Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014470.1 Kokia drynarioides strain JFW-HI SEQ_129509, 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: 254776
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Warning! 63 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:125 original size:3 final size:3
Alignment explanation
Indices: 117--159 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
107 TTAATTAATG
*
117 TTA TTA TTA ATA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
160 ATGTCATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:168 original size:12 final size:12
Alignment explanation
Indices: 110--159 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
100 TTCTTTTTTA
*
110 ATTAATGTTATT
1 ATTAATATTATT
122 ATTAATATTATTT
1 ATTAATATTA-TT
*
135 ATTATTATTATT
1 ATTAATATTATT
*
147 ATTATTATTATT
1 ATTAATATTATT
159 A
1 A
160 ATGTCATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 24 0.69
13 11 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
ATTAATATTATT
Found at i:874 original size:13 final size:13
Alignment explanation
Indices: 856--881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
846 TTGGGCTTGA
856 TTTGTAATTGGAC
1 TTTGTAATTGGAC
869 TTTGTAATTGGAC
1 TTTGTAATTGGAC
882 ATTATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTGTAATTGGAC
Found at i:1800 original size:205 final size:203
Alignment explanation
Indices: 1312--2101 Score: 1032
Period size: 205 Copynumber: 3.8 Consensus size: 203
1302 TTTGTGTTTC
** * * * *
1312 ATCAGGAAGACGGATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCCAACCATTTTATTGTTTC
1 ATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACC-TTTTATTGCTTC
* *
1377 GACTTGCTTCTCAGTATCTCATCAGGTAGCTGGGGTTCGAAGATTTGCTCACATCGAG-TGCAGG
65 GACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAGCTG--GG
*
1441 TTTGA-TTCGGTCTTCTTCTCAGTATCTCATCAGGAAGATGAC-CGTATCGCTTTGTTTCAATCC
128 TTTGACTT-GGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTCG--TCG-TTTGTTTCAATTC
*
1504 GCTTCTCTGTATCTC
189 GCTTCTCTGTATCTT
* * * * *
1519 ATCAGGAAGACGAACTTGGTCCACTTCTCCA-TATCTTATTAGGAAGCTATCCTTTTATTGCTTC
1 ATCAGGAAGACAAATTTGGTCCACTTCT-CAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTC
* * * * *
1583 GACCTGCTTCTCAGTGTCTCATCAGGAAGCTAGGGTTTGACGATTTGCTAACATCGAGCATGGGT
65 GACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAGC-TGGGT
* *
1648 TTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTACGTCGTTTGTTTCAATTTGCCT
129 TTGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT-CGTCGTTTGTTTCAATTCGCTT
1713 CTCTGTATCTT
193 CTCTGTATCTT
*
1724 ATCAGGAAGACAAATTTGATCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG
1 ATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG
* *
1789 ACTTGCTTCTCAGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAGCGTGGGCT
66 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAGC-TGGGTT
1854 TGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTTC
130 TGACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT-CGTCGTTTGTTTCAATTCGCTTC
1919 TCTGTATCTT
194 TCTGTATCTT
** * * *
1929 ATCAGGAAGACAAATTTGGTCTGCTTCTTAGTATCTCATCAGGAAGCTAACATTTTATTGCTTCA
1 ATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG
* * * * * * **
1994 ACTTGCTTCTCAATATCTCATCAGGAAGTTGGAGTTTGAATATTTGCTCACATCGAGCCTCGTTT
66 ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAG-CT-GGGT
* *
2059 CATTTATTTGGT-TTACTTCTCAGTATCTCATCAGGAAGATGAC
129 --TTGACTTGGTCTT-CTTCTCAGTATCTCATCAGGAAGATGAC
2102 CGCATCGTTG
Statistics
Matches: 518, Mismatches: 53, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
204 2 0.00
205 321 0.62
206 108 0.21
207 46 0.09
208 41 0.08
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (203 bp):
ATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCG
ACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTAACATCGAGCTGGGTTT
GACTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTCGTCGTTTGTTTCAATTCGCTTCTC
TGTATCTT
Found at i:8894 original size:17 final size:18
Alignment explanation
Indices: 8872--8917 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
8862 AACTTTATTT
*
8872 ATTTTAAATTT-ATAATA
1 ATTTTAAATTTGAAAATA
8889 ATTTTAAATTTGAAAATA
1 ATTTTAAATTTGAAAATA
*
8907 AATTTAAATTT
1 ATTTTAAATTT
8918 TTGAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTTAAATTTGAAAATA
Found at i:8912 original size:18 final size:17
Alignment explanation
Indices: 8874--8949 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 17
8864 CTTTATTTAT
* *
8874 TTTAAATTTATAATAAT
1 TTTAAATTTAAAATAAA
8891 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
** *
8909 TTTAAATTTTTGAACAAA
1 TTTAAA-TTTAAAATAAA
*
8927 TTT-AATCCTAAAATAAA
1 TTTAAAT-TTAAAATAAA
8944 TTTAAA
1 TTTAAA
8950 ATGAGTTTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
16 1 0.02
17 20 0.43
18 22 0.48
19 3 0.07
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:9699 original size:205 final size:205
Alignment explanation
Indices: 9278--9933 Score: 913
Period size: 205 Copynumber: 3.2 Consensus size: 205
9268 TCTGGTTTCA
* * * * * * ** **
9278 TTGACTTGGCCTTCTTCTCAGTATCTCATCAGAAAGGTGGCTGCATCACTTGTTTTGA-TC-CAT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGC-T
* * * *
9341 TCCTCTGTGTTTCATCAGGAAGACGAATTTGGTTCACTTCTCCGTATCTCATCAGGGAGCTAACC
65 T-CTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACC
* * * * *
9406 ACTTTATTGCTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGTTGGGGTTCGAAGATTTGCTCAT
129 -CTTTATTGCTTCGCCCTGCTTCTCCGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCAC
9471 ATCGGGCGTGAGT
193 ATCGGGCGTGAGT
*
9484 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTTGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTT
* *
9549 CTCTGTATCTCATCAAGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCCT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCCT
* * *
9614 TTATTGCTTTGCCCTGTTTCTCCGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACATT
131 TTATTGCTTCGCCCTGCTTCTCCGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACATC
9679 GGGCGTGAGT
196 GGGCGTGAGT
*
9689 TTGATTTGGTCTTATTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTT
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTT
* * * *
9754 CTCTATAGCTCATCAGGAAGACAAATTTGGTTCACTTCTCAGTATCTCATCAGGAAACTAA-CCT
66 CTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCCT
* * * * **
9818 CTTATTGCTTCACCTTGCTTCTCCGTATCTTATCAGGAAGCTAAGGTTCGAAGATTTGCTCACAT
131 -TTATTGCTTCGCCCTGCTTCTCCGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACAT
*
9883 CGGGCATGAGT
195 CGGGCGTGAGT
*
9894 TTGATTTGGTCTCCTTCTCAGTATCTCATCAGGAAGATGA
1 TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGA
9934 TCGTATCGCT
Statistics
Matches: 402, Mismatches: 45, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
204 3 0.01
205 290 0.72
206 105 0.26
207 3 0.01
208 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (205 bp):
TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCGTCGTTTGTTTCAATTCGCTT
CTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCAGGAAGCTAACCCT
TTATTGCTTCGCCCTGCTTCTCCGTATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACATC
GGGCGTGAGT
Found at i:17263 original size:28 final size:28
Alignment explanation
Indices: 17232--17292 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
17222 AAAATAAGAC
17232 TTTTTGGATATCCT-GGGC-AAAATGGTAA
1 TTTTTGGAT-T-CTAGGGCAAAAATGGTAA
17260 -TTTTGGATTCTAGGGGCAAAAATGGTAA
1 TTTTTGGATTCTA-GGGCAAAAATGGTAA
17288 TTTTT
1 TTTTT
17293 TAAAATTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 2 0.07
26 1 0.03
27 12 0.41
28 10 0.34
29 4 0.14
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (28 bp):
TTTTTGGATTCTAGGGCAAAAATGGTAA
Found at i:17370 original size:29 final size:30
Alignment explanation
Indices: 17327--17566 Score: 228
Period size: 30 Copynumber: 8.1 Consensus size: 30
17317 ATTTTAAGAG
* * *
17327 GTTCGA-GGTCGAAAATAGAGA-TTTTAGAG
1 GTTCGAGGGTCAAAAATAGA-ATTTTTGGAA
* *
17356 GTTCGAGGGTAAAAAATGGAATTTTTGGAA
1 GTTCGAGGGTCAAAAATAGAATTTTTGGAA
*
17386 GTTTCG-GGGTCAAAAATAGGATTTTTGGAA
1 G-TTCGAGGGTCAAAAATAGAATTTTTGGAA
* *
17416 GTTTG-GGAGTCAAAAATGGAATTTTTGGAA
1 GTTCGAGG-GTCAAAAATAGAATTTTTGGAA
* *
17446 GTTTC-AAGGTCAAAAATAGGATTTTTGGAA
1 G-TTCGAGGGTCAAAAATAGAATTTTTGGAA
*
17476 GTTCGAGGGT-AAAAATGGAATTTTTGGAA
1 GTTCGAGGGTCAAAAATAGAATTTTTGGAA
** * *
17505 GTTTTAGGGTTAAAAATA-AGATTTTTGAAA
1 GTTCGAGGGTCAAAAATAGA-ATTTTTGGAA
17535 GTTC-AGGGT-AAAAATAGAATTTTTGGATA
1 GTTCGAGGGTCAAAAATAGAATTTTTGGA-A
17564 GTT
1 GTT
17567 TAGGGACCTA
Statistics
Matches: 176, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
28 15 0.09
29 51 0.29
30 103 0.59
31 7 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (30 bp):
GTTCGAGGGTCAAAAATAGAATTTTTGGAA
Found at i:17402 original size:60 final size:59
Alignment explanation
Indices: 17332--17567 Score: 298
Period size: 60 Copynumber: 4.0 Consensus size: 59
17322 AAGAGGTTCG
* * * *
17332 AGGTCGAAAATAGAGA-TTTTAGAGGTTCGAGGGTAAAAAATGGAATTTTTGGAAGTTTCG
1 AGGTCAAAAATAG-GATTTTTGGAAGTTCGAGGGT-AAAAATGGAATTTTTGGAAGTTTCA
* *
17392 GGGTCAAAAATAGGATTTTTGGAAGTTTG-GGAGTCAAAAATGGAATTTTTGGAAGTTTCA
1 AGGTCAAAAATAGGATTTTTGGAAGTTCGAGG-GT-AAAAATGGAATTTTTGGAAGTTTCA
*
17452 AGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTTA
1 AGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCA
* * * * *
17511 GGGTTAAAAATAAGATTTTTGAAAGTTC-AGGGTAAAAATAGAATTTTTGGATAGTTT
1 AGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGA-AGTTT
17568 AGGGACCTAC
Statistics
Matches: 157, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
58 22 0.14
59 57 0.36
60 76 0.48
61 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (59 bp):
AGGTCAAAAATAGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTCA
Found at i:19301 original size:17 final size:17
Alignment explanation
Indices: 19279--19323 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
19269 AACTTTACTT
*
19279 ATTTTAAATTTATAATA
1 ATTTTAAATTTAAAATA
19296 ATTTTAAATTTAAAATA
1 ATTTTAAATTTAAAATA
*
19313 AATTTAAATTT
1 ATTTTAAATTT
19324 TTGAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTTAAAATA
Found at i:22817 original size:96 final size:96
Alignment explanation
Indices: 22640--22824 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 96
22630 GAAAAGGATG
** *
22640 TTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAGGGCGCAAATTTTCAGAATCAA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCAA
*
22705 AGATAAGGAAACATTGCCTCGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
* *
22736 TTCGATTATTTCGATTTGTAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTC-GAAACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TC
*
22800 AAA-ATAAA-AGAATATTGCCTCGATT
64 AAAGATAAAGA-AACATTGCCTCGATT
22825 TTAAAGTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
95 2 0.03
96 72 0.91
97 5 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCAA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:23306 original size:117 final size:116
Alignment explanation
Indices: 23082--23424 Score: 310
Period size: 117 Copynumber: 3.0 Consensus size: 116
23072 TGGATTTTCG
* * * *
23082 AGGG-CAAAATGGTAATTTTGGGAAAG-TTCAGGGTTAAAAATGGAATTTTTAGACATTCGAGGG
1 AGGGACAAAATGGTAATTTT-TGAAAGTTTTAGGGTT-AAAATGGAATTTTTGGAAATTCGAGGG
* * *
23145 T-AAAAGGGTAA-TTTT-GAGAGTTTAAAGGTCGAAAATGGAGTTTTTGGACATCC
64 TAAAAATGG-AATTTTTGGA-AGTTTAGAGGTC-AAAATGGATTTTTTGGACATCC
* * ** *
23198 AGGGACAAAATGGTAATTTTTGAAAGTTTTGGGGTTAAAATGGAAATTTTGGAGGTTCGGGGGTA
1 AGGGACAAAATGGTAATTTTTGAAAGTTTTAGGGTTAAAATGGAATTTTTGGAAATTCGAGGGTA
* ** ** *
23263 AAAATGGAATTTTTGGAAGTTTCGAGGTCAAAATGGAATTTTTTTAAGTTCG
66 AAAATGGAATTTTTGGAAGTTTAGAGGTCAAAATGG-ATTTTTTGGACATCC
* * * * *
23315 AGGGTA-AAAATGG-AATATTTGGAAGTTTTTGGGTCAAAAATGGAATTTTTGAAAACTT--AGG
1 AGGG-ACAAAATGGTAATTTTTGAAAGTTTTAGGGT-TAAAATGGAATTTTTGGAAA-TTCGAGG
*
23376 GTAAAAAATGGAATTTTTGGAAGTTTAG-GGTAAAAATGGATTTTTTGGA
63 GT-AAAAATGGAATTTTTGGAAGTTTAGAGGTCAAAATGGATTTTTTGGA
23425 AGTTTCAAGG
Statistics
Matches: 187, Mismatches: 30, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
115 8 0.04
116 73 0.39
117 101 0.54
