24248 ATGAATATTGAATGAAAAATAGGATTGAAATGCTCAAACTT
261 ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTT
24289 GAGGTTTGAT
Statistics
Matches: 1214, Mismatches: 23, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
312 1214 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (312 bp):
CACTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTAATTTGTCTTTCTTTTGAGGA
CAAAGAGTAACCTTACAAACCATCAAGAATTATACCCCAAATTCTTGAGAACACTCTCTCCCAAA
GAGAACAATACAAATTTGCAAACTTATAAGGAAATCCTCACAAGGTAGATTGTTTGCACAATTCT
AGAACAAAGAAAAGAACACTCAAGAATGAATACAATTGAGCACAATAAGTGTTCTTGAAAGCAAA
ATGAATATTGAATGAAAAATAGGCTTGAAATGCTCAAACTTAGGATTTTCCA
Found at i:28268 original size:36 final size:36
Alignment explanation
Indices: 28221--28299 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
28211 ATAGACTTTG
28221 TCTCACTTGAGACTGCTTTACTCGAAAGAAGATTTA
1 TCTCACTTGAGACTGCTTTACTCGAAAGAAGATTTA
* * * *
28257 TCTCACTTGAGATTGTTTTATTCGAAAGAATATTTA
1 TCTCACTTGAGACTGCTTTACTCGAAAGAAGATTTA
*
28293 TTTCACT
1 TCTCACT
28300 CAAGATTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (36 bp):
TCTCACTTGAGACTGCTTTACTCGAAAGAAGATTTA
Found at i:28306 original size:36 final size:36
Alignment explanation
Indices: 28237--28311 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
28227 TTGAGACTGC
**
28237 TTTACTCGAAAGAAGATTTATCTCACTTGAGATTGT
1 TTTACTCGAAAGAAGATTTATCTCACTCAAGATTGT
* * *
28273 TTTATTCGAAAGAATATTTATTTCACTCAAGATTGT
1 TTTACTCGAAAGAAGATTTATCTCACTCAAGATTGT
28309 TTT
1 TTT
28312 TCTTAAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (36 bp):
TTTACTCGAAAGAAGATTTATCTCACTCAAGATTGT
Found at i:28436 original size:39 final size:39
Alignment explanation
Indices: 28383--28496 Score: 124
Period size: 39 Copynumber: 3.0 Consensus size: 39
28373 GTTTTTAAAG
* *
28383 AAGATTTTATCTCGCTTGAGGTGGTTTCCCTCGAAACAA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* *
28422 AAGATTTTATCTCGCTTGAGATAGTTTCCCTTG-AACCA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
* * * * * *
28460 AA-ATTTTGTCCCTCTTGAGACAGTTTCTCTTGAAACA
1 AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACA
28497 TAAATATTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 25 0.39
38 9 0.14
39 30 0.47
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA
Found at i:28556 original size:65 final size:65
Alignment explanation
Indices: 28473--28630 Score: 237
Period size: 65 Copynumber: 2.4 Consensus size: 65
28463 TTTTGTCCCT
* * *
28473 CTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCTCTTGAAATGGATTTGGTCTCC
1 CTTGAGACAGTTTCTCTTGAAACATAAATATCGAAAACATTTCCCTTGAAATGAATTTGGTCTCC
* * *
28538 TTTGAGACAGTTTCTCTTGAAACATAAACATCGAAAACATTTCCCTTGAAATGAATTTTGTCTCC
1 CTTGAGACAGTTTCTCTTGAAACATAAATATCGAAAACATTTCCCTTGAAATGAATTTGGTCTCC
* *
28603 CTTGAGATAGTTTCCCTTGAAACA-AAAT
1 CTTGAGACAGTTTCTCTTGAAACATAAAT
28631 TTTGTCTCCC
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
64 3 0.04
65 80 0.96
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (65 bp):
CTTGAGACAGTTTCTCTTGAAACATAAATATCGAAAACATTTCCCTTGAAATGAATTTGGTCTCC
Found at i:28639 original size:37 final size:37
Alignment explanation
Indices: 28577--28663 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
28567 ATCGAAAACA
** *
28577 TTTCCCTTGAAA-TGAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
28613 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
28650 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
28664 TAAACATTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 12 0.26
37 34 0.74
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:28709 original size:102 final size:102
Alignment explanation
Indices: 28527--28732 Score: 349
Period size: 102 Copynumber: 2.0 Consensus size: 102
28517 CTTGAAATGG
* **
28527 ATTTGGTCTCCTTTGAGACAGTTTCTCTTGAAACATAAACATCGAAAACATTTCCCTTGAAATGA
1 ATTTGGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATCGAAAACATTTCCCTTGAAACAA
*
28592 ATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAA
66 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* *
28629 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
1 ATTTGGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATCGAAAACATTTCCCTTGAAACAA
*
28694 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
66 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
28731 AT
1 AT
28733 CTTTTAATCT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (102 bp):
ATTTGGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATCGAAAACATTTCCCTTGAAACAA
ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:28712 original size:167 final size:166
Alignment explanation
Indices: 28407--28897 Score: 506
Period size: 167 Copynumber: 2.9 Consensus size: 166
28397 CTTGAGGTGG
* * * *
28407 TTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGATAGTTTCCCTTGAACCAAAATTTTGTC-C
1 TTTCCCTTGAAAC--AA-ATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTC
* * *** *
28471 CTCTTGAGACAGTTTCTCTTGAAACATAAATATTGAAAACATTTCTCTTGAAATGGATTTGGTCT
63 C-CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAAAAATTTTGTCT
28536 CCTTTGAGACAGTTTCTCTTGAAACATAAA-CATCGAAAAC-A
127 CC-TTGAGACAGTTTCTCTTGAAACA-AAATC-TCGAAAACTA
**
28577 TTTCCCTTGAAATGAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
28642 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAAATTTTGTCTCTCT
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAAAAATTTTGTCTC-CT
* *** * *
28707 TGAGACAGTTTCCCTTGAAACAAAATCTTTTAATCTG
130 TGAGACAGTTTCTCTTGAAACAAAATCTCGAAAACTA
* * * * * ** *
28744 TTTTCCTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCTTTTGAAAC-AAATTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * * *** * *
28808 TGAGACAG-TTCCCTTGAAACACAAAATCTTTGAATTTATTTCCCTTAAAATAAAATTTTGTTTA
66 TGAGACAGTTTCTCTTGAAACA-TAAA-CATTGAAAACATTTCCCTTGAAA-AAAATTTTGTCT-
* *
28872 CCTTGAGACCGTTTCTCATGAAACAA
127 CCTTGAGACAGTTTCTCTTGAAACAA
28898 CAAATATCTT
Statistics
Matches: 273, Mismatches: 40, Indels: 18
0.82 0.12 0.05
Matches are distributed among these distances:
165 12 0.04
166 32 0.12
167 181 0.66
168 36 0.13
169 1 0.00
170 11 0.04
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (166 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAAAAATTTTGTCTCCTT
GAGACAGTTTCTCTTGAAACAAAATCTCGAAAACTA
Found at i:28718 original size:65 final size:65
Alignment explanation
Indices: 28613--28795 Score: 235
Period size: 65 Copynumber: 2.8 Consensus size: 65
28603 CTTGAGATAG
*
28613 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAA
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAATC-TTGAAAA
28677 C-A
63 CTA
* ** * *
28679 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTTAATCTG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTGAAAACTA
* * * *
28744 TTTTCCTTTAAACAAATTTTGTCTCTCTCGAGACAGTTTCTTTTGAAACAAA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
28796 TTTTGTCTCT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
64 8 0.08
65 83 0.80
66 13 0.12
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (65 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTGAAAACTA
Found at i:28726 original size:36 final size:36
Alignment explanation
Indices: 28679--28828 Score: 165
Period size: 36 Copynumber: 4.4 Consensus size: 36
28669 ATTGAAAACA
28679 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
28715 TTTCCCTTGAAACAAA----ATCT-T-TT-A-ATCTG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-CAG
* * *
28744 TTTTCCTTTAAACAAATTTTGTCTCTCTCGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
**
28780 TTTCTTTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
28816 -TTCCCTTGAAACA
1 TTTCCCTTGAAACA
28829 CAAAATCTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 19
0.73 0.11 0.15
Matches are distributed among these distances:
28 1 0.01
29 17 0.19
30 2 0.02
31 1 0.01
32 3 0.03
33 3 0.03
34 1 0.01
35 12 0.13
36 50 0.55
37 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:30549 original size:18 final size:19
Alignment explanation
Indices: 30523--30560 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
30513 CTCATTACTA
30523 TTTCTATTATT-CTTATTAT
1 TTTCTATTATTAC-TATTAT
30542 TTTC-ATTATTACTATTAT
1 TTTCTATTATTACTATTAT
30560 T
1 T
30561 ATTGTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTATTATTACTATTAT
Found at i:30653 original size:10 final size:10
Alignment explanation
Indices: 30640--30673 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30630 TTATTTATTA
30640 TTTCCTTTCT
1 TTTCCTTTCT
*
30650 TTTCCTTTCC
1 TTTCCTTTCT
*
30660 TTTCCTTTTT
1 TTTCCTTTCT
30670 TTTC
1 TTTC
30674 TTTATTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTCCTTTCT
Found at i:30696 original size:13 final size:13
Alignment explanation
Indices: 30674--30704 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30664 CTTTTTTTTC
*
30674 TTTATTTATTATT
1 TTTATATATTATT
30687 TTTATATATTATT
1 TTTATATATTATT
30700 TTTAT
1 TTTAT
30705 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATATATTATT
Found at i:30713 original size:20 final size:20
Alignment explanation
Indices: 30675--30713 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30665 TTTTTTTTCT
*
30675 TTATTTATTATTTTTATATA
1 TTATTTATTATTTTCATATA
30695 TTATTT-TTATTTCTCATAT
1 TTATTTATTATTT-TCATAT
30714 TTTTAGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTATTATTTTCATATA
Found at i:32755 original size:12 final size:12
Alignment explanation
Indices: 32738--32772 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
32728 AAGAACACCA
32738 AAAGAAAAACTT
1 AAAGAAAAACTT
32750 AAAG-AAAACTT
1 AAAGAAAAACTT
*
32761 AATGAAAAACTT
1 AAAGAAAAACTT
32773 GATGTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (12 bp):
AAAGAAAAACTT
Found at i:38709 original size:12 final size:12
Alignment explanation
Indices: 38692--38726 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
38682 AAGAACACCA
38692 AAAGAAAAACTT
1 AAAGAAAAACTT
38704 AAAG-AAAACTT
1 AAAGAAAAACTT
*
38715 AATGAAAAACTT
1 AAAGAAAAACTT
38727 GATGTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (12 bp):
AAAGAAAAACTT
Found at i:43501 original size:29 final size:29
Alignment explanation
Indices: 43438--43542 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
43428 ACAGTCAACT
* * * *
43438 ATTACGAAAATAACACATTTCTTAAAAATA
1 ATTACCAAAATATCACCTTT-TTCAAAATA
43468 ATTACCAAAATATCACCTTTTTCAAAATA
1 ATTACCAAAATATCACCTTTTTCAAAATA
* * **
43497 ATTACCACAATATCATCGATTTCAAAATA
1 ATTACCAAAATATCACCTTTTTCAAAATA
*
43526 ATTACTAAAATATCACC
1 ATTACCAAAATATCACC
43543 GGGTCGGGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
29 47 0.73
30 17 0.27
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTACCAAAATATCACCTTTTTCAAAATA
Found at i:50712 original size:29 final size:29
Alignment explanation
Indices: 50664--50794 Score: 178
Period size: 29 Copynumber: 4.6 Consensus size: 29
50654 ACAGTTAACT
* *
50664 ATTA-CAAAA-ATAACATTTTTTTAAAATA
1 ATTACCAAAATATCACA-TTTTTCAAAATA
*
50692 ATTACCAAAATCTCATC-TTTTTCAAAATA
1 ATTACCAAAATATCA-CATTTTTCAAAATA
50721 ATTACCAAAATATCACATTTTTCAAAATA
1 ATTACCAAAATATCACATTTTTCAAAATA
*
50750 ATTATCAAAATATCACATTTTTCAAAATA
1 ATTACCAAAATATCACATTTTTCAAAATA
*
50779 ATTACTAAAATATCAC
1 ATTACCAAAATATCAC
50795 CGGGTCGGGT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.05
29 84 0.91
30 2 0.02
31 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (29 bp):
ATTACCAAAATATCACATTTTTCAAAATA
Found at i:50748 original size:17 final size:17
Alignment explanation
Indices: 50726--50778 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
50716 AAATAATTAC
50726 CAAAATATCACATTTTT
1 CAAAATATCACATTTTT
*
50743 C-AAA-AT-A-A-TTAT
1 CAAAATATCACATTTTT
50755 CAAAATATCACATTTTT
1 CAAAATATCACATTTTT
50772 CAAAATA
1 CAAAATA
50779 ATTACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 3 0.10
15 3 0.10
16 4 0.14
17 11 0.38
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
CAAAATATCACATTTTT
Found at i:50817 original size:17 final size:18
Alignment explanation
Indices: 50795--50830 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
50785 AAAATATCAC
50795 CGGGTCGGGTC-GGTCAA
1 CGGGTCGGGTCGGGTCAA
50812 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
50830 C
1 C
50831 CCGGTTCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.11, C:0.25, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:57152 original size:2 final size:2
Alignment explanation
Indices: 57145--57169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57135 AAATAACATA
57145 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57170 AAATATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68140 original size:23 final size:23
Alignment explanation
Indices: 68108--68174 Score: 98
Period size: 23 Copynumber: 2.9 Consensus size: 23
68098 ACCTTATATA
68108 GCACTTCGGTGCATTTCTACGTG
1 GCACTTCGGTGCATTTCTACGTG
* *
68131 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCATTTCTACGTG
* *
68154 GCACTTCGGTGTATTTATACG
1 GCACTTCGGTGCATTTCTACG
68175 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (23 bp):
GCACTTCGGTGCATTTCTACGTG
Found at i:68534 original size:36 final size:36
Alignment explanation
Indices: 68464--68534 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
68454 AGATTTATAT
* *
68464 ATTTGTATGCATGTGATTATATGAAATGTTATATTG
1 ATTTGTATGCATATGATTATATGAAATGTCATATTG
* *
68500 ATTTGTATG-ATATTATTATATGATATGCTCATATT
1 ATTTGTATGCATATGATTATATGAAATG-TCATATT
68535 TTTTTAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.50
36 15 0.50
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (36 bp):
ATTTGTATGCATATGATTATATGAAATGTCATATTG
Found at i:85195 original size:11 final size:10
Alignment explanation
Indices: 85179--85238 Score: 75
Period size: 10 Copynumber: 5.8 Consensus size: 10
85169 TTCACTTTTT
*
85179 ATAAAAATAA
1 ATAAAAATGA
85189 ATAAAAATGCA
1 ATAAAAATG-A
85200 ATAAAAATGA
1 ATAAAAATGA
85210 ATTAAAAATGA
1 A-TAAAAATGA
* *
85221 ATAAAATTCA
1 ATAAAAATGA
85231 ATAAAAAT
1 ATAAAAAT
85239 ATAATGTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
10 24 0.55
11 20 0.45
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (10 bp):
ATAAAAATGA
Found at i:85205 original size:21 final size:20
Alignment explanation
Indices: 85179--85238 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
85169 TTCACTTTTT
85179 ATAAAAATAAATAAAAATGCA
1 ATAAAAATAAATAAAAATG-A
*
85200 ATAAAAATGAATTAAAAATGA
1 ATAAAAAT-AAATAAAAATGA
* *
85221 ATAAAATTCAATAAAAAT
1 ATAAAAATAAATAAAAAT
85239 ATAATGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.24
21 16 0.47
22 10 0.29
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
ATAAAAATAAATAAAAATGA
Found at i:86325 original size:11 final size:10
Alignment explanation
Indices: 86276--86334 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
86266 TTTACATTAT
*
86276 ATTTTTATTG
1 ATTTTTATTC
*
86286 AATTTTATTC
1 ATTTTTATTC
86296 ATTTTTAATTC
1 ATTTTT-ATTC
*
86307 TTTTTTATTGC
1 ATTTTTATT-C
86318 ATTTTTATAT-
1 ATTTTTAT-TC
86328 ATTTTTA
1 ATTTTTA
86335 GAAAACGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 23 0.56
11 17 0.41
12 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:87119 original size:29 final size:29
Alignment explanation
Indices: 87059--87143 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
87049 ATGTTCTTAG
** * * *
87059 GGTAGGTCGCCATGCAATCCTGATGACGT
1 GGTAGGTCGCCATGCACGCCCGACGACAT
*
87088 GGTAGGTCGCCATGCACGCCCAACGACAT
1 GGTAGGTCGCCATGCACGCCCGACGACAT
*
87117 GGTAGGTCGTCATGCACGCCCGACGAC
1 GGTAGGTCGCCATGCACGCCCGACGAC
87144 CAAGCTTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.18
Consensus pattern (29 bp):
GGTAGGTCGCCATGCACGCCCGACGACAT
Found at i:88191 original size:24 final size:24
Alignment explanation
Indices: 88164--88215 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
88154 TATATCAAAA
88164 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* * *
88188 ATCATATCAAACTCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
88212 ATCA
1 ATCA
88216 TATCAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:91689 original size:21 final size:21
Alignment explanation
Indices: 91664--91707 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
91654 AATTTAGTTA
91664 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
91685 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
91706 AT
1 AT
91708 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:91717 original size:28 final size:30
Alignment explanation
Indices: 91684--91746 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
91674 TAGTATAAAT
91684 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
91712 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
91742 TATTA
1 TATTA
91747 TATAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:94129 original size:195 final size:195
Alignment explanation
Indices: 93797--94190 Score: 779
Period size: 195 Copynumber: 2.0 Consensus size: 195
93787 ACTGCCATAC
93797 CACCAGTTTGCGATTTCATCCCACTTGCAAACGTTGACTGACAAATACTGGTATTTGACATCATA
1 CACCAGTTTGCGATTTCATCCCACTTGCAAACGTTGACTGACAAATACTGGTATTTGACATCATA
93862 GATGTCATTTGGTCAAAGTCATACATCGACTCAAACATGGGAGAGTAGATGGGTGCTTCAGGCTG
66 GATGTCATTTGGTCAAAGTCATACATCGACTCAAACATGGGAGAGTAGATGGGTGCTTCAGGCTG
*
93927 CACAAACTCTGGTATGTATGCCGGGACAGTAGAATCATCAAATGCGTGATGCAACGATCCCGTGT