118 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.33
Consensus pattern (116 bp):
AGGGACAAAATGGTAATTTTTGAAAGTTTTAGGGTTAAAATGGAATTTTTGGAAATTCGAGGGTA
AAAATGGAATTTTTGGAAGTTTAGAGGTCAAAATGGATTTTTTGGACATCC
Found at i:23469 original size:29 final size:29
Alignment explanation
Indices: 23059--23479 Score: 271
Period size: 29 Copynumber: 14.4 Consensus size: 29
23049 CCTGGGGGGC
** *
23059 AAAATGGTAA-TTTTGGATTTTCGAGGG-C
1 AAAATGG-AATTTTTGGAAGTTCGAGGGTA
*
23087 AAAATGGTAATTTTGGGAAAGTTC-AGGGTTA
1 AAAATGG-AATTTTTGG-AAGTTCGAGGG-TA
*
23118 AAAATGGAATTTTTAGACA-TTCGAGGGT-
1 AAAATGGAATTTTTGGA-AGTTCGAGGGTA
* ** * *
23146 AAAAGGGTAA-TTTT-GAGAGTTTAAAGGTCG
1 AAAATGG-AATTTTTGGA-AGTTCGAGGGT-A
* *
23176 AAAATGGAGTTTTTGGACA--TCCAGGG-A
1 AAAATGGAATTTTTGGA-AGTTCGAGGGTA
* * *
23203 CAAAATGGTAATTTTTGAAAGTTTTG-GGGTT
1 -AAAATGG-AATTTTTGGAAG-TTCGAGGGTA
* * *
23234 AAAATGGAAATTTTGGAGGTTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
*
23263 AAAATGGAATTTTTGGAAGTTTCGA-GGTC
1 AAAATGGAATTTTTGGAAG-TTCGAGGGTA
**
23292 AAAATGGAATTTTTTTAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* ***
23321 AAAATGGAATATTTGGAAGTTTTTGGGTCA
1 AAAATGGAATTTTTGGAAGTTCGAGGGT-A
* *
23351 AAAATGGAATTTTTGAAAACTT--AGGGTAA
1 AAAATGGAATTTTTG-GAAGTTCGAGGGT-A
*
23380 AAAATGGAATTTTTGGAAGTT-TAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
23408 AAAATGGATTTTTTGGAAGTTTC-AAGGTCA
1 AAAATGGAATTTTTGGAAG-TTCGAGGGT-A
*
23438 AAAATGGAATTTTTTGAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTCGAGGGTA
* *
23467 AAAACGTAATTTT
1 AAAATGGAATTTT
23480 CAGACAGTTT
Statistics
Matches: 310, Mismatches: 55, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.01
28 65 0.21
29 150 0.48
30 77 0.25
31 15 0.05
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:24255 original size:3 final size:3
Alignment explanation
Indices: 24247--24283 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
24237 TTAATTAATG
*
24247 TTA TTA TTA ATA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
24284 ATGTCATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:25027 original size:6 final size:6
Alignment explanation
Indices: 25016--25081 Score: 59
Period size: 6 Copynumber: 11.5 Consensus size: 6
25006 ATTATTTAAA
* *
25016 TAAATT TAAATT TAAATT TATAA-- TAAATT TAAATT TAAA-A TAAACT
1 TAAATT TAAATT TAAATT TA-AATT TAAATT TAAATT TAAATT TAAATT
* *
25062 TAATTT TAAA-A TAAATT TAA
1 TAAATT TAAATT TAAATT TAA
25082 TTCTGTTGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.04
5 10 0.21
6 34 0.71
7 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:25044 original size:23 final size:22
Alignment explanation
Indices: 25009--25054 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 22
24999 ATTGGACATT
25009 ATTTAAATAAATTTAAATTTAA
1 ATTTAAATAAATTTAAATTTAA
25031 ATTTATAATAAATTTAAATTTAA
1 ATTTA-AATAAATTTAAATTTAA
25054 A
1 A
25055 ATAAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTTAAATAAATTTAAATTTAA
Found at i:25083 original size:17 final size:17
Alignment explanation
Indices: 25022--25081 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
25012 TAAATAAATT
*
25022 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
25039 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
25056 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
25073 TAAATTTAA
1 TAAATTTAA
25082 TTCTGTTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:28389 original size:37 final size:34
Alignment explanation
Indices: 28348--28454 Score: 101
Period size: 37 Copynumber: 2.9 Consensus size: 34
28338 AAGATGAACA
28348 TTAAATTAAATTAAATT-TTAAAATAATCATTTTAATA
1 TTAAATTAAATTAAATTATTAAAATAAT-A--TTAA-A
* *
28385 TTAAATT-AATAAAATACTCTTAAAATAAGTATTAAA
1 TTAAATTAAATTAAAT--TATTAAAATAA-TATTAAA
28421 TTAAATTTAATATTAAATTATTAAAATAATATTA
1 TTAAA-TTAA-ATTAAATTATTAAAATAATATTA
28455 TTTTTGAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 18 0.30
37 23 0.38
38 2 0.03
39 16 0.27
40 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (34 bp):
TTAAATTAAATTAAATTATTAAAATAATATTAAA
Found at i:33630 original size:25 final size:25
Alignment explanation
Indices: 33593--33689 Score: 95
Period size: 27 Copynumber: 3.7 Consensus size: 25
33583 TTTGATTTCA
* * *
33593 GCTCGTAAAAGCGTAATTTCGTTTG
1 GCTCATAAGAGCGTAATTTAGTTTG
*
33618 GCTCATAAGAGCGTAATTTTGATTTTG
1 GCTCATAAGAGCGTAA-TTT-AGTTTG
*
33645 GCTCGTAAGAGCGTAATTCTAGTTCTG
1 GCTCATAAGAGCGTAATT-TAGTT-TG
* *
33672 GGTCACAAGAGCGTAATT
1 GCTCATAAGAGCGTAATT
33690 CTATCTTGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
25 14 0.24
26 8 0.14
27 37 0.63
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (25 bp):
GCTCATAAGAGCGTAATTTAGTTTG
Found at i:33640 original size:52 final size:54
Alignment explanation
Indices: 33583--33689 Score: 146
Period size: 52 Copynumber: 2.0 Consensus size: 54
33573 ACGAAGATAA
* *
33583 TTTGATTTCAGCTCGTAAAAGCGTAATT-TCGTT-TGGCTCATAAGAGCGTAAT
1 TTTGATTTCAGCTCGTAAAAGCGTAATTCTAGTTCTGGCTCACAAGAGCGTAAT
** * *
33635 TTTGATTTTGGCTCGTAAGAGCGTAATTCTAGTTCTGGGTCACAAGAGCGTAAT
1 TTTGATTTCAGCTCGTAAAAGCGTAATTCTAGTTCTGGCTCACAAGAGCGTAAT
33689 T
1 T
33690 CTATCTTGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 25 0.53
53 4 0.09
54 18 0.38
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (54 bp):
TTTGATTTCAGCTCGTAAAAGCGTAATTCTAGTTCTGGCTCACAAGAGCGTAAT
Found at i:33653 original size:27 final size:27
Alignment explanation
Indices: 33583--33662 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
33573 ACGAAGATAA
** *
33583 TTTGATTTCAGCTCGTAAAAGCGTAAT
1 TTTGATTTTGGCTCGTAAGAGCGTAAT
* *
33610 TTCG--TTTGGCTCATAAGAGCGTAAT
1 TTTGATTTTGGCTCGTAAGAGCGTAAT
33635 TTTGATTTTGGCTCGTAAGAGCGTAAT
1 TTTGATTTTGGCTCGTAAGAGCGTAAT
33662 T
1 T
33663 CTAGTTCTGG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 20 0.45
27 24 0.55
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (27 bp):
TTTGATTTTGGCTCGTAAGAGCGTAAT
Found at i:33741 original size:26 final size:26
Alignment explanation
Indices: 33702--33764 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
33692 ATCTTGTTCA
* * *
33702 TAAGAGCGATACTCTGTTTAGGCTCG
1 TAAGAGCTAAACTCTGTCTAGGCTCG
*
33728 TAAGAGCTAAACTCTGTCTGGGCTCG
1 TAAGAGCTAAACTCTGTCTAGGCTCG
*
33754 TATGAGCTAAA
1 TAAGAGCTAAA
33765 TTTTTGGAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (26 bp):
TAAGAGCTAAACTCTGTCTAGGCTCG
Found at i:34523 original size:21 final size:21
Alignment explanation
Indices: 34477--34530 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
34467 ATAATTTGTT
**
34477 TCGGTAGAAGTCACACTTGTA
1 TCGGTAGAAGTCACACAAGTA
*
34498 GCGGTAGAAGT-ATCACAAGTA
1 TCGGTAGAAGTCA-CACAAGTA
*
34519 TCGGTGGAAGTC
1 TCGGTAGAAGTC
34531 TGCACTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (21 bp):
TCGGTAGAAGTCACACAAGTA
Found at i:41202 original size:22 final size:21
Alignment explanation
Indices: 41171--41218 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
41161 CAGAACCTTG
*
41171 TAATATATATATATATAAAAT-T
1 TAATACATAT-TAT-TAAAATAT
41193 TAATACATATTATTAAAATAT
1 TAATACATATTATTAAAATAT
41214 TAATA
1 TAATA
41219 TAAATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 9 0.38
22 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATACATATTATTAAAATAT
Found at i:41279 original size:18 final size:16
Alignment explanation
Indices: 41258--41300 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
41248 TGCTTAAAAT
41258 TTAAATTTATTATTAATA
1 TTAAATTTATT-TTAA-A
41276 TTAAATTTTATTTTAAA
1 TTAAA-TTTATTTTAAA
*
41293 ATAAATTT
1 TTAAATTT
41301 GAAATATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 5 0.22
18 9 0.39
19 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATTTATTTTAAA
Found at i:41431 original size:26 final size:26
Alignment explanation
Indices: 41394--41445 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
41384 TTACCAAACA
*
41394 TGTTTTCATTATTAAAAATATTTTTC
1 TGTTTTCATTATCAAAAATATTTTTC
* *
41420 TGTTTT-ATTTATCAAACATGTTTTTC
1 TGTTTTCA-TTATCAAAAATATTTTTC
41446 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.58
Consensus pattern (26 bp):
TGTTTTCATTATCAAAAATATTTTTC
Found at i:41741 original size:4 final size:4
Alignment explanation
Indices: 41732--41758 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
41722 AAACAAATGA
41732 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
41759 CATTTGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:42427 original size:27 final size:27
Alignment explanation
Indices: 42369--42426 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
42359 AACCTTTTTA
* *
42369 ATTTTAAATTTAAGTTTTAAGATAAAT
1 ATTTTAAATATAAGTTTGAAGATAAAT
*
42396 ATTTTAAATATAA-TTTGAAGTTAAAT
1 ATTTTAAATATAAGTTTGAAGATAAAT
42422 ATTTT
1 ATTTT
42427 TTTATATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (27 bp):
ATTTTAAATATAAGTTTGAAGATAAAT
Found at i:50570 original size:20 final size:20
Alignment explanation
Indices: 50532--50575 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
50522 GATATTTTAG
* *
50532 TAAATTTATATAAAAATTGA
1 TAAATTAATAGAAAAATTGA
* *
50552 TAAATTAATAGAAATATTGG
1 TAAATTAATAGAAAAATTGA
50572 TAAA
1 TAAA
50576 ATTTTAGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TAAATTAATAGAAAAATTGA
Found at i:50753 original size:20 final size:20
Alignment explanation
Indices: 50664--50756 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
50654 AAAGTCTCAT
* *
50664 AAATATTTGGTAAATCGTTA
1 AAATTTTTGGTAAAACGTTA
* * *
50684 AATTTTTTGATAAAACATTA
1 AAATTTTTGGTAAAACGTTA
* *
50704 AAAATTTTGATAAATA-GTT-
1 AAATTTTTGGTAAA-ACGTTA
* *
50723 GAATGTTTTGGTAAAACTTTA
1 AAAT-TTTTGGTAAAACGTTA
50744 AAATTTTTGGTAA
1 AAATTTTTGGTAA
50757 TTTGTTAAAC
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.05
20 49 0.88
21 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (20 bp):
AAATTTTTGGTAAAACGTTA
Found at i:50811 original size:40 final size:40
Alignment explanation
Indices: 50664--51008 Score: 191
Period size: 40 Copynumber: 8.6 Consensus size: 40
50654 AAAGTCTCAT
* * * * * *
50664 AAATATTTGGTAAATCGTTAAATTTTTTGATAAAACATTAA
1 AAAT-TTTGGTAAATCGTTAGATATATTGATAAATCTTTAG
* * * * * *
50705 AAATTTTGATAAATAGTT-GAATGTTTTGGTAAAACTTTA-
1 AAATTTTGGTAAATCGTTAG-ATATATTGATAAATCTTTAG
* * * * *
50744 AAATTTTTGGTAATTTGTTAAACATATTGATAAATTTTTAG
1 AAA-TTTTGGTAAATCGTTAGATATATTGATAAATCTTTAG
* * * *
50785 AAATTTCGGTAAACCGTTAGATATATTGCTAAATCATTAG
1 AAATTTTGGTAAATCGTTAGATATATTGATAAATCTTTAG
* * * * * *
50825 ATATTTTGGTAAATTC-TTAGAAACATTGGTAAAGT-TTCAT
1 AAATTTTGGTAAA-TCGTTAGATATATTGATAAA-TCTTTAG
* ** *
50865 AAATATTGGTAAATCAATAGGAAAT-TTGATAAAT-TGTTAG
1 AAATTTTGGTAAATCGTTA-GATATATTGATAAATCT-TTAG
* * * *
50905 ATATTTTGGTAATTCGTTAGATAT-TTTACTAAATCTTTAA
1 AAATTTTGGTAAATCGTTAGATATATTGA-TAAATCTTTAG
* * * * * *
50945 AAATGTTAGTAAATTGTTAGATATATTGGTAAGTCTTTAA
1 AAATTTTGGTAAATCGTTAGATATATTGATAAATCTTTAG
*
50985 AAATTTTGGTAAATCATTAGATAT
1 AAATTTTGGTAAATCGTTAGATAT
51009 TAATTGTTAA
Statistics
Matches: 231, Mismatches: 61, Indels: 25
0.73 0.19 0.08
Matches are distributed among these distances:
39 14 0.06
40 201 0.87
41 16 0.07
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (40 bp):
AAATTTTGGTAAATCGTTAGATATATTGATAAATCTTTAG
Found at i:50837 original size:20 final size:20
Alignment explanation
Indices: 50781--51009 Score: 99
Period size: 20 Copynumber: 11.4 Consensus size: 20
50771 TGATAAATTT
* * * *
50781 TTAGAAATTTCGGTAAACCG
1 TTAGATATTTTGGTAAATCA
* *
50801 TTAGATATATTGCTAAATCA
1 TTAGATATTTTGGTAAATCA
50821 TTAGATATTTTGGTAAATTC-
1 TTAGATATTTTGGTAAA-TCA
* **
50841 TTAGAAACATTGGTAAAGTTTCA
1 TTAGATATTTTGGTAAA---TCA
*
50864 -TA-A-ATATTGGTAAATCA
1 TTAGATATTTTGGTAAATCA
* * * **
50881 ATAGGA-AATTTGATAAATTG
1 TTA-GATATTTTGGTAAATCA
* *
50901 TTAGATATTTTGGTAATTCG
1 TTAGATATTTTGGTAAATCA
** *
50921 TTAGATATTTTACTAAATCT
1 TTAGATATTTTGGTAAATCA
* * * * **
50941 TTAAAAATGTTAGTAAATTG
1 TTAGATATTTTGGTAAATCA
* * *
50961 TTAGATATATTGGTAAGTCT
1 TTAGATATTTTGGTAAATCA
* *
50981 TTAAAAATTTTGGTAAATCA
1 TTAGATATTTTGGTAAATCA
51001 TTAGATATT
1 TTAGATATT
51010 AATTGTTAAA
Statistics
Matches: 155, Mismatches: 46, Indels: 16
0.71 0.21 0.07
Matches are distributed among these distances:
17 3 0.02
18 2 0.01
19 2 0.01
20 140 0.90
21 3 0.02
22 5 0.03
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (20 bp):
TTAGATATTTTGGTAAATCA
Found at i:51069 original size:20 final size:20
Alignment explanation
Indices: 51046--51092 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
51036 GAAATTTTGG
*
51046 AAATATTGATAAAATATTAT
1 AAATATTGATAAAATATCAT
* *
51066 AAATTTTGGTAAAATATCAT
1 AAATATTGATAAAATATCAT
51086 AAATATT
1 AAATATT
51093 AATGATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (20 bp):
AAATATTGATAAAATATCAT
Found at i:51257 original size:19 final size:18
Alignment explanation
Indices: 51228--51263 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51218 GATTTGGTTG
51228 ATTAGAAAATTTGAAAAT
1 ATTAGAAAATTTGAAAAT
*
51246 ATTAGTAAAATTTTAAAA
1 ATTAG-AAAATTTGAAAA
51264 ATTTTGGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
ATTAGAAAATTTGAAAAT
Found at i:53049 original size:14 final size:15
Alignment explanation
Indices: 53030--53060 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
53020 CATCAAAGAG
53030 TATATATACAT-ACA
1 TATATATACATCACA
53044 TATATATACATCACA
1 TATATATACATCACA
53059 TA
1 TA
53061 CCTAAATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (15 bp):
TATATATACATCACA
Found at i:56911 original size:45 final size:44
Alignment explanation
Indices: 56857--56986 Score: 215
Period size: 45 Copynumber: 2.9 Consensus size: 44
56847 CAAGCACTGG
*
56857 TTACAAGCCAAAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTA
1 TTAC-AGCCAAAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTA
56902 TTACTAGCCAAAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTA
1 TTAC-AGCCAAAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTA
*
56947 TTACACGCCAAAGCCAAAAGGAGAAGCAGAACCGAACCCT
1 TTACA-GCCAAAGCCAGAAGGAGAAGCAGAACCGAACCCT
56987 AAGCCAGAAG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
44 1 0.01
45 80 0.99
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.11
Consensus pattern (44 bp):
TTACAGCCAAAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTA
Found at i:56997 original size:75 final size:75
Alignment explanation
Indices: 56912--57061 Score: 273
Period size: 75 Copynumber: 2.0 Consensus size: 75
56902 TTACTAGCCA
* *
56912 AAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTATTACACGCCAAAGCCAAAAGGAGAAGCAGA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAAAAGGAGAAGCAGA
56977 ACCGAACCCT
66 ACCGAACCCT
*
56987 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAGAAGGAGAAGCAGA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAAAAGGAGAAGCAGA
57052 ACCGAACCCT
66 ACCGAACCCT
57062 GATTATTACA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.43, C:0.26, G:0.23, T:0.08
Consensus pattern (75 bp):
AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAAAAGGAGAAGCAGA
ACCGAACCCT
Found at i:56998 original size:30 final size:30
Alignment explanation
Indices: 56957--57016 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
56947 TTACACGCCA
*
56957 AAGCCAAAAGGAGAAGCAGAACCGAACCCT
1 AAGCCAAAAGGAGAAGCAAAACCGAACCCT
*
56987 AAGCCAGAAGGAGAAGCAAAACCGAACCCT
1 AAGCCAAAAGGAGAAGCAAAACCGAACCCT
57017 GATTATTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.47, C:0.27, G:0.23, T:0.03
Consensus pattern (30 bp):
AAGCCAAAAGGAGAAGCAAAACCGAACCCT
Found at i:57010 original size:120 final size:120
Alignment explanation
Indices: 56867--57106 Score: 444
Period size: 120 Copynumber: 2.0 Consensus size: 120
56857 TTACAAGCCA
*
56867 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACTAGCCAAAGCCAGAAGGAGAAGCAGA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAGAAGGAGAAGCAGA
* *
56932 ACCGAACCCTGATTATTACACGCCAAAGCCAAAAGGAGAAGCAGAACCGAACCCT
66 ACCGAACCCTGATTATTACACGCCAAAGCCAAAAGGAGAAGCAAAACCAAACCCT
56987 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAGAAGGAGAAGCAGA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAGAAGGAGAAGCAGA
*
57052 ACCGAACCCTGATTATTACACGCCAAAGCCAGAAGGAGAAGCAAAACCAAACCCT
66 ACCGAACCCTGATTATTACACGCCAAAGCCAAAAGGAGAAGCAAAACCAAACCCT
57107 GATAGAAGCC
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (120 bp):
AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCAAAGCCAGAAGGAGAAGCAGA
ACCGAACCCTGATTATTACACGCCAAAGCCAAAAGGAGAAGCAAAACCAAACCCT
Found at i:57092 original size:51 final size:45
Alignment explanation
Indices: 56987--57140 Score: 226
Period size: 45 Copynumber: 3.5 Consensus size: 45
56977 ACCGAACCCT
56987 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCA
* *
57032 AAGCCAGAAGGAGAAGCAGAACCGAACCCTGATTATTACACGCCA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCA
* *
57077 AAGCCAGAAGGAGAAGCAAAACCAAACCCTG---A-TAGAAGCCA
1 AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCA
* *
57118 AAGCCAGAAGGTGAAGTAAAACC
1 AAGCCAGAAGGAGAAGCAAAACC
57141 AGAGTATGGT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 28 0.28
42 1 0.01
45 72 0.71
ACGTcount: A:0.45, C:0.24, G:0.22, T:0.09
Consensus pattern (45 bp):
AAGCCAGAAGGAGAAGCAAAACCGAACCCTGATTATTACAAGCCA
Found at i:57465 original size:17 final size:18
Alignment explanation
Indices: 57434--57467 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57424 AATTTAATTT
57434 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
57452 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
57468 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:57706 original size:20 final size:20
Alignment explanation
Indices: 57677--57742 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
57667 TCGAATCTCG
*
57677 AGATTCAAGGTTT-GGGTTCA
1 AGATTTAAGGTTTAGGGTT-A
*
57697 AGATTTAAGGTTTAGGGTTT
1 AGATTTAAGGTTTAGGGTTA
* *
57717 AGATTTAAGATTTAGGTTTA
1 AGATTTAAGGTTTAGGGTTA
*
57737 GGATTT
1 AGATTT
57743 GGGTTCAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 34 0.87
21 5 0.13
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.42
Consensus pattern (20 bp):
AGATTTAAGGTTTAGGGTTA
Found at i:57747 original size:13 final size:13
Alignment explanation
Indices: 57698--57747 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
57688 TTGGGTTCAA
57698 GATTTAAGGTTTAG
1 GATTT-AGGTTTAG
* * *
57712 GGTTTAGATTTAA
1 GATTTAGGTTTAG
57725 GATTTAGGTTTAG
1 GATTTAGGTTTAG
*
57738 GATTTGGGTT
1 GATTTAGGTT
57748 CAAGGTTCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 25 0.86
14 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (13 bp):
GATTTAGGTTTAG
Found at i:64700 original size:34 final size:34
Alignment explanation
Indices: 64662--64728 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
64652 TTTTAATTTA
*
64662 AAAATAAATTTAAATTTAAAGTAAATCCAAACTC
1 AAAATAAATTTAAATTTAAAATAAATCCAAACTC
* * *
64696 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAATTTAAATTTAAAATAAATCCAAACT
64729 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAAAATAAATCCAAACTC
Found at i:64722 original size:17 final size:17
Alignment explanation
Indices: 64650--64722 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
64640 CCTTTAATTT
*
64650 AATTTTAATTTAAAAATA
1 AATTTAAATTT-AAAATA
*
64668 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
** * * *
64685 AATCCAAACTCAAAATG
1 AATTTAAATTTAAAATA
*
64702 AATTTGAATTTAAAATA
1 AATTTAAATTTAAAATA
64719 AATT
1 AATT
64723 CAAACTTATT
Statistics
Matches: 41, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
17 31 0.76
18 10 0.24
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.37
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:65607 original size:200 final size:198
Alignment explanation
Indices: 65107--65813 Score: 886
Period size: 195 Copynumber: 3.5 Consensus size: 198
65097 CTTCTTCCCA
* * * *
65107 GTATATCATCAGGAAGATGGC-CGCGTCGCTTGTTTCAATCCGCTTCTTTGTATCTCATCAGGAA
1 GTATCTCATCAGGAAGATGACAC-C-TCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAA
* *
65171 GACGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTACTTTGACCTGCT
64 GACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCT
* * * * *
65236 TCTTTGTATCTCATCAGGAA----GCTCAGAGATTTGCTCGCATTGAGCCTTGAGTTAGTATACT
129 TCTTAGTATCTCATCAGGAAGTGGGTTCAAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATACT
65297 TCTCT
194 TCTCT
* * *
65302 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTCGTTTCTCTGTATCTCATCAGGAAG
1 GTATCTCATCAGGAAGATGA-CACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
* * * * * *
65367 ACGAATTTGATCGACTTCTTAGTATTTCATCAGTAAGCTAACCATTTTATTGCTTCGACCTGCTT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTT
* *
65432 CTTAGTATCTTATCAAGAAGTTGGGGTTCAAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATAC
130 CTTAGTATCTCATCAGGAAG-T-GGGTTCAAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATAC
65497 TTCTCT
193 TTCTCT
* * *
65503 GTATCTCATCAGGAAGATGACACCTCACTTGTTTTAATCTGCTTCTCTGTACCTCATCAGGAAGA
1 GTATCTCATCAGGAAGATGACACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGA
65568 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAA-CATTTTTATTACTTCGACCTGCTT
66 CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCA-TTTTATTACTTCGACCTGCTT
* * * *
65632 CTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCTTTGAGCCTTATGTCATTGATTT
130 CTTAGTATCTCATCAGGAAG-TGGGTTCAAAGATTTGCTCGCATTGAGCC-----TC---GAGTT
* *
65697 GGTCTACTTCTCA
186 GGTATACTTCTCT
* * ** * *
65710 GTATCTCATCAAGAAGATGACAACATTGCTTGTTTCAATCCGCTTATCTGTATCTCATTAGGAAG
1 GTATCTCATCAGGAAGATGAC-ACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAG
*
65775 ACTAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
65 ACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
65814 GGGGTTCGAA
Statistics
Matches: 444, Mismatches: 50, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
195 129 0.29
196 2 0.00
197 1 0.00
199 28 0.06
200 112 0.25
201 62 0.14
204 2 0.00
207 35 0.08
208 73 0.16
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (198 bp):
GTATCTCATCAGGAAGATGACACCTCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGA
CGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTC
TTAGTATCTCATCAGGAAGTGGGTTCAAAGATTTGCTCGCATTGAGCCTCGAGTTGGTATACTTC
TCT
Found at i:65914 original size:153 final size:154
Alignment explanation
Indices: 65629--65966 Score: 412
Period size: 153 Copynumber: 2.2 Consensus size: 154
65619 CTTCGACCTG
*
65629 CTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCTTTGAGCCTTATGTCATTGA
1 CTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCTTTAAGCC---T-TC--TGA
* * * ** *
65694 TTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACAACATTGCTTGTTTCAATCCGCTTATCT
60 TTTGATATACTTCTCAGTATCTCATCAAAAAGATGACAACATCACTTATTTCAATCCGCTTATCT
* * *
65759 GTATCTCATTAGGAAGACTAATTTGGTCCA
125 GTACCTCATCAGGAAGACAAATTTGGTCCA
*
65789 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCGCTTTAAGCC-TC-GTTTTGA
1 CTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTTGCTCGCTTTAAGCCTTCTGATTTGA
* ** * *
65852 TATACTTCTCTA-TATCTTATCAAAAAGATGACCGCCTCACTTATTTCAATCCGCTTCTCTGTAC
65 TATACTTCTC-AGTATCTCATCAAAAAGATGACAACATCACTTATTTCAATCCGCTTATCTGTAC
* *
65916 CTCATCAGGAAGACAAATTTTGTCCT
129 CTCATCAGGAAGACAAATTTGGTCCA
*
65942 CTTCTCAGTATCTCATCAAGAAGCT
1 CTTCTCAGTATCTCATCAGGAAGCT
65967 AACCTTTTTA
Statistics
Matches: 157, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
153 102 0.65
154 1 0.01
156 2 0.01
160 25 0.16
161 27 0.17
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (154 bp):
CTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTTGCTCGCTTTAAGCCTTCTGATTTGAT
ATACTTCTCAGTATCTCATCAAAAAGATGACAACATCACTTATTTCAATCCGCTTATCTGTACCT
CATCAGGAAGACAAATTTGGTCCA
Found at i:66420 original size:51 final size:51
Alignment explanation
Indices: 66358--66521 Score: 140
Period size: 51 Copynumber: 3.2 Consensus size: 51
66348 TCCAACTTCG
*
66358 CTGCAACTTCAGGAAGATAGGAATTGATGATGAAGCTTCATCTTGCTCTTA
1 CTGCAACTTCAGGAAGATAGGAATTGATGATAAAGCTTCATCTTGCTCTTA
* * * * *** * *
66409 CTACAACTTCA-GAGAGATAAAGACTT-ACT-ATTATTTTTAATC-CGACT-TTA
1 CTGCAACTTCAGGA-AGAT-AGGAATTGA-TGATAAAGCTTCATCTTG-CTCTTA
* * *
66459 CTGCAACTTCAAGAGGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTTA
1 CTGCAACTTCAGGAAGATAGGAATTGATGATAAAGCTTCATCTTGCTCTTA
66510 CTGCAACTTCAG
1 CTGCAACTTCAG
66522 ACTTGCCATT