131 CACAAACTCTGGTATGTATGCCGGGACAGTAGAATCATCAAATGCGTGATGCAACGATCCCGTAT
93992 CACCAGTTTGCGATTTCATCCCACTTGCAAACGTTGACTGACAAATACTGGTATTTGACATCATA
1 CACCAGTTTGCGATTTCATCCCACTTGCAAACGTTGACTGACAAATACTGGTATTTGACATCATA
94057 GATGTCATTTGGTCAAAGTCATACATCGACTCAAACATGGGAGAGTAGATGGGTGCTTCAGGCTG
66 GATGTCATTTGGTCAAAGTCATACATCGACTCAAACATGGGAGAGTAGATGGGTGCTTCAGGCTG
94122 CACAAACTCTGGTATGTATGCCGGGACAGTAGAATCATCAAATGCGTGATGCAACGATCCCGTAT
131 CACAAACTCTGGTATGTATGCCGGGACAGTAGAATCATCAAATGCGTGATGCAACGATCCCGTAT
94187 CACC
1 CACC
94191 GAACGGTTGT
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 198 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (195 bp):
CACCAGTTTGCGATTTCATCCCACTTGCAAACGTTGACTGACAAATACTGGTATTTGACATCATA
GATGTCATTTGGTCAAAGTCATACATCGACTCAAACATGGGAGAGTAGATGGGTGCTTCAGGCTG
CACAAACTCTGGTATGTATGCCGGGACAGTAGAATCATCAAATGCGTGATGCAACGATCCCGTAT
Found at i:96329 original size:29 final size:30
Alignment explanation
Indices: 96297--96376 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 30
96287 TATCACAATC
**
96297 ATAAAAT-AATATTCAAATATTTATTAATT
1 ATAAAATCAATAAACAAATATTTATTAATT
* *
96326 AT-AATTCATTAAACAAATATTTATTAATT
1 ATAAAATCAATAAACAAATATTTATTAATT
* * *
96355 AT-AATTTATTAAACAAATATTT
1 ATAAAATCAATAAACAAATATTT
96377 TACTCACCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 3 0.07
29 42 0.93
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
ATAAAATCAATAAACAAATATTTATTAATT
Found at i:96363 original size:14 final size:14
Alignment explanation
Indices: 96315--96366 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
96305 ATATTCAAAT
96315 ATTTATTAATTATA
1 ATTTATTAATTATA
* ** *
96329 ATTCATTAAACAAA
1 ATTTATTAATTATA
96343 TATTTATTAATTATA
1 -ATTTATTAATTATA
96358 ATTTATTAA
1 ATTTATTAA
96367 ACAAATATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 19 0.66
15 10 0.34
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTATTAATTATA
Found at i:96375 original size:25 final size:28
Alignment explanation
Indices: 96310--96375 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
96300 AAATAATATT
96310 CAAATATTTATTAATTATAATTCATTAAA
1 CAAATA-TTATTAATTATAATTCATTAAA
*
96339 CAAATATTTATTAATTATAATTTATTAAA
1 CAAATA-TTATTAATTATAATTCATTAAA
96368 CAAATATT
1 CAAATATT
96376 TTACTCACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 2 0.06
29 34 0.94
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (28 bp):
CAAATATTATTAATTATAATTCATTAAA
Found at i:96685 original size:30 final size:30
Alignment explanation
Indices: 96651--96751 Score: 175
Period size: 30 Copynumber: 3.4 Consensus size: 30
96641 TCCCTTAAAC
96651 AACTAATAAACTATTCTATAATATAACTTT
1 AACTAATAAACTATTCTATAATATAACTTT
96681 AACTAATAAACTATTCTATAATATAACTTT
1 AACTAATAAACTATTCTATAATATAACTTT
* * *
96711 AACTAATAAACTATTCTTTAAAATAACTTA
1 AACTAATAAACTATTCTATAATATAACTTT
96741 AACTAATAAAC
1 AACTAATAAAC
96752 GATTTTTAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.37
Consensus pattern (30 bp):
AACTAATAAACTATTCTATAATATAACTTT
Found at i:96687 original size:15 final size:14
Alignment explanation
Indices: 96651--96722 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 14
96641 TCCCTTAAAC
96651 AACTAATAAACTATT
1 AACTAATAAACT-TT
*
96666 CTA-TAATATAACTTT
1 -AACTAATA-AACTTT
96681 AACTAATAAACTATT
1 AACTAATAAACT-TT
*
96696 CTA-TAATATAACTTT
1 -AACTAATA-AACTTT
96711 AACTAATAAACT
1 AACTAATAAACT
96723 ATTCTTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.22
15 26 0.57
16 10 0.22
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTAATAAACTTT
Found at i:96766 original size:60 final size:59
Alignment explanation
Indices: 96651--96783 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 59
96641 TCCCTTAAAC
* * *
96651 AACTAATAAACTATTCTATAATATAACTTTAACTAATAAACTATTCTATAATATAACTTT
1 AACTAATAAACTATTCTATAAAATAACTTAAACTAATAAACGATTCTATAATATAA-TTT
* *
96711 AACTAATAAACTATTCTTTAAAATAACTTAAACTAATAAACGATT-TTTAATTATAATTT
1 AACTAATAAACTATTCTATAAAATAACTTAAACTAATAAACGATTCTATAA-TATAATTT
96770 ACTACTAA-AAACTA
1 A--ACTAATAAACTA
96784 ATTAACTAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
59 8 0.12
60 52 0.80
61 5 0.08
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (59 bp):
AACTAATAAACTATTCTATAAAATAACTTAAACTAATAAACGATTCTATAATATAATTT
Found at i:96987 original size:21 final size:22
Alignment explanation
Indices: 96963--97012 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
96953 TTTTTATATG
*
96963 ATATAACTTAAACTAACAA-TA
1 ATATAACTTAAACTAAAAATTA
96984 ATATAACTTAAACTAAAAATTA
1 ATATAACTTAAACTAAAAATTA
97006 AT-TAACT
1 ATATAACT
97013 AATTTTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATAACTTAAACTAAAAATTA
Found at i:97067 original size:34 final size:36
Alignment explanation
Indices: 97030--97099 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
97020 TGTTTTACCC
* *
97030 TAATTTATAATAATAAATTAA-TTAACTAATTAACTAA
1 TAATTTATAATAATAAACTAATTTAAATAATTAAC--A
97067 TAATTTATAATAATAAACTAATTTAAATAATTA
1 TAATTTATAATAATAAACTAATTTAAATAATTA
97100 TTATTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 20 0.67
38 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (36 bp):
TAATTTATAATAATAAACTAATTTAAATAATTAACA
Found at i:97629 original size:23 final size:23
Alignment explanation
Indices: 97598--97659 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
97588 ACGTGAGCTG
* *
97598 AAGGACTGCAATAATGCAGCAAT
1 AAGGGCTGCAATAATGCAACAAT
97621 AAGGGCTGCAATAATGCAACAAT
1 AAGGGCTGCAATAATGCAACAAT
*
97644 AAGTGCTGCAATAATG
1 AAGGGCTGCAATAATG
97660 TAGTTGAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (23 bp):
AAGGGCTGCAATAATGCAACAAT
Found at i:97633 original size:12 final size:12
Alignment explanation
Indices: 97603--97657 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
97593 AGCTGAAGGA
97603 CTGCAATAA-TG
1 CTGCAATAAGTG
* *
97614 CAGCAATAAGGG
1 CTGCAATAAGTG
97626 CTGCAATAA-TG
1 CTGCAATAAGTG
**
97637 CAACAATAAGTG
1 CTGCAATAAGTG
97649 CTGCAATAA
1 CTGCAATAA
97658 TGTAGTTGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (12 bp):
CTGCAATAAGTG
Found at i:109770 original size:24 final size:24
Alignment explanation
Indices: 109743--109798 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
109733 TAACCATCGG
* *
109743 ATTGCTGCTCAATGAACCCATATC
1 ATTGCTGATCAACGAACCCATATC
*
109767 ATTGCTGATCAACGAAGCCATATC
1 ATTGCTGATCAACGAACCCATATC
109791 ATTGCTGA
1 ATTGCTGA
109799 ATGCCAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (24 bp):
ATTGCTGATCAACGAACCCATATC
Found at i:109961 original size:19 final size:19
Alignment explanation
Indices: 109937--110041 Score: 120
Period size: 19 Copynumber: 5.2 Consensus size: 19
109927 GCGATTTTGA
109937 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
109956 AAAATGTATTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
*
109975 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
*
109995 GAAAAACATGTTGTTGCGATAGTG
1 ---AAA-ATG-TGTTGCGATAGTT
*
110019 AAAATGTGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTT
110038 AAAA
1 AAAA
110042 ATCAAAAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
19 50 0.67
20 5 0.07
21 3 0.04
23 3 0.04
24 4 0.05
25 10 0.13
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:110599 original size:21 final size:21
Alignment explanation
Indices: 110488--110644 Score: 103
Period size: 21 Copynumber: 7.6 Consensus size: 21
110478 GATAGTCAGA
*
110488 ATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
* * **
110509 ATCACGTTGTGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
*
110529 ATAGCGCTT-CGATTATGTATT
1 ATCGCG-TTGCGATTATGTATT
**
110550 ATCGCGTTGCGA-TA-GTCAAA
1 ATCGCGTTGCGATTATGT-ATT
110570 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* **
110591 ATTGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
* *
110611 ATCGCGTTGCAATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
*
110632 ATCACGTTGCGAT
1 ATCGCGTTGCGAT
110645 AGTCAGAATC
Statistics
Matches: 100, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
19 6 0.06
20 38 0.38
21 50 0.50
22 6 0.06
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:110685 original size:41 final size:41
Alignment explanation
Indices: 110472--110667 Score: 286
Period size: 41 Copynumber: 4.8 Consensus size: 41
110462 ATTAAAATCG
110472 CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
* * * *
110513 CGTTGTGATAGTCAGAATAGCGCTT-CGATTATGTATTATCG
1 CGTTGCGATAGTCAGAATCGCG-TTGCGATTTTGTATTATCA
* * **
110554 CGTTGCGATAGTCAAAATCGCGTTGCGATTATGTATTATTG
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
*
110595 CGTTGCGATAGTCAGAATCGCGTTGCAATTTTGTATTATCA
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
*
110636 CGTTGCGATAGTCAGAATCGTGTTGCGATTTT
1 CGTTGCGATAGTCAGAATCGCGTTGCGATTTT
110668 CCAAATTCAC
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
40 2 0.01
41 134 0.97
42 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCA
Found at i:110959 original size:23 final size:23
Alignment explanation
Indices: 110933--110989 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
110923 AAACAAATAT
*
110933 TATCAAATTAAAAAGA-TTTCATA
1 TATCAAATTAAAAA-ACTTGCATA
*
110956 TATCTAA-TAAAAAACTTGCATA
1 TATCAAATTAAAAAACTTGCATA
110978 T-TACAAATTAAA
1 TAT-CAAATTAAA
110990 TATATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 10 0.36
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (23 bp):
TATCAAATTAAAAAACTTGCATA
Found at i:127161 original size:31 final size:31
Alignment explanation
Indices: 127111--127185 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
127101 TTTAATGGCC
* **
127111 AAAGTATAATGTTGTAAAAGTTTAGGAACCAA
1 AAAGTATAATTTTCCAAAAGTTTAGGAACC-A
*
127143 AAAG-ATAATTTTCCAAAAGTTTAGGGACCA
1 AAAGTATAATTTTCCAAAAGTTTAGGAACCA
127173 AAAGTATAATTTT
1 AAAGTATAATTTT
127186 AAAAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 5 0.13
31 29 0.76
32 4 0.11
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (31 bp):
AAAGTATAATTTTCCAAAAGTTTAGGAACCA
Found at i:130178 original size:12 final size:12
Alignment explanation
Indices: 130118--130178 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
130108 GTGATCATGT
130118 ATATCATATCAC
1 ATATCATATCAC
*
130130 -T-TCATATCATG
1 ATATCATATCA-C
* *
130141 TTCTCATATCAC
1 ATATCATATCAC
**
130153 AGGTCATATCAC
1 ATATCATATCAC
130165 ATATCATATCAC
1 ATATCATATCAC
130177 AT
1 AT
130179 GAACATATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 8 0.21
11 1 0.03
12 22 0.56
13 8 0.21
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (12 bp):
ATATCATATCAC
Found at i:132492 original size:21 final size:20
Alignment explanation
Indices: 132468--132509 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
132458 TGCTAACTAT
132468 TAATATAGT-TAGTATCAAATA
1 TAATATAGTATA-TA-CAAATA
*
132489 TAATTTAGTATATACAAATA
1 TAATATAGTATATACAAATA
132509 T
1 T
132510 TATGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 10 0.53
22 2 0.11
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATATAGTATATACAAATA
Found at i:139071 original size:29 final size:32
Alignment explanation
Indices: 139017--139077 Score: 101
Period size: 29 Copynumber: 2.0 Consensus size: 32
139007 CAATTTAAGG
139017 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
139049 CAAAAT-G-TTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTTGGACTTGAATTGAATTTA
139078 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 1 0.03
32 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (32 bp):
CAAAATGGTTTTTTGGACTTGAATTGAATTTA
Found at i:139213 original size:14 final size:14
Alignment explanation
Indices: 139194--139221 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
139184 TCCCCCGTAG
139194 GGGTACAGATACCC
1 GGGTACAGATACCC
139208 GGGTACAGATACCC
1 GGGTACAGATACCC
139222 CCAGGGGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (14 bp):
GGGTACAGATACCC
Found at i:139231 original size:18 final size:18
Alignment explanation
Indices: 139192--139241 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
139182 TCTCCCCCGT
139192 AGGGGTACAGATA--CCC
1 AGGGGTACAGATACCCCC
139208 --GGGTACAGATACCCCC
1 AGGGGTACAGATACCCCC
139224 AGGGGTACAGATACCCCC
1 AGGGGTACAGATACCCCC
139242 TGCAGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.37
16 3 0.10
18 16 0.53
ACGTcount: A:0.28, C:0.32, G:0.28, T:0.12
Consensus pattern (18 bp):
AGGGGTACAGATACCCCC
Found at i:139441 original size:20 final size:22
Alignment explanation
Indices: 139403--139442 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
139393 TTTTAATATA
139403 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
139425 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
139443 ATATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:143439 original size:17 final size:19
Alignment explanation
Indices: 143374--143445 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
143364 TTCAAACTGA
*
143374 GTAGTATCGATACTCTACTT
1 GTAGTATCGATACCCTAC-T
*
143394 GTAGTATCGATACCCTAGT
1 GTAGTATCGATACCCTACT
143413 GTCAAGTATCGATACCCTA-T
1 GT--AGTATCGATACCCTACT
143433 G-AGTATCGATACC
1 GTAGTATCGATACC
143446 AAAATGGCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.25
19 3 0.06
20 18 0.38
21 15 0.31
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (19 bp):
GTAGTATCGATACCCTACT
Found at i:143523 original size:21 final size:21
Alignment explanation
Indices: 143499--143551 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
143489 GTTACCCTGT
***
143499 GTATCGATACTTTTGTCAGAA
1 GTATCGATACTTTCCCCAGAA
143520 GTATCGATACTTTCCCCAGAA
1 GTATCGATACTTTCCCCAGAA
*
143541 GTATGGATACT
1 GTATCGATACT
143552 CTTGCTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
GTATCGATACTTTCCCCAGAA
Found at i:147255 original size:31 final size:31
Alignment explanation
Indices: 147213--147272 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
147203 AACTTAAAAG
*
147213 AGTTTTGCAATACT-AAGATTTAAATAATTTT
1 AGTTTTACAATACTGAA-ATTTAAATAATTTT
147244 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
147273 CATACAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:147322 original size:22 final size:22
Alignment explanation
Indices: 147296--147338 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
147286 TAATAAATTA
147296 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
147318 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
147339 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:147347 original size:22 final size:22
Alignment explanation
Indices: 147298--147346 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
147288 ATAAATTATT
**
147298 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
147320 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
147343 TAAA
1 TAAA
147347 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:147356 original size:32 final size:32
Alignment explanation
Indices: 147318--148431 Score: 567
Period size: 32 Copynumber: 39.3 Consensus size: 32
147308 CAATCCATAT
147318 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147350 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
147380 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147398 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147430 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147462 TTTAAAATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147488 ---AAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147517 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
147539 TTTAAAATAAATCAATCCATACTAATAAGTCA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147571 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
147601 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147619 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147651 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147673 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147705 TTTAAAATAAATCAA-CACATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
147735 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147753 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147785 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147817 TTTAAAATAAATCAATCCATA-T--T---TTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147843 ---AAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147872 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
147894 TTTAAAATAAATCAATCCATACTAATAAGTCA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
147926 TTTAAAATAAATCAA--C--AC--ATACA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
147950 -CTACAATAAATCAATCCATA-T---------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
147971 TTTAAAATAAATCAATCCATAC-AATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
148002 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
148034 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
148064 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
148089 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
148118 TTTAAAATAAATCAA-CTCATACTAATAAATTA
1 TTTAAAATAAATCAATC-CATACTAATAAATTA
148150 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
148172 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
148204 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
148226 TTTAAAGTAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** * *