Statistics
Matches: 83, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
49 6 0.07
50 29 0.35
51 42 0.51
52 6 0.07
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (51 bp):
CTGCAACTTCAGGAAGATAGGAATTGATGATAAAGCTTCATCTTGCTCTTA
Found at i:66716 original size:50 final size:49
Alignment explanation
Indices: 66662--67016 Score: 235
Period size: 50 Copynumber: 7.1 Consensus size: 49
66652 AAATCTTCGT
** *
66662 GGTACTAGATTTGCTGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
1 GGTACTAGATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCT-A
* ** *
66712 GGTAC-ACTG-TCCGCCGTTACGACTTAAGCCTTTCTCTT-TTGTATCTT-TA
1 GGTACTA--GATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTG--TCTTCTA
* * * *
66761 TGGTA-TTGCATCCGCCGTTACGGTTTTAGATCTTTCCCTTCATGTCTTC-A
1 -GGTACTAG-ATCCGCCGTTACGG-CTTAAATCTTTCCCTTCTTGTCTTCTA
* * * *
66811 TGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCTTATCTTCTAA
1 -GGTACTAGATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCT-A
* * * * * * *
66862 GGTAC-ACGGTCCGTCGTTGCGACTTAGACCTTTCCCTT-TTGTATCTT-TGT
1 GGTACTA-GATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTG--TCTTCT-A
* * * *
66912 GGTACTGGATCCGCCGTTACAGTCTTAGATCTTTCCCTTCATGTCTTCATA
1 GGTACTAGATCCGCCGTTAC-GGCTTAAATCTTTCCCTTCTTGTCTTC-TA
* *
66963 -GTACTGGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCTGA
1 GGTACTAGATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCT-A
67012 GGTAC
1 GGTAC
67017 ACGGTCTACC
Statistics
Matches: 236, Mismatches: 45, Indels: 48
0.72 0.14 0.15
Matches are distributed among these distances:
48 2 0.01
49 54 0.23
50 136 0.58
51 39 0.17
52 5 0.02
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.41
Consensus pattern (49 bp):
GGTACTAGATCCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCTTCTA
Found at i:66845 original size:150 final size:150
Alignment explanation
Indices: 66641--67107 Score: 684
Period size: 150 Copynumber: 3.1 Consensus size: 150
66631 CGACTTAAAC
** * * *
66641 CTTTCCCTTTCAAATCTTCGTGGTACTAGATTTGCTGTTACGGCTTAAATCTTTCCCTTCTTGTC
1 CTTTCCC-TTCATGTCTTCATGGTACTAGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTC
* * * * * *
66706 TTCTGAGGTACACTGTCCGCCGTTACGACTTA-AGCCTTTCTCTTTTGTATCTTTATGGTATTGC
65 TTCTGAGGTACACGGTCCGCCGTTGCGACTTAGA-CCTTTCCCTTTTGTATCTTTGTGGTACTGG
* *
66770 ATCCGCCGTTACGGTTTTAGAT
129 ATCCGCCGTTACAGTCTTAGAT
* * *
66792 CTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCTTATCT
1 CTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCT
* *
66857 TCTAAGGTACACGGTCCGTCGTTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGGAT
66 TCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGGAT
66922 CCGCCGTTACAGTCTTAGAT
131 CCGCCGTTACAGTCTTAGAT
* *
66942 CTTTCCCTTCATGTCTTCATAGTACTGGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCT
1 CTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCT
** *
67007 TCTGAGGTACACGGTCTACCGTTGTGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGGAT
66 TCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGGAT
* *
67072 CCACCGTTGCAGTCTTAGAT
131 CCGCCGTTACAGTCTTAGAT
67092 CTTTCCCTTCATGTCT
1 CTTTCCCTTCATGTCT
67108 CCCTGGTATT
Statistics
Matches: 285, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
150 277 0.97
151 8 0.03
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (150 bp):
CTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCGTTACGGCTTAAATCTTTCCCTTCTTGTCT
TCTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTATCTTTGTGGTACTGGAT
CCGCCGTTACAGTCTTAGAT
Found at i:67078 original size:50 final size:49
Alignment explanation
Indices: 66786--67107 Score: 186
Period size: 50 Copynumber: 6.4 Consensus size: 49
66776 CGTTACGGTT
* ** * * * * * *
66786 TTAGATCTTTCCCTTCATGTCTTCATGGTACTAGATTCGCCATTGCGGC
1 TTAGATCTTTCCCTTCTTGTCTTTGTGGTACTGGATCCACCGTTGAGAC
* * ** * ** *
66835 TTAAATCTTTCCCTTCTTATCTTCTAAGGTACACGG-TCCGTCGTTGCGAC
1 TTAGATCTTTCCCTTCTTGTCTT-TGTGGTAC-TGGATCCACCGTTGAGAC
* * * *
66885 TTAGACCTTTCCCTT-TTGTATCTTTGTGGTACTGGATCCGCCGTTACAGTC
1 TTAGATCTTTCCCTTCTTG--TCTTTGTGGTACTGGATCCACCGTT-GAGAC
* ** * * * *
66936 TTAGATCTTTCCCTTCATGTCTTCATAGTACTGGATTCGCCGTT-ACGGC
1 TTAGATCTTTCCCTTCTTGTCTTTGTGGTACTGGATCCACCGTTGA-GAC
* * * * *
66985 TTAAATCTTTCCCTTCTTGTCTTCTGAGGTACACGG-TCTACCGTTGTGAC
1 TTAGATCTTTCCCTTCTTGTCTT-TGTGGTAC-TGGATCCACCGTTGAGAC
* *
67035 TTAGACCTTTCCCTT-TTGTATCTTTGTGGTACTGGATCCACCGTTGCAGTC
1 TTAGATCTTTCCCTTCTTG--TCTTTGTGGTACTGGATCCACCGTTG-AGAC
*
67086 TTAGATCTTTCCCTTCATGTCT
1 TTAGATCTTTCCCTTCTTGTCT
67108 CCCTGGTATT
Statistics
Matches: 208, Mismatches: 49, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
48 1 0.00
49 52 0.25
50 108 0.52
51 43 0.21
52 4 0.02
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (49 bp):
TTAGATCTTTCCCTTCTTGTCTTTGTGGTACTGGATCCACCGTTGAGAC
Found at i:68425 original size:14 final size:13
Alignment explanation
Indices: 68403--68459 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 13
68393 TTGACCTCTC
68403 TTTTTTTTTTCTA
1 TTTTTTTTTTCTA
*
68416 TTTTTGTTTTTCTTC
1 TTTTT-TTTTTC-TA
68431 TTGTTTTTTTTCT-
1 TT-TTTTTTTTCTA
*
68444 TTTTTCTTTTCT-
1 TTTTTTTTTTCTA
68456 TTTT
1 TTTT
68460 CTTTCTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 13 0.33
13 7 0.18
14 7 0.18
15 9 0.23
16 3 0.08
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTCTA
Found at i:68440 original size:15 final size:16
Alignment explanation
Indices: 68403--68444 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
68393 TTGACCTCTC
*
68403 TTTTTTTT-TTCTATT
1 TTTTTTTTCTTCTATG
68418 TTTGTTTTTCTTCT-TG
1 TTT-TTTTTCTTCTATG
68434 TTTTTTTTCTT
1 TTTTTTTTCTT
68445 TTTTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 9 0.38
17 4 0.17
ACGTcount: A:0.02, C:0.10, G:0.05, T:0.83
Consensus pattern (16 bp):
TTTTTTTTCTTCTATG
Found at i:68447 original size:22 final size:21
Alignment explanation
Indices: 68401--68486 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 21
68391 CTTTGACCTC
*
68401 TCTTTTTT-TTTTC-TATTTT
1 TCTTTTTTCTTTTCTTTTTTT
* *
68420 T-GTTTTTCTTCTTGTTTTTTT
1 TCTTTTTTCTT-TTCTTTTTTT
68441 TCTTTTTTCTTTTCTTTTTCTT
1 TCTTTTTTCTTTTCTTTTT-TT
* *
68463 TCTTTTTCCTTTTTTTATTTTT
1 TCTTTTTTCTTTTCTT-TTTTT
68485 TC
1 TC
68487 CTTTGTTCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.09
19 3 0.06
20 2 0.04
21 13 0.24
22 28 0.52
23 3 0.06
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (21 bp):
TCTTTTTTCTTTTCTTTTTTT
Found at i:68453 original size:15 final size:14
Alignment explanation
Indices: 68403--68486 Score: 73
Period size: 14 Copynumber: 5.8 Consensus size: 14
68393 TTGACCTCTC
*
68403 TTTTTTTTTTCTAT
1 TTTTTTTTTTCTTT
*
68417 TTTTGTTTTTCTTCT
1 TTTTTTTTTTCTT-T
*
68432 TGTTTTTTTTC--T
1 TTTTTTTTTTCTTT
*
68444 TTTTTCTTTTCTTT
1 TTTTTTTTTTCTTT
68458 TTCTTTCTTTTTCCTTT
1 TT-TTT-TTTTT-CTTT
68475 TTTTATTTTTTC
1 TTTT-TTTTTTC
68487 CTTTGTTCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
12 10 0.18
14 14 0.25
15 14 0.25
16 11 0.20
17 7 0.12
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTCTTT
Found at i:68478 original size:10 final size:9
Alignment explanation
Indices: 68405--68485 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
68395 GACCTCTCTT
68405 TTTTTTTTC
1 TTTTTTTTC
68414 TATTTTTGTT-
1 T-TTTTT-TTC
* *
68424 TTTCTTCTTG
1 TTT-TTTTTC
68434 TTTTTTTTC
1 TTTTTTTTC
68443 TTTTTTCTT-
1 TTTTTT-TTC
*
68452 TTCTTTTTC
1 TTTTTTTTC
68461 TTTCTTTTTC
1 TTT-TTTTTC
* *
68471 CTTTTTTTA
1 TTTTTTTTC
68480 TTTTTT
1 TTTTTT
68486 CCTTTGTTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
8 2 0.04
9 32 0.56
10 21 0.37
11 2 0.04
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:74035 original size:58 final size:58
Alignment explanation
Indices: 73878--74041 Score: 188
Period size: 58 Copynumber: 2.8 Consensus size: 58
73868 GTTCGAGGTC
* * * *
73878 AAAACGAAA-CTTTAGACATCCGGGGGTAAAATGATAACTTTTTGAAAAAATCGGGATCA
1 AAAACGAAATTTTTAGACATCCAGGGGTAAAATGGTAA-TTTTAG-AAAAATCGGGATCA
* * *
73937 AAAACGTAATTTTTGGACATCGAGGGGT-AAATGGTAAATTTTAGAAAAATCGGGATCA
1 AAAACGAAATTTTTAGACATCCAGGGGTAAAATGGT-AATTTTAGAAAAATCGGGATCA
* * * *
73995 AAAATGAAATTTTTAGACATCCAAGGGTAAAAGGGTAATTTTGGAAA
1 AAAACGAAATTTTTAGACATCCAGGGGTAAAATGGTAATTTTAGAAA
74042 GTTTTGGAGT
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
58 47 0.53
59 25 0.28
60 16 0.18
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (58 bp):
AAAACGAAATTTTTAGACATCCAGGGGTAAAATGGTAATTTTAGAAAAATCGGGATCA
Found at i:74081 original size:59 final size:59
Alignment explanation
Indices: 74018--74194 Score: 202
Period size: 59 Copynumber: 3.0 Consensus size: 59
74008 TAGACATCCA
* *
74018 AGGGTAAAAGGGTAA-TTTTGGAAAGTTTTGGAGTAAAAAATG-AAATTTTGGAAAGTTCG
1 AGGGTAAAAAGGTAATTTTTGG-AAGTTTGGGAGT-AAAAATGTAAATTTTGGAAAGTTCG
* * * **
74077 AGGGTAAAAATGTAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTTT
1 AGGGTAAAAAGGTAATTTTTGGAAGTTTGGGAGTAAAAATGTAAATTTTGGAAAGTTCG
*
74136 AGGGTCAAAAATGG-AATTTTTGGAAGTTTGAGG-GTAAAAATGTAATTTTTGG-AAGTTCG
1 AGGGT-AAAAA-GGTAATTTTTGGAAGTTTG-GGAGTAAAAATGTAAATTTTGGAAAGTTCG
74195 GGGCCTCATT
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
58 7 0.07
59 47 0.46
60 46 0.45
61 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
AGGGTAAAAAGGTAATTTTTGGAAGTTTGGGAGTAAAAATGTAAATTTTGGAAAGTTCG
Found at i:74154 original size:60 final size:59
Alignment explanation
Indices: 74033--74194 Score: 220
Period size: 60 Copynumber: 2.7 Consensus size: 59
74023 AAAAGGGTAA
* * * *
74033 TTTTGGAAAGTTTTGGAGTAAAAAATG-AAATTTTGGAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTGG-AAGTTTGGGGGT-AAAAATGTAATTTTTGGAAAGTTCGAGGGTAAAAATGGAAT
**
74093 TTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTTTAGGGTCAAAAATGGAAT
1 TTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTCGAGGGT-AAAAATGGAAT
*
74153 TTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGG-AAGTTCG
1 TTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTCG
74195 GGGCCTCATT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
58 7 0.08
59 34 0.37
60 50 0.55
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (59 bp):
TTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTCGAGGGTAAAAATGGAAT
Found at i:74163 original size:89 final size:88
Alignment explanation
Indices: 74019--74197 Score: 263
Period size: 89 Copynumber: 2.0 Consensus size: 88
74009 AGACATCCAA
*
74019 GGGTAAAAGGGTAATTTTGGAAAGTTTTGGAGTAAAAAATGAAATTTTGGAAAGTTCGAGGGTAA
1 GGGTAAAAAGGTAATTTTGGAAAGTTTTGGAGTAAAAAATGAAATTTTGGAAAGTTCGAGGGTAA
*
74084 AAATGTAATTTTTGGAAGTTTGG
66 AAATGTAATTTTTGGAAGTTCGG
* * * *
74107 GGGTAAAAATGTAATTTTTGGAAAGTTTTAGG-GTCAAAAATGGAATTTTTGG-AAGTTTGAGGG
1 GGGTAAAAAGGTAA-TTTTGGAAAGTTTT-GGAGTAAAAAAT-GAAATTTTGGAAAGTTCGAGGG
74170 TAAAAATGTAATTTTTGGAAGTTCGG
63 TAAAAATGTAATTTTTGGAAGTTCGG
74196 GG
1 GG
74198 CCTCATTGGT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
88 12 0.15
89 59 0.72
90 11 0.13
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.34
Consensus pattern (88 bp):
GGGTAAAAAGGTAATTTTGGAAAGTTTTGGAGTAAAAAATGAAATTTTGGAAAGTTCGAGGGTAA
AAATGTAATTTTTGGAAGTTCGG
Found at i:74192 original size:29 final size:30
Alignment explanation
Indices: 74018--74189 Score: 210
Period size: 29 Copynumber: 5.8 Consensus size: 30
74008 TAGACATCCA
**
74018 AGGGTAAAAGGGTAA-TTTTGGAAAGTTTTG
1 AGGGTAAAAATGTAATTTTTGGAAAG-TTTG
* * *
74048 -GAGTAAAAAATG-AAATTTTGGAAAGTTCG
1 AGGGT-AAAAATGTAATTTTTGGAAAGTTTG
74077 AGGGTAAAAATGTAATTTTTGG-AAGTTTG
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTG
* *
74106 GGGGTAAAAATGTAATTTTTGGAAAGTTTT
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTG
*
74136 AGGGTCAAAAATGGAATTTTTGG-AAGTTTG
1 AGGGT-AAAAATGTAATTTTTGGAAAGTTTG
74166 AGGGTAAAAATGTAATTTTTGGAA
1 AGGGTAAAAATGTAATTTTTGGAA
74190 GTTCGGGGCC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
29 58 0.48
30 48 0.39
31 16 0.13
ACGTcount: A:0.37, C:0.01, G:0.28, T:0.34
Consensus pattern (30 bp):
AGGGTAAAAATGTAATTTTTGGAAAGTTTG
Found at i:74799 original size:6 final size:6
Alignment explanation
Indices: 74778--74852 Score: 77
Period size: 6 Copynumber: 13.0 Consensus size: 6
74768 TTTAATTTAT
*