148258 TTTAAAATAAATCAATATTAAATAATAAATTAATCCATA
1 TTTAAAATAAATC-A-A-TCCATACT-AATAAAT---TA
**
148297 TTTTAAAATAAATCAATTTATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
* * *
148330 TTT-AAATAAATCAATCCATATTTTAAAAAATCA
1 TTTAAAATAAATCAATCCATA--CTAATAAATTA
* * *
148363 ATTATAATAAAT---T--AT-TTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
148389 TTTTAAAATAAATCAATCCTTA-TAATAATTTA
1 -TTTAAAATAAATCAATCCATACTAATAAATTA
148421 TTTTAAAATAA
1 -TTTAAAATAA
148432 TTATTTTATA
Statistics
Matches: 855, Mismatches: 59, Indels: 336
0.68 0.05 0.27
Matches are distributed among these distances:
20 3 0.00
22 139 0.16
23 59 0.07
24 14 0.02
25 6 0.01
26 105 0.12
27 18 0.02
28 21 0.02
29 11 0.01
30 9 0.01
31 60 0.07
32 350 0.41
33 13 0.02
34 8 0.01
35 5 0.01
36 12 0.01
37 5 0.01
38 1 0.00
39 3 0.00
40 13 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:147391 original size:80 final size:83
Alignment explanation
Indices: 147286--148349 Score: 598
Period size: 80 Copynumber: 13.0 Consensus size: 83
147276 ACAACTACAA
147286 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
147351 TTAAAATAAATCAA-CACATAC
63 TTAAAATAAATCAATC-CATAC
* *
147372 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
*
147433 AAAATAAATCAATCTATAC
65 AAAATAAATCAATCCATAC
147452 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATCAATCCATACTAATAAATTA
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTA
147517 TTTAAAATAAATCAATCCATA-
62 TTTAAAATAAATCAATCCATAC
** * * * *
147538 TTTTAAA-A-TAAATCAATCCATACTAATAAGTCATTTAAAATAAATCAA-CACATAC-AACTAC
1 TAATAAATATTAAATAAATCAAT-C-CAT-A-T--TTTAAAATAAATCAATC-CATACTAA-TAA
147599 A--A--T--AATAAATCAATCCATA-
58 ATTATTTAAAATAAATCAATCCATAC
** * * *
147618 TTTTAAA-A-TAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-
1 TAATAAATATTAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAAT
147672 T-TTTAAAATAAATCAATCCATAC
60 TATTTAAAATAAATCAATCCATAC
*** * * * *
147695 TAATAAATTATTTAAAATAAATCAA-CACATACAACTACAAT-AATAAATCAAT-C-CAT--A-T
1 TAATAAA-TA-TT-AAATAAATCAATC-CATA-TTTTAAAATAAATCAATCCATACTAATAAATT
147753 -TTTAAAATAAATCAATCCATAC
61 ATTTAAAATAAATCAATCCATAC
* * ** * * *
147775 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATA
*
147837 -ATT-TTAAAAATAAATCAATCCATAC
57 AATTATTTAAAATAAATCAATCCATAC
* *
147862 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAGTCAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
147927 TTAAAATAAATCAA-CACATAC
63 TTAAAATAAATCAATC-CATAC
* *
147948 ----AACTA--CAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATAAATTATTTA
1 TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
148006 AAATAAATCAATCCATAC
66 AAATAAATCAATCCATAC
* ** **
148024 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA
1 TAATAAA-TA-TT-AAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
*
148088 --A--T-AAATCAATCAATCCATAC
59 TTATTTAAAATAAATCAATCCATAC
* ** * ** * ** **
148108 AAATAAATTATTTAAAATAAATCAA-CTCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-
1 TAATAAA-TA-TT-AAATAAATCAATC-CATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT
*
148169 TATTTTAAAATAAATCAATCTATAC
60 TA-TTTAAAATAAATCAATCCATAC
* *
148194 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
148259 TTAAAATAAATC-A---ATA-
63 TTAAAATAAATCAATCCATAC
* **
148275 T--T-AA-A-T-AATAAATTAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTT-
1 TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
148333 AAATAAATCAATCCATA
66 AAATAAATCAATCCATA
148350 TTTTAAAAAA
Statistics
Matches: 813, Mismatches: 84, Indels: 173
0.76 0.08 0.16
Matches are distributed among these distances:
71 9 0.01
72 51 0.06
74 3 0.00
75 4 0.00
76 51 0.06
77 50 0.06
78 3 0.00
79 4 0.00
80 192 0.24
81 40 0.05
82 31 0.04
83 5 0.01
84 56 0.07
85 35 0.04
86 149 0.18
87 106 0.13
88 4 0.00
89 20 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (83 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTA
AAATAAATCAATCCATAC
Found at i:147437 original size:14 final size:14
Alignment explanation
Indices: 147420--147473 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
147410 CAATCCATAC
147420 AAATAAATTATTTA
1 AAATAAATTATTTA
*
147434 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
147451 CTAATAAATTATTTA
1 -AAATAAATTATTTA
147466 AAATAAAT
1 AAATAAAT
147474 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:147500 original size:55 final size:54
Alignment explanation
Indices: 147286--147585 Score: 347
Period size: 54 Copynumber: 5.5 Consensus size: 54
147276 ACAACTACAA
147286 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
147340 TAATAAATTATTTAAAATAAATCAA-CACATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATC-CAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
147397 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
147452 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTT-AAAATAAATCAATCCATAC
147507 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
147561 TAATAAGTCATTTAAAATAAATCAA
1 TAATAAATTATTTAAAATAAATCAA
147586 CACATACAAC
Statistics
Matches: 203, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
53 1 0.00
54 93 0.46
55 66 0.33
56 10 0.05
57 13 0.06
58 20 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:147543 original size:22 final size:22
Alignment explanation
Indices: 147517--147559 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
147507 TAATAAATTA
147517 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
147539 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
147560 CTAATAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:147677 original size:22 final size:22
Alignment explanation
Indices: 147651--147693 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
147641 AAATAAATTA
147651 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
147673 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
147694 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:147702 original size:22 final size:22
Alignment explanation
Indices: 147653--147701 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
147643 ATAAATTATT
**
147653 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
147675 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
147698 TAAA
1 TAAA
147702 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:147711 original size:221 final size:215
Alignment explanation
Indices: 147297--148016 Score: 966
Period size: 221 Copynumber: 3.3 Consensus size: 215
147287 AATAAATTAT
147297 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
147362 CAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAA
66 CAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAA
* ** * * *
147427 TTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT-C-CAT--ATT-TT
131 TTATTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATT
*
147487 AAAAATAAATCAATCCATACTAATAAATTA
190 TAAAATAAATCAA-CCATAC-AATAAA--A
* *
147517 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAGTCATTTAAAATAAA
1 -TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
147582 TCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
65 TCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
147647 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
130 ATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAA
*
147712 TAAATCAACACATACAACTACAA
195 TAAATCAAC-CATACAA-TAAAA
*
147735 -T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
* *
147797 CAATC-TATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAAATAAATCAATCCAT
66 CAA-CACATAC-AACTACA--A--T--AATAAATCAATCCATATTTT-AAAATAAATCAATCCAT
* * *
147860 ACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAGTC
122 ACAAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
*
147925 ATTTAAAATAAATCAA-C--AC-ATACAA
187 ATTTAAAATAAATCAACCATACAATAAAA
* *
147950 CTACAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC-AATAAATTATTTAAAATAAAT
1 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
148014 CAA
66 CAA
148017 TCCATACTAA
Statistics
Matches: 462, Mismatches: 18, Indels: 42
0.89 0.03 0.08
Matches are distributed among these distances:
214 68 0.15
215 18 0.04
216 6 0.01
217 28 0.06
218 42 0.09
219 7 0.02
220 47 0.10
221 246 0.53
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.32
Consensus pattern (215 bp):
TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
CAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAA
TTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
AAATCAACCATACAATAAAA
Found at i:147792 original size:14 final size:14
Alignment explanation
Indices: 147775--147828 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
147765 CAATCCATAC
147775 AAATAAATTATTTA
1 AAATAAATTATTTA
*
147789 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
147806 CTAATAAATTATTTA
1 -AAATAAATTATTTA
147821 AAATAAAT
1 AAATAAAT
147829 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:147843 original size:54 final size:54
Alignment explanation
Indices: 147602--148273 Score: 637
Period size: 54 Copynumber: 12.2 Consensus size: 54
147592 CAACTACAAT
*
147602 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
147656 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
147710 AATAAATCAA-CACATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATC-CAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** ** *
147766 AATCCATACAAATAAAT-TATTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
147822 AATAAATCAATCCATATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTT-AAAATAAATCAATCCATACTAATAAATTATTTAA
* *
147877 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAGTCATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*** * ** * ** *
147931 AATAAATCAA-CACATACAACTACAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATC-CATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** **
147984 AATCCATACAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT-CAATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
148039 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* * *
148095 AATCAATCCATACAAATAAATTATTTAAAATAAATCAA-CTCATACTAATAAATTATTTAA
1 AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATC-CATACTAATAAATTATTTAA
*
148155 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
148209 AATAAATCAATCCATATTTTAAAGTAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
148263 AATAAATCAAT
1 AATAAATCAAT
148274 ATTAAATAAT
Statistics
Matches: 497, Mismatches: 88, Indels: 66
0.76 0.14 0.10
Matches are distributed among these distances:
53 25 0.05
54 258 0.52
55 91 0.18
56 20 0.04
57 28 0.06
58 54 0.11
59 12 0.02
60 9 0.02
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:147898 original size:22 final size:22
Alignment explanation
Indices: 147872--147914 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
147862 TAATAAATTA
147872 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
147894 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
147915 CTAATAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:147998 original size:22 final size:22
Alignment explanation
Indices: 147928--147998 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
147918 ATAAGTCATT
147928 TAAAATAAATCAA-CACATACAA
1 TAAAATAAATCAATC-CATACAA
* ***
147950 CTACAATAAATCAATCCATATTT
1 -TAAAATAAATCAATCCATACAA
147973 TAAAATAAATCAATCCATACAA
1 TAAAATAAATCAATCCATACAA
147995 TAAA
1 TAAA
147999 TTATTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
22 22 0.56
23 16 0.41
24 1 0.03
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAATAAATCAATCCATACAA
Found at i:148071 original size:355 final size:350
Alignment explanation
Indices: 147287--148364 Score: 1603
Period size: 355 Copynumber: 3.1 Consensus size: 350
147277 CAACTACAAT
147287 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-TA-T
147352 TAAAATAAATCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
64 T-AAATAAATCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
147417 TACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
128 TACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
147482 ATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
193 ATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
147547 AAATCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTACAATAATAAATCAA
258 AAATCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTAC-A-AATAAATCAA
147612 TCCATATTTTAAAATAAATCAATCCATACA
321 TCCATATTTTAAAATAAATCAATCCATACA
147642 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAA-TA-T
147707 TAAAATAAATCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
64 T-AAATAAATCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
147772 TACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
128 TACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
147837 ATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
193 ATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
147902 AAATCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTAC-AATAAATCAATC
258 AAATCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTACAAATAAATCAATC
147966 CATATTTTAAAATAAATCAATCCATAC-
323 CATATTTTAAAATAAATCAATCCATACA
*
147993 AATAAATTATTTAAAATAAATCAATCCATA--CT--AATAAAT---T--AT--T--TAAA-A-TA
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATATTA
* * ** *** *
148043 AATCAATCCATACA-ACTACAA-TA-ATA-AATCAATCCATAT-TTTAAAAT-AAATCAATCAAT
66 AATAAAT-CA-ACACA-TACAACTACA-ATAATAAAT-CA-ATCCATATTTTAAAATAAATCAAT
148102 CCATACAAATAAATTATTTAAAATAAATCAA-CTCATACTAATAAATTATTTAAAATAAATCAAT
125 CCATACAAATAAATTATTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAAT
*
148166 CCATATTTT-AAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTA
189 CCATATTTTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTA
* * * * * * *
148230 AAGTAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATA-TTA-AA-T---AATAAATT
254 AAATAAATCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTACAAATAAATC
** *
148289 AATCCATATTTTAAAATAAATCAATTTATACT
319 AATCCATATTTTAAAATAAATCAATCCATACA
148321 AATAAATTATTT-AAATAAATCAATCCATATTTT-AAA-AAATCAAT
1 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
148365 TATAATAAAT
Statistics
Matches: 689, Mismatches: 20, Indels: 51
0.91 0.03 0.07
Matches are distributed among these distances:
327 53 0.08
328 12 0.02
329 6 0.01
330 4 0.01
331 2 0.00
332 97 0.14
333 95 0.14
334 12 0.02
335 10 0.01
336 1 0.00
338 4 0.01
340 1 0.00
342 2 0.00
344 1 0.00
347 7 0.01
349 1 0.00
351 30 0.04
352 39 0.06
355 312 0.45
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (350 bp):
AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATATTA
AATAAATCAACACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATT
TTAAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAGTCATTTAAAATAAATCAACACATACAACTACAAATAAATCAATCCAT
ATTTTAAAATAAATCAATCCATACA
Found at i:148115 original size:26 final size:26
Alignment explanation
Indices: 147975--148115 Score: 81
Period size: 26 Copynumber: 5.0 Consensus size: 26
147965 CCATATTTTA
147975 AAATAAATCAATCCATAC-AATAAATTATTT
1 AAATAAATCAATCCATACAAAT-AA--A--T
*
148005 AAAATAAATCAATCCATACTAATAAATTATTT
1 -AAATAAATCAATCCATACAAAT-AA--A--T
*
148037 AAAATAAATCAATCCATACAACTACAAT
1 -AAATAAATCAATCCATACAAATA-AAT
***
148065 -AATAAATCAATCCATA-TTTTAAAAT
1 AAATAAATCAATCCATACAAAT-AAAT
*
148090 AAATCAATCAATCCATACAAATAAAT
1 AAATAAATCAATCCATACAAATAAAT
148116 TATTTAAAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.04
26 36 0.38
27 1 0.01
28 1 0.01
30 1 0.01
31 19 0.20
32 34 0.35
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATAAATCAATCCATACAAATAAAT
Found at i:148201 original size:22 final size:22
Alignment explanation
Indices: 148152--148200 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
148142 ATAAATTATT
**
148152 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
148174 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
148197 TAAA
1 TAAA
148201 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:148230 original size:22 final size:22
Alignment explanation
Indices: 148204--148313 Score: 78
Period size: 22 Copynumber: 4.7 Consensus size: 22
148194 TAATAAATTA
148204 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
148226 TTTAAAGTAAATCAATCTATACT
1 TTTAAAATAAATCAATCCATA-T
** * *
148249 AATAAATTATTTAAAATAAATCAATA-
1 TTTAAA--A--T-AAATCAATCCATAT
* *
148275 TTAAATAATAAATTAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
148298 TTTAAAATAAATCAAT
1 TTTAAAATAAATCAAT
148314 TTATACTAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
22 40 0.61
23 10 0.15
25 1 0.02
26 2 0.03
27 2 0.03
28 11 0.17
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:148293 original size:72 final size:71
Alignment explanation
Indices: 148209--148344 Score: 236
Period size: 72 Copynumber: 1.9 Consensus size: 71
148199 AATTATTTAA
*
148209 AATAAATCAATCCATATTTTAAAGTAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTT-AAATAAATCAAT
148274 ATTAAAT
65 ATTAAAT
* *
148281 AATAAATTAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAATAAATCAAT
148345 CCATATTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
71 12 0.20
72 49 0.80
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.38