74778 TTTAAA TTT-GA TTTAAA TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* * *
74824 TTTAAA -TTAAT TTTAAT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
74853 AAGTCCAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
4 2 0.03
5 10 0.17
6 44 0.75
7 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:74800 original size:17 final size:17
Alignment explanation
Indices: 74768--74852 Score: 77
Period size: 17 Copynumber: 5.0 Consensus size: 17
74758 CTAGGCCCTT
*
74768 TTTAATTT-ATTTTAAA
1 TTTAATTTAAATTTAAA
*
74784 TTTGATTTAAATTTAAA
1 TTTAATTTAAATTTAAA
*
74801 TTTAAATT-AATCTTAAA
1 TTTAATTTAAAT-TTAAA
*
74818 TTTAAATTTAAA-TTAAT
1 TTT-AATTTAAATTTAAA
*
74835 TTTAATTTTAAAATTAAA
1 TTTAA-TTTAAATTTAAA
74853 AAGTCCAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
16 12 0.21
17 34 0.61
18 8 0.14
19 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAATTTAAATTTAAA
Found at i:74806 original size:23 final size:24
Alignment explanation
Indices: 74778--74852 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 24
74768 TTTAATTTAT
*
74778 TTTAAATTTGAT-TTAAATTTAAA
1 TTTAAATTTAATCTTAAATTTAAA
74801 TTTAAA-TTAATCTTAAATTTAAA
1 TTTAAATTTAATCTTAAATTTAAA
* *
74824 TTTAAA-TTAATTTTAATTTTAAA
1 TTTAAATTTAATCTTAAATTTAAA
*
74847 ATTAAA
1 TTTAAA
74853 AAGTCCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TTTAAATTTAATCTTAAATTTAAA
Found at i:75847 original size:15 final size:16
Alignment explanation
Indices: 75822--75854 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
75812 CATTGCATTA
75822 AAAAAGAGAAAAAAAG
1 AAAAAGAGAAAAAAAG
*
75838 AAAAAG-GAAAGAAAG
1 AAAAAGAGAAAAAAAG
75853 AA
1 AA
75855 GAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAAAGAGAAAAAAAG
Found at i:76461 original size:29 final size:29
Alignment explanation
Indices: 76429--76829 Score: 343
Period size: 29 Copynumber: 13.8 Consensus size: 29
76419 AAAATTACCA
*
76429 TTTTACCCCCAAACTTCTAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * *
76458 TTTTAACCCCAAAACTTCCAAAATTACCA-
1 TTTT-ACCCCCAAACTTCCAAAAATCCCAT
*
76487 TTTTA-CCCCGAACTTCCAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * *
76515 TTTTGACCCCAAAACTACCAAAAATTACCA-
1 TTTT-ACCCCCAAACTTCCAAAAA-TCCCAT
* **
76545 TTTTACCCCCAAACTTCTAGCAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* *
76574 TTTTACCCTCGAAACTTCCAAAAATTACCA-
1 TTTTACCC-CCAAACTTCCAAAAA-TCCCAT
* *
76604 TTTTACCCTCGAACTTCCAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * * * *
76633 TTTAACCCCAAAACTACAAAAAATTACCA-
1 TTTTACCCCCAAACTTCCAAAAA-TCCCAT
76662 -TTTA-CCCCAAACTTCCAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * * **
76689 TTTGACCTCGAAACTTCCAAAAATTATCA-
1 TTTTACCCCCAAACTTCCAAAAA-TCCCAT
**
76718 TTTTACCCTTAAACTTCCAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * *
76747 TTTTGACCTCGAAACTTCCAAAAATTACCA-
1 TTTT-ACCCCCAAACTTCCAAAAA-TCCCAT
* *
76777 TTTTACCCCCCAACTTGCAAAAATCCCAT
1 TTTTACCCCCAAACTTCCAAAAATCCCAT
* * *
76806 TTTGACCCCGAAACGTCCAAAAAT
1 TTTTACCCCCAAACTTCCAAAAAT
76830 TACTACTTTA
Statistics
Matches: 290, Mismatches: 64, Indels: 36
0.74 0.16 0.09
Matches are distributed among these distances:
26 4 0.01
27 32 0.11
28 26 0.09
29 132 0.46
30 84 0.29
31 12 0.04
ACGTcount: A:0.37, C:0.32, G:0.03, T:0.28
Consensus pattern (29 bp):
TTTTACCCCCAAACTTCCAAAAATCCCAT
Found at i:76840 original size:58 final size:58
Alignment explanation
Indices: 76419--76832 Score: 548
Period size: 59 Copynumber: 7.1 Consensus size: 58
76409 AAAATGTTCG
* * *
76419 AAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTTAACCCCAAAACTTCC-
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCA-TTTTGACCCCGAAACTTCCA
* * *
76477 AAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTACCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCA-TTTTGACCCCGAAACTTCCA
* ** *
76535 AAAATTACCATTTTACCCCCAAACTTCTAGCAATCCCATTTTTACCCTCGAAACTTCCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTGACCC-CGAAACTTCCA
* * * * * *
76594 AAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTAACCCCAAAACTACAA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTGACCCCGAAACTTCCA
*
76652 AAAATTACCA-TTTA-CCCCAAACTTCCAAAAATCCCATTTTGACCTCGAAACTTCCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTGACCCCGAAACTTCCA
* ** *
76708 AAAATTATCATTTTACCCTTAAACTTCCAAAAATCCCATTTTTGACCTCGAAACTTCCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCA-TTTTGACCCCGAAACTTCCA
* * *
76767 AAAATTACCATTTTACCCCCCAACTTGCAAAAATCCCATTTTGACCCCGAAACGTCCA
1 AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTGACCCCGAAACTTCCA
76825 AAAATTAC
1 AAAATTAC
76833 TACTTTACGC
Statistics
Matches: 313, Mismatches: 37, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
56 44 0.14
57 46 0.15
58 102 0.33
59 121 0.39
ACGTcount: A:0.37, C:0.32, G:0.03, T:0.28
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTGACCCCGAAACTTCCA
Found at i:76954 original size:59 final size:59
Alignment explanation
Indices: 76836--76955 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 59
76826 AAATTACTAC
* ** * *
76836 TTTACGCCCGAATGTCCGAAGACTCCATTTTTGGCCTTGAAACTCTCAAAATTATCATT
1 TTTACACCCGAATGTCCGAAGACTCCATTTTTAACCTTGAAACTCTCAAAACTACCATT
* * * *
76895 TTTACACCCGAATGTCCTAA-ATTCCATTTTTAACCTTGAATATTCTCGAAACTACCATT
1 TTTACACCCGAATGTCCGAAGACTCCATTTTTAACCTTGAA-ACTCTCAAAACTACCATT
76954 TT
1 TT
76956 GCCACTCGTG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 17 0.33
59 34 0.67
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (59 bp):
TTTACACCCGAATGTCCGAAGACTCCATTTTTAACCTTGAAACTCTCAAAACTACCATT
Found at i:88065 original size:24 final size:24
Alignment explanation
Indices: 88033--88081 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
88023 TCAACCAATG
*
88033 ATTGTTTCCTTTGATCCTCTTCTT
1 ATTGTTTCCCTTGATCCTCTTCTT
88057 ATTGTTTCCCTTGATCCTCTTCTT
1 ATTGTTTCCCTTGATCCTCTTCTT
88081 A
1 A
88082 ATAGAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.27, G:0.08, T:0.55
Consensus pattern (24 bp):
ATTGTTTCCCTTGATCCTCTTCTT
Found at i:88923 original size:205 final size:205
Alignment explanation
Indices: 88562--88947 Score: 673
Period size: 205 Copynumber: 1.9 Consensus size: 205
88552 GCGATTATCC
* * *
88562 ACAAACGATGTGATCATCTTCCTGATGAGACACTGAGAAGAAGACCCAAACGAGGCTCAAAACGA
1 ACAAACGACGTGATCATCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACGA
* * * *
88627 GCAAAATCTTCGAACCCCAGCTTATTGATGAGACACTGAGAAGCATGTCGAAGCAATAAAAGGTT
66 GCAAAATCTTCGAACCCCAGCTTACTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTT
88692 AGCTTCCTGATGAGAAACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGGTACAGAGGAGCGA
131 AGCTTCCTGATGAGAAACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGGTACAGAGGAGCGA
88757 ATTGAAACAA
196 ATTGAAACAA
*
88767 ACAAGCGACGTGATCATCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACGA
1 ACAAACGACGTGATCATCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACGA
*
88832 GCAAAATCTTCGAACCCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTT
66 GCAAAATCTTCGAACCCCAGCTTACTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTT
* *
88897 AGCTTCTTGATGAGATACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAG
131 AGCTTCCTGATGAGAAACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAG
88948 ACACTGAGAA
Statistics
Matches: 170, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
205 170 1.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (205 bp):
ACAAACGACGTGATCATCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACGA
GCAAAATCTTCGAACCCCAGCTTACTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTT
AGCTTCCTGATGAGAAACTGAGAAGTGAACCAAATTCGTCTTCCTGATGAGGTACAGAGGAGCGA
ATTGAAACAA
Found at i:88974 original size:152 final size:152
Alignment explanation
Indices: 88783--89096 Score: 547
Period size: 152 Copynumber: 2.1 Consensus size: 152
88773 GACGTGATCA
*
88783 TCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACGAGCAAAATCTTCGAACC
1 TCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACAAGCAAAATCTTCGAACC
*
88848 CCAGCTTCCTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTTAGCTTCTTGATGAGAT
66 CCAGCTTCCTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTTAGCTTCCTGATGAGAT
88913 ACTGAGAAGTGAACCAAATTCG
131 ACTGAGAAGTGAACCAAATTCG
* *
88935 TCTTCCTGATGAGACACTGAGAAGAAGACCCAAACGAGGCTCAAAACAAGCAAAATCTTCGAACC
1 TCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACAAGCAAAATCTTCGAACC
* * * * *
89000 CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATTAAAGGTTAGCTTCCTGTTGAGAT
66 CCAGCTTCCTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTTAGCTTCCTGATGAGAT
89065 ACTGAGAAGTGAACCAAATTCG
131 ACTGAGAAGTGAACCAAATTCG
89087 TCTTCCTGAT
1 TCTTCCTGAT
89097 AAGGTACAGA
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
152 153 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (152 bp):
TCTTCCTGATGAGACACTAAGAAGAAGAACCAAACGAGGCTCAAAACAAGCAAAATCTTCGAACC
CCAGCTTCCTGATGAGACACTAAGAAGCAGGTCAAAGCAATAAAAGGTTAGCTTCCTGATGAGAT
ACTGAGAAGTGAACCAAATTCG
Found at i:89175 original size:136 final size:136
Alignment explanation
Indices: 89004--89260 Score: 442
Period size: 136 Copynumber: 1.9 Consensus size: 136
88994 CGAACCCCAG
* * *
89004 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATTAAAGGTTAGCTTCCTGTTGAGATACTG
1 CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTG
* **
89069 AGAAGTGAACCAAATTCGTCTTCCTGATAAGGTACAGAGGAGCGAATTGAAACAAACAACGATGT
66 AGAAGTGAACCAAATTCGTCTTCCTGACAAGACACAGAGGAGCGAATTGAAACAAACAACGATGT
89134 GATCAT
131 GATCAT
*
89140 CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCTTGATGAGATACTG
1 CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTG
*
89205 AGAAGTGAACCAAATTCGTCTTCCTGACGAGACACAGAGGAGCGAATTGAAACAAA
66 AGAAGTGAACCAAATTCGTCTTCCTGACAAGACACAGAGGAGCGAATTGAAACAAA
89261 TCATCTTCCT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
136 113 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (136 bp):
CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATACTG
AGAAGTGAACCAAATTCGTCTTCCTGACAAGACACAGAGGAGCGAATTGAAACAAACAACGATGT
GATCAT
Found at i:89745 original size:11 final size:11
Alignment explanation
Indices: 89726--89781 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
89716 GACTGGGCCC
*
89726 TTTTTAATTTA
1 TTTTAAATTTA
89737 TTTTAAATTTGA
1 TTTTAAATTT-A
89749 -TTTAAATTTAA
1 TTTTAAATTT-A
* *
89760 ATTTAAATTAA
1 TTTTAAATTTA
*
89771 TCTTAAATTTA
1 TTTTAAATTTA
89782 AATTTAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:89759 original size:6 final size:6
Alignment explanation
Indices: 89738--89801 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
89728 TTTAATTTAT
*
89738 TTTAAA TTT-GA TTTAAA TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
89784 TTT-AA TTTCAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA
89802 AAGTCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 2 0.04
5 11 0.22
6 29 0.58
7 8 0.16
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:89760 original size:17 final size:16
Alignment explanation
Indices: 89728--89800 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 16
89718 CTGGGCCCTT
*
89728 TTTAATTTATTTTAAA
1 TTTAATTTAATTTAAA
*
89744 TTTGATTTAAATTTAAA
1 TTTAATTT-AATTTAAA
*
89761 TTTAAATTAATCTTAAA
1 TTTAATTTAAT-TTAAA
89778 TTTAAATTTAATTTCAAA
1 TTT-AATTTAATTT-AAA
89796 TTTAA
1 TTTAA
89801 AAAGTCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.21
17 25 0.52
18 13 0.27
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (16 bp):
TTTAATTTAATTTAAA
Found at i:89790 original size:11 final size:12
Alignment explanation
Indices: 89738--89801 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 12
89728 TTTAATTTAT
*
89738 TTTAAATTT-GA
1 TTTAAATTTAAA
89749 TTTAAATTTAAA
1 TTTAAATTTAAA
89761 TTTAAA-TT-AA
1 TTTAAATTTAAA
89771 TCTTAAATTTAAA
1 T-TTAAATTTAAA
89784 TTT-AATTTCAAA
1 TTTAAATTT-AAA
89796 TTTAAA
1 TTTAAA
89802 AAGTCCAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
10 3 0.07
11 21 0.46
12 17 0.37
13 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:90792 original size:16 final size:16
Alignment explanation
Indices: 90771--90803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90761 CGTTGCTTTA
90771 AAAAAGAGAAA-AAAGG
1 AAAAAG-GAAAGAAAGG
90787 AAAAAGGAAAGAAAGG
1 AAAAAGGAAAGAAAGG
90803 A
1 A
90804 GAGTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAAAGGAAAGAAAGG
Found at i:91548 original size:11 final size:11
Alignment explanation
Indices: 91529--91584 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
91519 GACTGGGCCC
*
91529 TTTTTAATTTA
1 TTTTAAATTTA
91540 TTTTAAATTTGA
1 TTTTAAATTT-A
91552 -TTTAAATTTAA
1 TTTTAAATTT-A
* *
91563 ATTTAAATTAA
1 TTTTAAATTTA
*
91574 TCTTAAATTTA
1 TTTTAAATTTA
91585 AATTTAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:91562 original size:6 final size:6
Alignment explanation
Indices: 91541--91604 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
91531 TTTAATTTAT
*
91541 TTTAAA TTT-GA TTTAAA TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
91587 TTT-AA TTTCAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA
91605 AAGTCCAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 2 0.04
5 11 0.22
6 29 0.58
7 8 0.16
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:91563 original size:17 final size:16
Alignment explanation
Indices: 91531--91603 Score: 83
Period size: 17 Copynumber: 4.3 Consensus size: 16
91521 CTGGGCCCTT
*
91531 TTTAATTTATTTTAAA
1 TTTAATTTAATTTAAA
*
91547 TTTGATTTAAATTTAAA
1 TTTAATTT-AATTTAAA
*
91564 TTTAAATTAATCTTAAA
1 TTTAATTTAAT-TTAAA
91581 TTTAAATTTAATTTCAAA
1 TTT-AATTTAATTT-AAA
91599 TTTAA
1 TTTAA
91604 AAAGTCCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.21
17 25 0.52
18 13 0.27
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (16 bp):
TTTAATTTAATTTAAA
Found at i:91593 original size:11 final size:12
Alignment explanation
Indices: 91541--91604 Score: 73
Period size: 11 Copynumber: 5.5 Consensus size: 12
91531 TTTAATTTAT
*
91541 TTTAAATTT-GA
1 TTTAAATTTAAA
91552 TTTAAATTTAAA
1 TTTAAATTTAAA
91564 TTTAAA-TT-AA
1 TTTAAATTTAAA
91574 TCTTAAATTTAAA
1 T-TTAAATTTAAA
91587 TTT-AATTTCAAA
1 TTTAAATTT-AAA
91599 TTTAAA
1 TTTAAA
91605 AAGTCCAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
10 3 0.07
11 21 0.46
12 17 0.37
13 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:92595 original size:16 final size:16
Alignment explanation
Indices: 92574--92606 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92564 CGTTGCTTTA
92574 AAAAAGAGAAA-AAAGG
1 AAAAAG-GAAAGAAAGG
92590 AAAAAGGAAAGAAAGG
1 AAAAAGGAAAGAAAGG
92606 A
1 A
92607 GAGTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAAAAGGAAAGAAAGG
Found at i:93387 original size:29 final size:28
Alignment explanation
Indices: 93353--93777 Score: 293
Period size: 29 Copynumber: 14.6 Consensus size: 28
93343 TAAAATGTCC
93353 AAAAATTACCATTTTACCCCCAAACTTCT
1 AAAAA-TACCATTTTACCCCCAAACTTCT
* * * *
93382 AAAAATCCCATTTTAACCTCGAAACTTCC
1 AAAAATACCATTTT-ACCCCCAAACTTCT
* * *
93411 AAAAATTACCATTTTA-CCTCGAACTTCC
1 AAAAA-TACCATTTTACCCCCAAACTTCT
* ** * *
93439 AAAAATCCCATTTTTGACCCTTAAACTACC
1 AAAAATACCA-TTTT-ACCCCCAAACTTCT
93469 AAAAATTACCATTTTA-CCCCATAACTTCT
1 AAAAA-TACCATTTTACCCCCA-AACTTCT
* *
93498 AAAAATCCCATTTTTAACCCCAAAACTTCT
1 AAAAATACCA-TTTT-ACCCCCAAACTTCT
93528 AAAAATTACCATTTTACCCCCAAACTTCT
1 AAAAA-TACCATTTTACCCCCAAACTTCT
*** *
93557 AAAAAT-CTCATTTTTAACCTTGAAACTACT
1 AAAAATAC-CA-TTTT-ACCCCCAAACTTCT
* * *
93587 AAAAACTACCATTTTATCCCTAAACTTCC
1 AAAAA-TACCATTTTACCCCCAAACTTCT
* ** *
93616 AAAAATCCCATTTTGACCCTAAAACTTCC
1 AAAAATACCATTTT-ACCCCCAAACTTCT
* * *
93645 AAAAATTACCATTTTACCCTCGAACTTCC
1 AAAAA-TACCATTTTACCCCCAAACTTCT
* * *
93674 AAAAATCCCATTTTGACCTCGAAACTT-T
1 AAAAATACCATTTT-ACCCCCAAACTTCT
* *
93702 CAAAAATTACCATTTTACGCCCGAACTTCT
1 -AAAAA-TACCATTTTACCCCCAAACTTCT
* *
93732 AAAAATCCCATTTTGACCCCGAAACGTTC-
1 AAAAATACCATTTT-ACCCCCAAAC-TTCT
*
93761 AAAAATTACTATTTTAC
1 AAAAA-TACCATTTTAC
93778 TCCTGGATGT
Statistics
Matches: 315, Mismatches: 56, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
27 5 0.02
28 59 0.19
29 146 0.46
30 89 0.28
31 15 0.05
32 1 0.00
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.31
Consensus pattern (28 bp):
AAAAATACCATTTTACCCCCAAACTTCT
Found at i:93420 original size:58 final size:58
Alignment explanation
Indices: 93350--93777 Score: 506
Period size: 58 Copynumber: 7.3 Consensus size: 58
93340 CCCTAAAATG
*
93350 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTAACCTCGAAACT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTGACCTCGAAACT
* * * *
93408 TCCAAAAATTACCATTTTA-CCTCGAACTTCCAAAAATCCCATTTTTGACC-CTTAAACT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCA-TTTTGACCTC-GAAACT
* * * *
93466 ACCAAAAATTACCATTTTA-CCCCATAACTTCTAAAAATCCCATTTTTAACCCCAAAACT
1 TCCAAAAATTACCATTTTACCCCCA-AACTTCTAAAAATCCCA-TTTTGACCTCGAAACT
* * * *
93525 TCTAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCTCATTTTTAACCTTGAAACT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCA-TTTTGACCTCGAAACT
* * * * * * *
93584 ACTAAAAACTACCATTTTATCCCTAAACTTCCAAAAATCCCATTTTGACC-CTAAAACT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTGACCTC-GAAACT
* * *
93642 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTGACCTCGAAACT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTGACCTCGAAACT
* * * *
93700 TTCAAAAATTACCATTTTACGCCCGAACTTCTAAAAATCCCATTTTGACCCCGAAACGT
1 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTGACCTCGAAAC-T
*
93759 T-CAAAAATTACTATTTTAC
1 TCCAAAAATTACCATTTTAC
93778 TCCTGGATGT
Statistics
Matches: 322, Mismatches: 40, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
57 20 0.06
58 181 0.56
59 115 0.36
60 6 0.02
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.31
Consensus pattern (58 bp):
TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATCCCATTTTGACCTCGAAACT
Found at i:95146 original size:17 final size:17
Alignment explanation
Indices: 95110--95182 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
95100 CCTTTAATTT
*
95110 AATTTTAATTTAAAAATA
1 AATTTAAATTT-AAAATA
*
95128 AATTTAAATTTAAAGTA
1 AATTTAAATTTAAAATA
* * * *
95145 AATTCAAACTCAAAATG
1 AATTTAAATTTAAAATA
*
95162 AATTTGAATTTAAAATA
1 AATTTAAATTTAAAATA
95179 AATT
1 AATT
95183 CAAACTTATT
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
17 33 0.77
18 10 0.23
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:95160 original size:34 final size:34
Alignment explanation
Indices: 95122--95188 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
95112 TTTTAATTTA
*
95122 AAAATAAATTTAAATTTAAAGTAAATTCAAACTC
1 AAAATAAATTTAAATTTAAAATAAATTCAAACTC
* *
95156 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAATTTAAATTTAAAATAAATTCAAACT
95189 TATTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (34 bp):
AAAATAAATTTAAATTTAAAATAAATTCAAACTC
Found at i:96032 original size:25 final size:27
Alignment explanation
Indices: 95984--96033 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
95974 GAAACCAAAG
95984 ATAAAATTTTAATATAATTAATATAAA
1 ATAAAATTTTAATATAATTAATATAAA
* *
96011 ATAATATTTT-AT-TAATTTATATA
1 ATAAAATTTTAATATAATTAATATA
96034 GAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 2 0.10
27 9 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATAAAATTTTAATATAATTAATATAAA
Found at i:99166 original size:15 final size:15
Alignment explanation
Indices: 99148--99177 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99138 AACTGATGAC
99148 ACATGAACAAAAACA
1 ACATGAACAAAAACA
99163 ACATGAACAAAAACA
1 ACATGAACAAAAACA
99178 TTGAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
ACATGAACAAAAACA
Found at i:103928 original size:2 final size:2
Alignment explanation
Indices: 103921--103957 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
103911 ATATTAGTAA
103921 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
103958 AAAGAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:104029 original size:2 final size:2
Alignment explanation
Indices: 104024--104053 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104014 AAATAACAGA
104024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
104054 CTAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105124 original size:14 final size:15
Alignment explanation
Indices: 105098--105156 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
105088 TTTTGTTTTT
105098 CTTTTCTTCTTTGTC
1 CTTTTCTTCTTTGTC
*
105113 CTTTTC-TCTTTGTTT
1 CTTTTCTTCTTTG-TC
*
105128 TTTTTCTTC-TTGTC
1 CTTTTCTTCTTTGTC
* *
105142 TCTGTGCTTCTTTGT
1 -CTTTTCTTCTTTGT
105157 TTCGTGCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 7 0.21
15 21 0.62
16 6 0.18
ACGTcount: A:0.00, C:0.22, G:0.10, T:0.68
Consensus pattern (15 bp):
CTTTTCTTCTTTGTC
Found at i:111410 original size:2 final size:2
Alignment explanation
Indices: 111397--111444 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
111387 AAAATTATGG
*
111397 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111439 AT AT AT
1 AT AT AT
111445 GATTATGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:119456 original size:77 final size:77
Alignment explanation
Indices: 119346--119619 Score: 289
Period size: 77 Copynumber: 3.6 Consensus size: 77
119336 GGGCACAAGT
* * * *
119346 CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATATTTGTCGATTTACTCAACTAGCG
1 CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATATTCGTCAATTTACCCAAATAGCG
*
119411 CTGCGCATAAAA
66 CTGCGCACAAAA
* * * * *
119423 CATCATTGGTTTATCCAAATAGAGCTAGACTCACATTTGATATTCGTCAATTTACCCAAATAGCG
1 CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATATTCGTCAATTTACCCAAATAGCG
* * *
119488 TTGGGCGCAAAA
66 CTGCGCACAAAA
* * * ** ** * * *
119500 CATTGTTGGCATATCCAACTAGAGCTGGGCTCACATTTGATATTCATGGATTTATTCGACTAGCA
1 CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATATTCGTCAATTTACCCAAATAGCG
*
119565 CTG-GGAGCAAAA
66 CTGCGCA-CAAAA
* * *
119577 TATTGTTGGTATATCCAACTAGAGCTGGGCTCACAATTGATAT
1 CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATAT
119620 CGTTAGTTTA
Statistics
Matches: 162, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
76 1 0.01
77 161 0.99
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (77 bp):
CATCGTTGGTATATCCAACTAGAGCTGGGCTCACATTTGATATTCGTCAATTTACCCAAATAGCG
CTGCGCACAAAA
Found at i:122294 original size:29 final size:30
Alignment explanation
Indices: 122236--122295 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
122226 AATATTTTGG
122236 AATAAGATTCAGAGATTTTTTTTATACAAC
1 AATAAGATTCAGAGATTTTTTTTATACAAC
122266 AATAAGATTCAGAGA-TTTTTTTATACAAC
1 AATAAGATTCAGAGATTTTTTTTATACAAC
122295 A
1 A
122296 CTCAGAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (30 bp):
AATAAGATTCAGAGATTTTTTTTATACAAC
Found at i:122330 original size:26 final size:24
Alignment explanation
Indices: 122272--122330 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
122262 CAACAATAAG
*
122272 ATTCAGAG-ATTTTTTTATACAAC
1 ATTCAGAGAATTTTTTTAGACAAC
*
122295 ACTCAGAGAATTTGTTTTAGACATAC
1 ATTCAGAGAATTT-TTTTAGACA-AC
*
122321 ATTCAAAGAA
1 ATTCAGAGAA
122331 AATTCAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 7 0.24
24 4 0.14
25 8 0.28
26 10 0.34
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (24 bp):
ATTCAGAGAATTTTTTTAGACAAC
Found at i:126379 original size:54 final size:54
Alignment explanation
Indices: 126275--126379 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 54
126265 AAGAGGGTTT
* * **
126275 GAGTTGAAAACTTGAAAGGGCATCTCAAACTAGCAAAAAAAAGGCAAAAAGTTC
1 GAGTTGAAAACCTGAAAGGGCAGCTCAAACTAGCAAAAAAAAGAAAAAAAGTTC
126329 GAGTTGAAAACCTGAAAGGGCAGCTCAAACTAGCAAAAAAAA-AAAGAAAAG
1 GAGTTGAAAACCTGAAAGGGCAGCTCAAACTAGCAAAAAAAAGAAA-AAAAG
126380 AAAAGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.51, C:0.14, G:0.21, T:0.13
Consensus pattern (54 bp):
GAGTTGAAAACCTGAAAGGGCAGCTCAAACTAGCAAAAAAAAGAAAAAAAGTTC
Found at i:126392 original size:9 final size:9
Alignment explanation
Indices: 126366--126441 Score: 75
Period size: 9 Copynumber: 8.6 Consensus size: 9
126356 AACTAGCAAA
126366 AAAAAAAAG
1 AAAAAAAAG
126375 AAAAGAAAAG
1 AAAA-AAAAG
126385 AAAAAAAAG
1 AAAAAAAAG
* *
126394 -AAAGATA-
1 AAAAAAAAG
*
126401 AAAAAAAAT
1 AAAAAAAAG
*
126410 AAAAAAGAG
1 AAAAAAAAG
**
126419 GGAAAAAAG
1 AAAAAAAAG
126428 AAAAAAAAG
1 AAAAAAAAG
126437 AAAAA