Consensus pattern (71 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAATAAATCAATA
TTAAAT
Found at i:148346 original size:53 final size:46
Alignment explanation
Indices: 148280--148386 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 46
148270 CAATATTAAA
*
148280 TAATAAATTAATCCATATTTTAAAATAAATCAATTTATACTAATAAATTATT
1 TAATAAATCAATCCATATTTT-AAA-AAATCAA--T-TA-TAATAAATTATT
148332 TAAATAAATCAATCCATATTTTAAAAAATCAATTATAATAAATTATT
1 T-AATAAATCAATCCATATTTTAAAAAATCAATTATAATAAATTATT
148379 TAATAAAT
1 TAATAAAT
148387 TATTTTAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
46 7 0.13
47 13 0.25
48 2 0.04
49 1 0.02
51 7 0.13
52 4 0.08
53 19 0.36
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (46 bp):
TAATAAATCAATCCATATTTTAAAAAATCAATTATAATAAATTATT
Found at i:148384 original size:12 final size:12
Alignment explanation
Indices: 148367--148391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
148357 AAATCAATTA
148367 TAATAAATTATT
1 TAATAAATTATT
148379 TAATAAATTATT
1 TAATAAATTATT
148391 T
1 T
148392 TAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:148413 original size:29 final size:28
Alignment explanation
Indices: 148381--148476 Score: 94
Period size: 25 Copynumber: 3.4 Consensus size: 28
148371 AAATTATTTA
148381 ATAAATTATTTTAAAATAAATCAATCCTT
1 ATAAATTATTTTAAAATAAAT-AATCCTT
* *
148410 ATAATAATTTATTTTAAAAT-AATTAT-TTT
1 AT-A-AA-TTATTTTAAAATAAATAATCCTT
148439 AT-AATTATTTTAAAATAAATAA-CCTT
1 ATAAATTATTTTAAAATAAATAATCCTT
148465 ATTAAA-TATTTT
1 A-TAAATTATTTT
148477 TATTTTAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
25 12 0.21
26 9 0.16
27 7 0.12
28 2 0.04
29 6 0.11
30 3 0.05
31 5 0.09
32 12 0.21
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (28 bp):
ATAAATTATTTTAAAATAAATAATCCTT
Found at i:148454 original size:57 final size:59
Alignment explanation
Indices: 148372--148484 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 59
148362 AATTATAATA
148372 AATTATTTAATAAATTATTTTAAAATAAATCAATCCTTA-T-AATA-ATTTATTTTAAAAT
1 AATTATTTAATAAATTATTTTAAAATAAAT-AA-CCTTATTAAATATATTTATTTTAAAAT
* *
148430 AATTATTTTAT-AATTATTTTAAAATAAATAACCTTATTAAATATTTTTATTTTAA
1 AATTATTTAATAAATTATTTTAAAATAAATAACCTTATTAAATATATTTATTTTAA
148485 TAAATGTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
55 5 0.10
56 3 0.06
57 22 0.44
58 20 0.40
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (59 bp):
AATTATTTAATAAATTATTTTAAAATAAATAACCTTATTAAATATATTTATTTTAAAAT
Found at i:166120 original size:12 final size:12
Alignment explanation
Indices: 166103--166153 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
166093 TTCAAAGAGG
166103 TTTTATATTTAA
1 TTTTATATTTAA
166115 TTTTATA-TTATA
1 TTTTATATTTA-A
*
166127 TTTGAT-TTTAA
1 TTTTATATTTAA
166138 TTTTA-ATATTAA
1 TTTTATAT-TTAA
166150 TTTT
1 TTTT
166154 TAAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:166212 original size:63 final size:63
Alignment explanation
Indices: 166111--166269 Score: 256
Period size: 63 Copynumber: 2.6 Consensus size: 63
166101 GGTTTTATAT
*
166111 TTAA-TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAA-TTTTTAAATAAATTAAATA
1 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
166169 TTAATTTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
1 TTAA-TTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
166233 TTAATTTTTAATATTATATTATAGATATTTAATTTTA
1 TTAATTTTTAATATTATATTATAGATA-TTAATTTTA
166270 TATCATATAA
Statistics
Matches: 93, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
58 4 0.04
60 4 0.04
61 10 0.11
62 1 0.01
63 42 0.45
64 32 0.34
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (63 bp):
TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATA
Found at i:166215 original size:40 final size:37
Alignment explanation
Indices: 166165--166248 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 37
166155 AAATAAATTA
*
166165 AATATTAATTTTTTAATATTATATTATAGATATTAA-TTTT
1 AATATTAATTTTTTAA-A-TAAATTA-A-ATATTAATTTTT
166205 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
1 AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
166242 AATATTA
1 AATATTA
166249 TATTATAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 7 0.17
37 12 0.29
38 6 0.14
39 1 0.02
40 16 0.38
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
AATATTAATTTTTTAAATAAATTAAATATTAATTTTT
Found at i:166265 original size:21 final size:20
Alignment explanation
Indices: 166176--166272 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 20
166166 ATATTAATTT
166176 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
* * *
166197 -TTAATTTTAATATTA-ATTT
1 TTTAATATT-ATATTATAATA
* *
166216 TTTAAATAAATTA-AATATTAATT
1 TTT-AAT--ATTATATTA-TAATA
166239 TTTAATATTATATTATAGATA
1 TTTAATATTATATTATA-ATA
*
166260 TTTAATTTTATAT
1 TTTAATATTATAT
166273 CATATAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
19 1 0.02
20 16 0.28
21 29 0.50
22 4 0.07
23 8 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTAATATTATATTATAATA
Found at i:166310 original size:63 final size:61
Alignment explanation
Indices: 166113--166314 Score: 195
Period size: 63 Copynumber: 3.3 Consensus size: 61
166103 TTTTATATTT
* *
166113 AATTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTAAATAAATTAAATATTAA
1 AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAAATT-AATA-TAA
** *
166173 TTTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTA
1 AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AATAAATT-AATATAA
* *
166236 ATTTTTAATATTATATTATAGATATTTAATTTTATATCATATAAATTATTTT-ATATATT-AT-T
1 AATTTTAATATTATATTATAGATA-TTAATTTTA-AT-AT-T-AATT-TTTTAATAAATTAATAT
166298 AA
60 AA
166300 AATTTT-ATATT-TATT
1 AATTTTAATATTATATT
166315 TTAATTATTT
Statistics
Matches: 123, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
60 4 0.03
61 10 0.08
62 5 0.04
63 54 0.44
64 29 0.24
65 4 0.03
66 2 0.02
67 7 0.06
68 4 0.03
69 4 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (61 bp):
AATTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAATAAATTAATATAA
Found at i:166324 original size:20 final size:19
Alignment explanation
Indices: 166264--166325 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
166254 TAGATATTTA
*
166264 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
166283 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
166301 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
166321 ATTTT
1 ATTTT
166326 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:166857 original size:19 final size:19
Alignment explanation
Indices: 166833--166891 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
166823 AACCGAAACT
166833 GGTTTTTTTGGTTCGGTTC
1 GGTTTTTTTGGTTCGGTTC
**
166852 GGTTTTTTT--AACGGTTC
1 GGTTTTTTTGGTTCGGTTC
* *
166869 GGGTTTTTCGGTTCGGTTC
1 GGTTTTTTTGGTTCGGTTC
166888 GGTT
1 GGTT
166892 CGGTTTATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 13 0.42
19 18 0.58
ACGTcount: A:0.03, C:0.12, G:0.32, T:0.53
Consensus pattern (19 bp):
GGTTTTTTTGGTTCGGTTC
Found at i:167263 original size:31 final size:31
Alignment explanation
Indices: 167226--167285 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
167216 TAGTTGTATG
* *
167226 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
167257 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
167286 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:175104 original size:22 final size:23
Alignment explanation
Indices: 175077--175127 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
175067 GAATGATCGC
175077 ATAGATGAGTCCCGAAGG-CCAT
1 ATAGATGAGTCCCGAAGGACCAT
** *
175099 ATAGATTTGTTCCGAAGGACCAT
1 ATAGATGAGTCCCGAAGGACCAT
175122 ATAGAT
1 ATAGAT
175128 TTGTCGCGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (23 bp):
ATAGATGAGTCCCGAAGGACCAT
Found at i:175125 original size:23 final size:22
Alignment explanation
Indices: 175088--175149 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
175078 TAGATGAGTC
175088 CCGAAGG-CCATATAGATTTGTT
1 CCGAAGGACCATATAGATTTG-T
175110 CCGAAGGACCATATAGATTTGT
1 CCGAAGGACCATATAGATTTGT
* *
175132 CGCGAAGAACCACATAGA
1 C-CGAAGGACCATATAGA
175150 ACCATCGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 9 0.25
23 27 0.75
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (22 bp):
CCGAAGGACCATATAGATTTGT
Found at i:175855 original size:32 final size:32
Alignment explanation
Indices: 175814--175876 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
175804 TCTAAAGTGA
* *
175814 CCTTGGGTAGGCTCTTAGG-TCCCAAGGTACTC
1 CCTTGGGTAGGATCTAAGGCT-CCAAGGTACTC
175846 CCTTGGGTAGGATCTAAGGCTCCAAGGTACT
1 CCTTGGGTAGGATCTAAGGCTCCAAGGTACT
175877 TCTTTAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGATCTAAGGCTCCAAGGTACTC
Found at i:177858 original size:21 final size:22
Alignment explanation
Indices: 177828--177868 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
177818 TGGTTATTAT
*
177828 TGGAGGAAAGTAGA-GAAAATA
1 TGGAGAAAAGTAGAGGAAAATA
177849 TGGAGAAAAGTAGAGGAAAA
1 TGGAGAAAAGTAGAGGAAAA
177869 GAAGTAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.34, T:0.12
Consensus pattern (22 bp):
TGGAGAAAAGTAGAGGAAAATA
Found at i:182893 original size:29 final size:29
Alignment explanation
Indices: 182851--182914 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
182841 AACAATTTAA
* * *
182851 AATATTTTTTATAATAAAGAGATTAAATT
1 AATATATTTAATAATAAAGAAATTAAATT
* *
182880 AATATATTTAATAATGAATAAATTAAATT
1 AATATATTTAATAATAAAGAAATTAAATT
182909 AATATA
1 AATATA
182915 ATTATTAGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (29 bp):
AATATATTTAATAATAAAGAAATTAAATT
Found at i:183953 original size:22 final size:22
Alignment explanation
Indices: 183912--183953 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
183902 AGTTTAGGGG
*
183912 TTAAAATTTTTTTACCTTTTCA
1 TTAAAATTTTTTTACATTTTCA
* *
183934 TTAAACTTTTTTTATATTTT
1 TTAAAATTTTTTTACATTTT
183954 TAATTTTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (22 bp):
TTAAAATTTTTTTACATTTTCA
Found at i:184027 original size:37 final size:36
Alignment explanation
Indices: 183952--184027 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
183942 TTTTTATATT
*
183952 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
183988 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
184025 TTT
1 TTT
184028 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:185025 original size:21 final size:21
Alignment explanation
Indices: 184999--185045 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
184989 GCGTTTGGTT
*
184999 GAGAAAAATGGAAGCTTCGAA
1 GAGAAAAATGAAAGCTTCGAA
* *
185020 GAGAAAGATGAAAGCTTTGAA
1 GAGAAAAATGAAAGCTTCGAA
185041 GAGAA
1 GAGAA
185046 TGGGGTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.30, T:0.15
Consensus pattern (21 bp):
GAGAAAAATGAAAGCTTCGAA
Found at i:191347 original size:43 final size:41
Alignment explanation
Indices: 191228--191421 Score: 218
Period size: 39 Copynumber: 4.7 Consensus size: 41
191218 TAAATGTGTA
191228 ATATTTAGCCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
1 ATATTTA-CCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
* *** *
191270 TTATTTA-CAAATATT-TTTTGTTAAATGATATTGTTGAGT
1 ATATTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
191309 AATATTTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
1 -ATA-TTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
* * * *
191352 TTAATTA-C-AGTTATT-TTTTGTTAAATGATATTGTTGAGT
1 ATATTTACCTCG-TATTGTTCTGTTAAATGATATTGTTGAGT
191391 GATAATTTACCTCGTATTGTTCTGTTAAATG
1 -AT-ATTTACCTCGTATTGTTCTGTTAAATG
191422 TGTATATCGG
Statistics
Matches: 124, Mismatches: 18, Indels: 19
0.77 0.11 0.12
Matches are distributed among these distances:
39 47 0.38
40 13 0.10
41 11 0.09
42 18 0.15
43 35 0.28
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (41 bp):
ATATTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGT
Found at i:191367 original size:82 final size:81
Alignment explanation
Indices: 191225--191421 Score: 331
Period size: 82 Copynumber: 2.4 Consensus size: 81
191215 ATATAAATGT
*
191225 GTAATATTTAGCCTCGTATTGTTCTGTTAAATGATATTGTTGAGTTTATTTACAAATATTTTTTG
1 GTAATATTTA-CCTCGTATTGTTCTGTTAAATGATATTGTTGAGTTTAATTACAAATATTTTTTG
191290 TTAAATGATATTGTTGA
65 TTAAATGATATTGTTGA
**
191307 GTAATATTTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGTTTAATTACAGTTATTTTTTG
1 GTAATA-TTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGTTTAATTACAAATATTTTTTG
191372 TTAAATGATATTGTTGA
65 TTAAATGATATTGTTGA
*
191389 GTGATAATTTACCTCGTATTGTTCTGTTAAATG
1 GTAAT-ATTTACCTCGTATTGTTCTGTTAAATG
191422 TGTATATCGG
Statistics
Matches: 109, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
82 104 0.95
83 5 0.05
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (81 bp):
GTAATATTTACCTCGTATTGTTCTGTTAAATGATATTGTTGAGTTTAATTACAAATATTTTTTGT
TAAATGATATTGTTGA
Found at i:192862 original size:30 final size:30
Alignment explanation
Indices: 192828--192896 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
192818 AACAGAGATA
* * *
192828 TAATCTCATACAAATGTCAGAATGGAT-AAT
1 TAATCCCATACAAATATCAGAACGG-TGAAT
*
192858 TAATCCCATACATATATCAGAACGGTGAAT
1 TAATCCCATACAAATATCAGAACGGTGAAT
192888 TAATCCCAT
1 TAATCCCAT
192897 GTAGATGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (30 bp):
TAATCCCATACAAATATCAGAACGGTGAAT
Found at i:192945 original size:30 final size:30
Alignment explanation
Indices: 192855--192945 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
192845 CAGAATGGAT
* * * *
192855 AATTAATCCCATACATATATCAGAACGGTG
1 AATTAATCCCATGCATGTGTCAGAACGGGG
* * *
192885 AATTAATCCCATGTA-GATGTCTGAATGGGG
1 AATTAATCCCATGCATG-TGTCAGAACGGGG
192915 AATTAATCCCATGCATGTGTCAGAACGGGG
1 AATTAATCCCATGCATGTGTCAGAACGGGG
192945 A
1 A
192946 CTAAGCACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 48 0.98
31 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (30 bp):
AATTAATCCCATGCATGTGTCAGAACGGGG
Found at i:196633 original size:30 final size:30
Alignment explanation
Indices: 196583--196665 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 30
196573 GAACGGAGAT
* *
196583 TTAATCTCATACAG-TGTCAGAA-TAGGAAA
1 TTAATCACATGCAGATGTCAGAACT-GGAAA
*
196612 TTAATCACATGCAGATGTCAGAACTGGGAA
1 TTAATCACATGCAGATGTCAGAACTGGAAA
*
196642 TTAATCCCATGCAGATGTCAGAAC
1 TTAATCACATGCAGATGTCAGAAC
196666 AGAGACTAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
29 12 0.25
30 35 0.73
31 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (30 bp):
TTAATCACATGCAGATGTCAGAACTGGAAA
Found at i:197280 original size:19 final size:19
Alignment explanation
Indices: 197238--197284 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
197228 GGTCTTCAAA
**
197238 AAAAGTCAACGGTCATCGG
1 AAAAGTCAACGGTCAAAGG
*
197257 AAAAGTCAACGGTCAAAGT
1 AAAAGTCAACGGTCAAAGG
*
197276 CAAAGTCAA
1 AAAAGTCAA
197285 TGGGTTGGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.19, G:0.21, T:0.15
Consensus pattern (19 bp):
AAAAGTCAACGGTCAAAGG
Found at i:199879 original size:14 final size:13
Alignment explanation
Indices: 199860--200042 Score: 93
Period size: 14 Copynumber: 13.9 Consensus size: 13
199850 AATATTTTTA
199860 AATGATTTAATGAT
1 AATGATTTAAT-AT
199874 AATGATTTAATAAT
1 AATGATTTAAT-AT
*
199888 AATTATTAATAATGATTT
1 AATGATT--TAAT-A--T
199906 AATGATTTAAATAT
1 AATGATTT-AATAT
*
199920 AACGATTTAATACT
1 AATGATTTAATA-T
199934 AATGATTTAATA-
1 AATGATTTAATAT
* *
199946 AA--AATTACTAAT
1 AATGATTTAAT-AT
* *
199958 AACGGTTTAATACT
1 AATGATTTAATA-T
199972 AATGATTTAATCAT
1 AATGATTTAAT-AT
199986 AAT-A--T--T-T
1 AATGATTTAATAT
199993 AATGATTTAATATT
1 AATGATTTAATA-T
200007 AATGATTT-A-AT
1 AATGATTTAATAT
*
200018 AATGA-TTACTAAT
1 AATGATTTAAT-AT
200031 AATGATTTAATA
1 AATGATTTAATA
200043 ATGATTACTA
Statistics
Matches: 131, Mismatches: 15, Indels: 47
0.68 0.08 0.24
Matches are distributed among these distances:
7 4 0.03
8 1 0.01
9 1 0.01
10 8 0.06
11 8 0.06
12 6 0.05
13 15 0.11
14 70 0.53
15 1 0.01
16 7 0.05
17 3 0.02
18 7 0.05
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (13 bp):
AATGATTTAATAT
Found at i:199968 original size:38 final size:38
Alignment explanation
Indices: 199918--200042 Score: 157
Period size: 38 Copynumber: 3.4 Consensus size: 38
199908 TGATTTAAAT
*
199918 ATAACGATTTAATACTAATGATTTAATAAAAATTACTA
1 ATAACGATTTAATACTAATGATTTAATAATAATTACTA
* *
199956 ATAACGGTTTAATACTAATGATTTAATCATAA-TA-T-
1 ATAACGATTTAATACTAATGATTTAATAATAATTACTA
* * * *
199991 TTAATGATTTAATATTAATGATTTAATAATGATTACTA
1 ATAACGATTTAATACTAATGATTTAATAATAATTACTA
*
200029 ATAATGATTTAATA
1 ATAACGATTTAATA
200043 ATGATTACTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 26 0.35
36 3 0.04
37 3 0.04
38 42 0.57
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (38 bp):
ATAACGATTTAATACTAATGATTTAATAATAATTACTA
Found at i:199996 original size:21 final size:22
Alignment explanation
Indices: 199971--200041 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 22
199961 GGTTTAATAC
199971 TAATGATTTAATCA-TAAT-ATT
1 TAATGATTTAAT-ATTAATGATT
199992 TAATGATTTAATATTAATGATT
1 TAATGATTTAATATTAATGATT
* * *
200014 TAATAATGATTACTAATAATGATT
1 TAATGAT--TTAATATTAATGATT
200038 TAAT
1 TAAT
200042 AATGATTACT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.02
21 16 0.37
22 9 0.21
24 17 0.40
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (22 bp):
TAATGATTTAATATTAATGATT
Done.