1 AAAAA
126442 GAAGGGTCTA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
8 10 0.19
9 34 0.64
10 9 0.17
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:127756 original size:98 final size:97
Alignment explanation
Indices: 127459--128238 Score: 374
Period size: 98 Copynumber: 8.0 Consensus size: 97
127449 ATCCTAGAGT
* * * * * **
127459 TGAAGAGGGATAGGTTGAAGCCATAACGGTGGACCTAATA-CCTTAAACCGAAGAGGGAAAGATT
1 TGAAGAGGGATAGGTTGAAG-CGTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATT
*
127523 GAAGCCGTAAC-AGTAGATCTTACACCTTAAATC
65 GAAGCCGTAACGA-TAGATCTTACACCTTAAAAC
* * * * ***
127556 -GAAGAGGGATAGATTAAAGCTGTAATGATAGACTTAACACCCTAAAACCAAAGAGGG-AAGATT
1 TGAAGAGGGATAGGTTGAAGC-GTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATT
* * *
127619 GGAGCCGTAACGGTGGATCTTACACCTTAAAAC
65 GAAGCCGTAACGATAGATCTTACACCTTAAAAC
* **
127652 TGAAGAGGGATAGGTTGAAGTCGTAACGATAAACCTAACATTCTAAAATTGAAGAGGGAAAGATT
1 TGAAGAGGGATAGGTTGAAG-CGTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATT
***
127717 GAAGTAATAACGATAGATCTTACACCTTAAAAC
65 GAAGCCGTAACGATAGATCTTACACCTTAAAAC
* * * * * * * *
127750 TAAAGAGGGATCGGTTGAAGCCGTGACGATGGACCTAACACCCTGAAATTGAAGAAGGATAGGTT
1 TGAAGAGGGATAGGTTGAAG-CGTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATT
** * * * * *
127815 GAAGATGGAATGAGT-GACCTAACACCCTAAAA-
65 GAAGCCGTAACGA-TAGATCTTACACCTTAAAAC
* * * * * * ** * * * * * ** *
127847 TCAAAAAGGGAAAGATTAAAGTCGCAACGACGGATCTTACACCTTAAGATTGAAAAGGGGTAGGT
1 T-GAAGAGGGATAGGTTGAAG-CGTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGAT
* * * * * * * *
127912 TGAAGCTGCAATGGTAGACCTAACACCCTAAAAT
64 TGAAGCCGTAACGATAGATCTTACACCTTAAAAC
* * * * ** * * * * * *
127946 TAAAGAGGGAAAGATTGAAGCTGTAATGACGGATCTTACACCTTAAAACTGAAGAGGGATAGGTT
1 TGAAGAGGGATAGGTTGAAGC-GTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATT
* * * ** *
128011 GAAACCGTAATGAT-GAACTTAACACCCGAAAAT
65 GAAGCCGTAACGATAGATCTT-ACACCTTAAAAC
* * ** * * * * * * *
128044 TGAAAAGGAATAAATT-AATGCAGCAACGATAAATCTAACACCATAAAATCGAAGAGGGATATAT
1 TGAAGAGGGATAGGTTGAA-GC-GTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGAT
* * * * *
128108 TGAAGCTGTAATGATGGATCTAACACCCTAAAA-
64 TGAAGCCGTAACGATAGATCTTACACCTTAAAAC
* * * * ** * *
128141 TAGAAGAGGGATAGATTGAAGTCGCAATGA-CGAATTTAACACCCTAAAATCGAAGAGGAAAAGA
1 T-GAAGAGGGATAGGTTGAAG-CGTAACGATAG-ACCTAACACCCTAAAATTGAAGAGGGAAAGA
* * * *
128205 TTGAAGCCGCAACGGTAAATCTTACTCCTTAAAA
63 TTGAAGCCGTAACGATAGATCTTACACCTTAAAA
128239 AAACTGAAAA
Statistics
Matches: 538, Mismatches: 127, Indels: 35
0.77 0.18 0.05
Matches are distributed among these distances:
95 1 0.00
96 63 0.12
97 70 0.13
98 395 0.73
99 9 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.21
Consensus pattern (97 bp):
TGAAGAGGGATAGGTTGAAGCGTAACGATAGACCTAACACCCTAAAATTGAAGAGGGAAAGATTG
AAGCCGTAACGATAGATCTTACACCTTAAAAC
Found at i:127845 original size:147 final size:145
Alignment explanation
Indices: 127461--128162 Score: 431
Period size: 147 Copynumber: 4.8 Consensus size: 145
127451 CCTAGAGTTG
* * * ** * *
127461 AAGAGGGATAGGTTGAAGCCATAACGGTGGACCTAATA-CCTTAAACCGAAGAGGGAAAGATTGA
1 AAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTGA
* * * * * * *
127525 AGCCGTAA-CAGTAGATCTTACA-CCTTAAATCGAAGAGGGATAGATTAAAGCTGTAATGATAGA
66 AG-TGTAATGAGT-GACCTAACACCCTAAAATCGAAGAGGGAAAGATTAAAG-TGTAACGATAGA
* *
127588 -CTTAACACCCTAAAACCA
128 TCTT-ACACCTTAAAACTA
* * * * * *
127606 AAGAGGGA-AGATTGGAGCCGTAACGGTGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
1 AAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTGA
* * ** * * *
127670 AGTCGTAACGA-TAAACCTAACATTCTAAAATTGAAGAGGGAAAGATTGAAGTAATAACGATAGA
66 AGT-GTAATGAGT-GACCTAACACCCTAAAATCGAAGAGGGAAAGATTAAAGT-GTAACGATAGA
127734 TCTTACACCTTAAAACTA
128 TCTTACACCTTAAAACTA
* * * * *
127752 AAGAGGGATCGGTTGAAGCCGTGACGATGGACCTAACACCCTGAAATTGAAGAAGGATAGGTTGA
1 AAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTGA
* * * * **
127817 AGATGGAATGAGTGACCTAACACCCTAAAATCAAAAAGGGAAAGATTAAAGTCGCAACGACGGAT
66 AG-TGTAATGAGTGACCTAACACCCTAAAATCGAAGAGGGAAAGATTAAAGT-GTAACGATAGAT
* *
127882 CTTACACCTTAAGATTGA
129 CTTACACCTTAAAACT-A
* * * * * * * *
127900 AA-AGGGGTAGGTTGAAGCTGCAATGGTAGACCTAACACCCTAAAATTAAAGAGGGAAAGATTGA
1 AAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTGA
* * * * * ** *
127964 AGCTGTAATGACG-GATCTTACACCTTAAAA-CTGAAGAGGGATAGGTTGAAACCGTAATGAT-G
66 AG-TGTAATGA-GTGACCTAACACCCTAAAATC-GAAGAGGGAAAGATT-AAAGTGTAACGATAG
* ** *
128026 AACTTAACACCCGAAAATTGA
127 ATCTT-ACACCTTAAAACT-A
* ** * * * ** * * * **
128047 AA-AGGAATAAATT-AATGCAGCAACGATAAATCTAACACCATAAAATCGAAGAGGGATATATTG
1 AAGAGGGATAGGTTGAA-GCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTG
* * * *
128110 AAGCTGTAATGA-TGGATCTAACACCCTAAAATAGAAGAGGGATAGATTGAAGT
65 AAG-TGTAATGAGT-GACCTAACACCCTAAAATCGAAGAGGGAAAGATTAAAGT
128163 CGCAATGACG
Statistics
Matches: 435, Mismatches: 104, Indels: 35
0.76 0.18 0.06
Matches are distributed among these distances:
144 23 0.05
145 44 0.10
146 63 0.14
147 296 0.68
148 9 0.02
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (145 bp):
AAGAGGGATAGGTTGAAGCCGTAACGGTGGACCTAACACCCTAAAATTGAAGAGGGATAGGTTGA
AGTGTAATGAGTGACCTAACACCCTAAAATCGAAGAGGGAAAGATTAAAGTGTAACGATAGATCT
TACACCTTAAAACTA
Found at i:128170 original size:49 final size:49
Alignment explanation
Indices: 127508--128210 Score: 337
Period size: 49 Copynumber: 14.4 Consensus size: 49
127498 ACCTTAAACC
* * * * * * *
127508 GAAGAGGGAAAGATTGAAGCCGTAA-CAGTAGATCTTACA-CCTTAAATC
1 GAAGAGGGATAGATTGAAGTCGTAATGA-TGGATCTAACACCCTAAAATA
* * *
127556 GAAGAGGGATAGATTAAAG-CTGTAATGATAGA-CTTAACACCCTAAAACCA
1 GAAGAGGGATAGATTGAAGTC-GTAATGATGGATC-TAACACCCTAAAA-TA
* * * * * *
127606 -AAGAGGGA-AGATTGGAGCCGTAACGGTGGATCTTACACCTTAAAACT-
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAA-TA
* * ** * ** *
127653 GAAGAGGGATAGGTTGAAGTCGTAACGATAAACCTAACATTCTAAAATT
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAATA
* ** * * * *
127702 GAAGAGGGAAAGATTGAAGTAATAACGATAGATCTTACACCTTAAAACTA
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAA-TA
* * * * * * * *
127752 -AAGAGGGATCGGTTGAAGCCGTGACGATGGACCTAACACCCTGAAATT
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAATA
* * * *
127800 GAAGAAGGATAGGTTGAAGAT-GGAATGA-GTGACCTAACACCCTAAAATCA
1 GAAGAGGGATAGATTGAAG-TCGTAATGATG-GATCTAACACCCTAAAAT-A
* * * * * * * * * *
127850 -AAAAGGGAAAGATTAAAGTCGCAACGACGGATCTTACACCTTAAGATT
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAATA
* * * * * * *
127898 GAAAAGGGGTAGGTTGAAG-CTGCAATGGTAGACCTAACACCCTAAAATTA
1 GAAGAGGGATAGATTGAAGTC-GTAATGATGGATCTAACACCCTAAAA-TA
* * * *
127948 -AAGAGGGAAAGATTGAAG-CTGTAATGACGGATCTTACACCTTAAAACT-
1 GAAGAGGGATAGATTGAAGTC-GTAATGATGGATCTAACACCCTAAAA-TA
* ** * * *
127996 GAAGAGGGATAGGTTGAAACCGTAATGAT-GAACTTAACACCCGAAAATT
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATC-TAACACCCTAAAATA
* * * * * ** * *
128045 GAAAAGGAATAAATT-AA-TGCAGCAACGATAAATCTAACACCATAAAATC
1 GAAGAGGGATAGATTGAAGT-C-GTAATGATGGATCTAACACCCTAAAATA
*
128094 GAAGAGGGATATATTGAAG-CTGTAATGATGGATCTAACACCCTAAAATA
1 GAAGAGGGATAGATTGAAGTC-GTAATGATGGATCTAACACCCTAAAATA
* * * * *
128143 GAAGAGGGATAGATTGAAGTCGCAATGACGAATTTAACACCCTAAAATC
1 GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAATA
* *
128192 GAAGAGGAAAAGATTGAAG
1 GAAGAGGGATAGATTGAAG
128211 CCGCAACGGT
Statistics
Matches: 492, Mismatches: 133, Indels: 59
0.72 0.19 0.09
Matches are distributed among these distances:
47 2 0.00
48 76 0.15
49 405 0.82
50 9 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (49 bp):
GAAGAGGGATAGATTGAAGTCGTAATGATGGATCTAACACCCTAAAATA
Found at i:128238 original size:147 final size:147
Alignment explanation
Indices: 127833--128226 Score: 402
Period size: 147 Copynumber: 2.7 Consensus size: 147
127823 AATGAGTGAC
* * * * * * *
127833 CTAACACCCTAAAATCA-AAAAGGGAAAGATTAAAGTCGCAACGACGGATCTT-ACACCTTAAGA
1 CTAACACCCTAAAAT-AGAAGAGGGATAGATTGAAGTCGCAATGACGAAT-TTAACACCCTAAAA
*** * * * * * * *
127896 TTGAAAAGGGGTAGGTTGAAGCTGCAATGGTAGACCTAACACCCTAAAATTAAAGAGGGAAAGAT
64 TTGAAAAGGAAAAGATTGAAGCAGCAACGGTAAATCTAACACCATAAAATCAAAGAGGGAAAGAT
127961 TGAAGCTGTAATGACGGAT
129 TGAAGCTGTAATGACGGAT
* * * ** * * * *
127980 CTTACACCTTAAAACT-GAAGAGGGATAGGTTGAAACCGTAATGATGAACTTAACACCCGAAAAT
1 CTAACACCCTAAAA-TAGAAGAGGGATAGATTGAAGTCGCAATGACGAATTTAACACCCTAAAAT
* * * *
128044 TGAAAAGGAATAA-ATT-AATGCAGCAACGATAAATCTAACACCATAAAATCGAAGAGGGATATA
65 TGAAAAGGAA-AAGATTGAA-GCAGCAACGGTAAATCTAACACCATAAAATCAAAGAGGGAAAGA
*
128107 TTGAAGCTGTAATGATGGAT
128 TTGAAGCTGTAATGACGGAT
*
128127 CTAACACCCTAAAATAGAAGAGGGATAGATTGAAGTCGCAATGACGAATTTAACACCCTAAAATC
1 CTAACACCCTAAAATAGAAGAGGGATAGATTGAAGTCGCAATGACGAATTTAACACCCTAAAATT
* *
128192 GAAGAGGAAAAGATTGAAGCCGCAACGGTAAATCT
66 GAAAAGGAAAAGATTGAAGCAGCAACGGTAAATCT
128227 TACTCCTTAA
Statistics
Matches: 195, Mismatches: 44, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
146 7 0.04
147 184 0.94
148 4 0.02
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.20
Consensus pattern (147 bp):
CTAACACCCTAAAATAGAAGAGGGATAGATTGAAGTCGCAATGACGAATTTAACACCCTAAAATT
GAAAAGGAAAAGATTGAAGCAGCAACGGTAAATCTAACACCATAAAATCAAAGAGGGAAAGATTG
AAGCTGTAATGACGGAT
Found at i:128386 original size:90 final size:89
Alignment explanation
Indices: 128292--128981 Score: 657
Period size: 90 Copynumber: 7.6 Consensus size: 89
128282 AATCTAGAGA
* * * * * *
128292 GGCAGATTAAAGTCACCATCCAATCTTTTACTCCTAATCGAGAGGGGCATATTAAAGCCACCATC
1 GGCAGATTGAAG-CACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
*
128357 CAATTTTTTACCCCTAATCTAAAGG
65 CAATCTTTTACCCCTAATCTAAAGG
* * *
128382 GGCAGATTAAAGTCACCATCCAATATTTTACCCCTAAACCAAAGGGGCAGATTGAAGCCACCATC
1 GGCAGATTGAAG-CACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
*
128447 CAATCTTTTACCCTTAATCTAGAA-G
65 CAATCTTTTACCCCTAATCTA-AAGG
* * * * * * * * *
128472 GGAAAATTAAAGCAACCATCCAGTTTTTTACCCCTGATCCAAAGAGGTAGATTGAAGCCCCCATC
1 GGCAGATTGAAGC-ACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
* * * *
128537 CAGTTTTTTACCTCTAATCTAGAGG
65 CAATCTTTTACCCCTAATCTAAAGG
* * * * * *
128562 GGCAAATTGAAGCAACCATCTAGTCTTTTACCCCTAATCCAAAAGGGCATATTGAAGCAACCATC
1 GGCAGATTGAAGC-ACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
* *
128627 CAGTCTTTTAGCCCC-AATCCAAAGG
65 CAATCTTTTA-CCCCTAATCTAAAGG
* * * * *
128652 GGCATATTGAAGCCACCATCTAGTCTTTTACCCTTAATCCAAAGGGGCAGATTGAAGTCACCATC
1 GGCAGATTGAAG-CACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
* * * *
128717 TAATCTTTTACCTCTAATCCAGAGG
65 CAATCTTTTACCCCTAATCTAAAGG
* * * * *
128742 GGCAGATTGAAGCAACCAGCCAGTCTTTTAGCCCTAATCCAGAGGGGCATATTGAAGCCACCATC
1 GGCAGATTGAAGC-ACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
* * *
128807 CAGTCTTCTTTTACCCTTAAT-TCAAAAG
65 CA---ATCTTTTACCCCTAATCT-AAAGG
* ** ** * * *
128835 GGCATATTGAAGCCACCATATAATCTTTTACATCTAATTCAAAGGGGCAAATTGAAGTCACCATC
1 GGCAGATTGAAG-CACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATC
* * * *
128900 TAATATTTTACCCCTAATCCAGAGG
65 CAATCTTTTACCCCTAATCTAAAGG
* * *
128925 GGCAGATTGAAGCCACCATCTAATCTTTTACCCCTAATCTAGAGGGGCAGATTGAAG
1 GGCAGATTGAAG-CACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAG
128982 TTACCAAAAC
Statistics
Matches: 497, Mismatches: 90, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
89 6 0.01
90 416 0.84
91 6 0.01
93 68 0.14
94 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (89 bp):
GGCAGATTGAAGCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCATCC
AATCTTTTACCCCTAATCTAAAGG
Found at i:128431 original size:135 final size:135
Alignment explanation
Indices: 128250--129005 Score: 716
Period size: 135 Copynumber: 5.6 Consensus size: 135
128240 AACTGAAAAA
* * * * * * *
128250 ATTGAAGTCACCATATCTAATCTTTTACTCCTAATCTAGAGAGGCAGATTAAAGTCACCATCCAA
1 ATTGAAGCCACC--ATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACCATCCAA
* * * * * *
128315 TCTTTTACTCCTAATCGAGAGGGGCATATTAAAGCCACCATCCAATTTTTTACCCCTAATCTAAA
64 TCTTTTACTCCTAATCCAGAGGGGCAAATTAAAGCAACCATCCAGTCTTTTACCCCTAATCCAAA
128380 GGGGCAG
129 GGGGCAG
* * * * *
128387 ATTAAAGTCACCATCCAATATTTTACCCCTAAACCAAAGGGGCAGATTGAAGCCACCATCCAATC
1 ATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACCATCCAATC
* * * * *
128452 TTTTAC-CCTTAATCTAGAAGGGAAAATTAAAGCAACCATCCAGTTTTTTACCCCTGATCCAAAG
66 TTTTACTCC-TAATCCAGAGGGGCAAATTAAAGCAACCATCCAGTCTTTTACCCCTAATCCAAAG
* *
128516 AGGTAG
130 GGGCAG
* * * * * * * * *
128522 ATTGAAGCCCCCATCCAGTTTTTTACCTCTAATCTAGAGGGGCAAATTGAAG-CAACCATCTAGT
1 ATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTC-ACCATCCAAT
* * * * *
128586 CTTTTACCCCTAATCCAAAAGGGCATATTGAAGCAACCATCCAGTCTTTTAGCCCC-AATCCAAA
65 CTTTTACTCCTAATCCAGAGGGGCAAATTAAAGCAACCATCCAGTCTTTTA-CCCCTAATCCAAA
*
128650 GGGGCAT
129 GGGGCAG
* * * *
128657 ATTGAAGCCACCATCTAGTCTTTTACCCTTAATCCAAAGGGGCAGATTGAAGTCACCATCTAATC
1 ATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACCATCCAATC
* * * * *
128722 TTTTAC-CTCTAATCCAGAGGGGCAGATTGAAGCAACCAGCCAGTCTTTTAGCCCTAATCCAGAG
66 TTTTACTC-CTAATCCAGAGGGGCAAATTAAAGCAACCATCCAGTCTTTTACCCCTAATCCAAAG
*
128786 GGGCAT
130 GGGCAG
* * * * * * **
128792 ATTGAAGCCACCATCCAGTCTTCTTTTACCCTTAATTCAAAAGGGCATATTGAAGCCACCATATA
1 ATTGAAGCCACCATCCA---ATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACCATCCA
* * * * * *
128857 ATCTTTTACAT-CTAATTCAAAGGGGCAAATTGAAGTC-ACCATCTAATATTTTACCCCTAATCC
63 ATCTTTTAC-TCCTAATCCAGAGGGGCAAATTAAAG-CAACCATCCAGTCTTTTACCCCTAATCC
*
128920 AGAGGGGCAG
126 AAAGGGGCAG
* * * * *
128930 ATTGAAGCCACCATCTAATCTTTTACCCCTAATCTAGAGGGGCAGATTGAAGTTACCAAAACCAA
1 ATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACC--ATCCAA
128995 TCTTTTA-TCCT
64 TCTTTTACTCCT
129006 TAAATCGAGG
Statistics
Matches: 517, Mismatches: 86, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
134 7 0.01
135 364 0.70
136 9 0.02
137 21 0.04
138 115 0.22
139 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (135 bp):
ATTGAAGCCACCATCCAATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGTCACCATCCAATC
TTTTACTCCTAATCCAGAGGGGCAAATTAAAGCAACCATCCAGTCTTTTACCCCTAATCCAAAGG
GGCAG
Found at i:128501 original size:45 final size:45
Alignment explanation
Indices: 128270--128981 Score: 543
Period size: 45 Copynumber: 15.8 Consensus size: 45
128260 CCATATCTAA
* * * *
128270 TCTTTTACTCC-TAATCTAG-AGAGGCAGATTAAAGTCACCATCCAA
1 TCTTTTAC-CCTTAATCCAGAAG-GGCAGATTGAAGCCACCATCCAG
* * * * *
128315 TCTTTTACTCC-TAATCGAGAGGGGCATATTAAAGCCACCATCCAA
1 TCTTTTAC-CCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * * * * *
128360 TTTTTTACCCCTAATCTA-AAGGGGCAGATTAAAGTCACCATCCAA
1 TCTTTTACCCTTAATCCAGAA-GGGCAGATTGAAGCCACCATCCAG
* * * *
128405 TATTTTACCCCTAAACCA-AAGGGGCAGATTGAAGCCACCATCCAA
1 TCTTTTACCCTTAATCCAGAA-GGGCAGATTGAAGCCACCATCCAG
* * * * *
128450 TCTTTTACCCTTAATCTAGAAGGGAAAATTAAAGCAACCATCCAG
1 TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * * * *
128495 TTTTTTACCCCTGATCCA-AAGAGGTAGATTGAAGCCCCCATCCAG
1 TCTTTTACCCTTAATCCAGAAG-GGCAGATTGAAGCCACCATCCAG
* * * * * *
128540 TTTTTTA-CCTCTAATCTAGAGGGGCAAATTGAAGCAACCATCTAG
1 TCTTTTACCCT-TAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * * *
128585 TCTTTTACCCCTAATCCAAAAGGGCATATTGAAGCAACCATCCAG
1 TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * *
128630 TCTTTTAGCCC-CAATCCA-AAGGGGCATATTGAAGCCACCATCTAG
1 TCTTTTA-CCCTTAATCCAGAA-GGGCAGATTGAAGCCACCATCCAG
* * *
128675 TCTTTTACCCTTAATCCA-AAGGGGCAGATTGAAGTCACCATCTAA
1 TCTTTTACCCTTAATCCAGAA-GGGCAGATTGAAGCCACCATCCAG
* * *
128720 TCTTTTA-CCTCTAATCCAGAGGGGCAGATTGAAGCAACCAGCCAG
1 TCTTTTACCCT-TAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* *
128765 TCTTTTAGCCC-TAATCCAGAGGGGCATATTGAAGCCACCATCCAG
1 TCTTTTA-CCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * * ** *
128810 TCTTCTTTTACCCTTAATTCAAAAGGGCATATTGAAGCCACCATATAA
1 ---TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * * * * *
128858 TCTTTTA-CATCTAATTCA-AAGGGGCAAATTGAAGTCACCATCTAA
1 TCTTTTACCCT-TAATCCAGAA-GGGCAGATTGAAGCCACCATCCAG
* * * * *
128903 TATTTTACCCCTAATCCAGAGGGGCAGATTGAAGCCACCATCTAA
1 TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
* * *
128948 TCTTTTACCCCTAATCTAGAGGGGCAGATTGAAG
1 TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAG
128982 TTACCAAAAC
Statistics
Matches: 561, Mismatches: 83, Indels: 46
0.81 0.12 0.07
Matches are distributed among these distances:
44 20 0.04
45 488 0.87
46 13 0.02
47 5 0.01
48 35 0.06
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (45 bp):
TCTTTTACCCTTAATCCAGAAGGGCAGATTGAAGCCACCATCCAG
Found at i:129870 original size:14 final size:14
Alignment explanation
Indices: 129811--129896 Score: 61
Period size: 14 Copynumber: 6.1 Consensus size: 14
129801 CTAATCCAAA
*
129811 TTATTTTTA-TTGT
1 TTATTTTTATTTAT
* *
129824 TTATATTTATTTGT
1 TTATTTTTATTTAT
**
129838 TTA-TTTTA-GCAT
1 TTATTTTTATTTAT
*
129850 TTCATTTTTTTTTAT
1 TT-ATTTTTATTTAT
*
129865 TTATTTTTGTTTAT
1 TTATTTTTATTTAT
129879 TTATCTTGTTATTTAT
1 TTAT-TT-TTATTTAT
129895 TT
1 TT
129897 TCATGTTATT
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
12 3 0.05
13 13 0.23
14 26 0.46
15 6 0.11
16 9 0.16
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.73
Consensus pattern (14 bp):
TTATTTTTATTTAT
Found at i:129911 original size:16 final size:16
Alignment explanation
Indices: 129874--129907 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
129864 TTTATTTTTG
*
129874 TTTATTTATCTTGTTA
1 TTTATTTATCATGTTA
129890 TTTATTT-TCATGTTA
1 TTTATTTATCATGTTA
129905 TTT
1 TTT
129908 TATTGTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTATTTATCATGTTA
Found at i:129913 original size:26 final size:24
Alignment explanation
Indices: 129853--129916 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
129843 TTAGCATTTC
*
129853 ATTTTTTTTTATTTATTTTTGTTT
1 ATTTTTTGTTATTTATTTTTGTTT
129877 ATTTATCTTGTTATTTATTTTCATG-TT
1 ATTT-T-TTGTTATTTATTTT--TGTTT
129904 ATTTTATTGTTAT
1 ATTTT-TTGTTAT
129917 CTCTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.12
25 1 0.03
26 21 0.62
27 6 0.18
28 2 0.06
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.73
Consensus pattern (24 bp):
ATTTTTTGTTATTTATTTTTGTTT
Found at i:129975 original size:26 final size:25
Alignment explanation
Indices: 129860--129977 Score: 71
Period size: 26 Copynumber: 4.5 Consensus size: 25
129850 TTCATTTTTT
*
129860 TTTATTTATTTTTGTTTATTTATCTTG
1 TTTATTTATTTATG-TTA-TTATCTTG
* *
129887 -TTATTTATTTTCATGTTATTTTATTG
1 TTTATTTA-TTT-ATGTTATTATCTTG
* * * * *
129913 -TTATCTCTTT-TATTATTATTTTA
1 TTTATTTATTTATGTTATTATCTTG
129936 TTTAATTTGGATTTAATGTTATTATCTTG
1 TTT-ATTT--ATTT-ATGTTATTATCTTG
129965 TTTATTTATTTAT
1 TTTATTTATTTAT
129978 TTGTCATTAA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
23 9 0.13
24 2 0.03
25 8 0.12
26 22 0.32
27 9 0.13
28 6 0.09
29 13 0.19
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (25 bp):
TTTATTTATTTATGTTATTATCTTG
Found at i:131570 original size:10 final size:10
Alignment explanation
Indices: 131555--131646 Score: 67
Period size: 10 Copynumber: 8.2 Consensus size: 10
131545 CCAAACTATC
131555 ATTAAATGTG
1 ATTAAATGTG
131565 ATTAAATGTG
1 ATTAAATGTG
131575 ATTAATATGTG
1 ATTAA-ATGTG
131586 ATGTGATAAATGCTG
1 A--T--TAAATG-TG
**
131601 AAATATTCATGTG
1 --AT-TAAATGTG
131614 ATTAAATGTG
1 ATTAAATGTG
*
131624 ACTAAATGTG
1 ATTAAATGTG
131634 ATTAATATGTG
1 ATTAA-ATGTG
131645 AT
1 AT
131647 GTGATAAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
10 34 0.51
11 15 0.22
13 3 0.04
14 8 0.12
15 6 0.09
17 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (10 bp):
ATTAAATGTG
Found at i:131622 original size:59 final size:58
Alignment explanation
Indices: 131559--131792 Score: 265
Period size: 59 Copynumber: 4.2 Consensus size: 58
131549 ACTATCATTA
131559 AATGTGATTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATT
1 AATGTGATTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATT
* * *
131617 AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTCATGTGACT
1 -AATGTGATTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATT
* *
131676 -A----A-T---T-TGATTAATATGTGATGTGATAAATAAC-GAAATATTCATGTGACT
1 AATGTGATTAAATGTGATTAATATGTGATGTGATAAAT-GCTGAAATATTCATGTGATT
* * * * * *
131724 AATGTGATTAAATGTGATTAGTATGTGTTGTGTTAAATGCTTAAGTACTCATGTGATT
1 AATGTGATTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATT
*
131782 AATGCGATTAA
1 AATGTGATTAA
131793 CATTAAAAGA
Statistics
Matches: 149, Mismatches: 14, Indels: 25
0.79 0.07 0.13
Matches are distributed among these distances:
48 41 0.28
49 2 0.01
52 1 0.01
53 2 0.01
54 1 0.01
57 3 0.02
58 44 0.30
59 55 0.37
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (58 bp):
AATGTGATTAAATGTGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATT
Found at i:131656 original size:25 final size:26
Alignment explanation
Indices: 131619--131741 Score: 106
Period size: 24 Copynumber: 5.1 Consensus size: 26
131609 ATGTGATTAA
131619 ATGTGACTAAATGTGATTAATATGTG
1 ATGTGACTAAATGTGATTAATATGTG
*
131645 ATGTGA-TAAATGTTGA--AATAT-TC
1 ATGTGACTAAATG-TGATTAATATGTG
*
131668 ATGTGACT-AATTTGATTAATATGTG
1 ATGTGACTAAATGTGATTAATATGTG
** *
131693 ATGTGA-TAAATAACGA--AATAT-TC
1 ATGTGACTAAAT-GTGATTAATATGTG
131716 ATGTGACT-AATGTGATTAA-ATGTG
1 ATGTGACTAAATGTGATTAATATGTG
131740 AT
1 AT
131742 TAGTATGTGT
Statistics
Matches: 77, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
22 5 0.06
23 22 0.29
24 23 0.30
25 16 0.21
26 11 0.14
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (26 bp):
ATGTGACTAAATGTGATTAATATGTG
Found at i:131691 original size:48 final size:48
Alignment explanation
Indices: 131619--131741 Score: 194
Period size: 48 Copynumber: 2.6 Consensus size: 48
131609 ATGTGATTAA
***
131619 ATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTC
1 ATGTGACT-AATGTGATTAATATGTGATGTGATAAATAACGAAATATTC
*
131668 ATGTGACTAATTTGATTAATATGTGATGTGATAAATAACGAAATATTC
1 ATGTGACTAATGTGATTAATATGTGATGTGATAAATAACGAAATATTC
131716 ATGTGACTAATGTGATTAA-ATGTGAT
1 ATGTGACTAATGTGATTAATATGTGAT
131742 TAGTATGTGT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
47 7 0.10
48 54 0.78
49 8 0.12
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (48 bp):
ATGTGACTAATGTGATTAATATGTGATGTGATAAATAACGAAATATTC
Found at i:131779 original size:106 final size:107
Alignment explanation
Indices: 131573--131784 Score: 304
Period size: 106 Copynumber: 2.0 Consensus size: 107
131563 TGATTAAATG
* *
131573 TGATTAATATGTGATGTGATAAATGCTGAAATATTCATGTGATTAAATGTGACTAAATGTGATTA
1 TGATTAATATGTGATGTGATAAATACTGAAATATTCATGTGACTAAATGTGACTAAATGTGATTA
*
131638 ATATGTGATGTGATAAATGTTGAAATATTCATGTGACTAATT
66 ATATGTGATGTGATAAATGTTGAAATACTCATGTGACTAATT
*
131680 TGATTAATATGTGATGTGATAAATAAC-GAAATATTCATGTGACT-AATGTGATTAAATGTGATT
1 TGATTAATATGTGATGTGATAAAT-ACTGAAATATTCATGTGACTAAATGTGACTAAATGTGATT
* * * * *
131743 AGTATGTGTTGTGTTAAATGCTT-AAGTACTCATGTGATTAAT
65 AATATGTGATGTGATAAATG-TTGAAATACTCATGTGACTAAT
131785 GCGATTAACA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 51 0.54
107 42 0.45
108 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (107 bp):
TGATTAATATGTGATGTGATAAATACTGAAATATTCATGTGACTAAATGTGACTAAATGTGATTA
ATATGTGATGTGATAAATGTTGAAATACTCATGTGACTAATT
Found at i:134930 original size:30 final size:29
Alignment explanation
Indices: 134890--135240 Score: 321
Period size: 30 Copynumber: 11.8 Consensus size: 29
134880 GTCCTTGAAC
* *
134890 TTTCCAAAAATCATATTTTGACTCCTAAACT
1 TTTCC-AAAATTACATTTTGAC-CCTAAACT
* * *
134921 TCTCTAAAATTACATTTGGACCCCTAAACT
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
* ** *
134951 TTTCCAAAGTTGTATTTTGACCTTTAAACT
1 TTTCCAAAATTACATTTTGACC-CTAAACT
* *
134981 TCTCCAAAATTACATTTTAACCCCTAAACT
1 TTTCCAAAATTACATTTTGA-CCCTAAACT
135011 TTTCCAAAATTACATTTTGACCCTTAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
* * *
135041 TCTCTAAAATTACATTTTAACCCATAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
*
135071 TTTCCAAAATTACATTTTCACCCTTAAACT
1 TTTCCAAAATTACATTTTGACCC-TAAACT
* * *
135101 TTTCTAAAATCACATTTCGACCCTAAACAT
1 TTTCCAAAATTACATTTTGACCCTAAAC-T
* * *
135131 TTT-CAAAATAATATTTTGACCCCAAACT
1 TTTCCAAAATTACATTTTGACCCTAAACT
** * *
135159 TCCCCAAAATCACATTTTGACCCCAAAC-
1 TTTCCAAAATTACATTTTGACCCTAAACT
* *
135187 TTTCATAAAATTACATTTTAACCCTTAAA-T
1 TTTC-CAAAATTACATTTTGACCC-TAAACT
*
135217 TCTTCCAAAATTACATTTTAACCC
1 T-TTCCAAAATTACATTTTGACCC
135241 CCAAATCATT
Statistics
Matches: 262, Mismatches: 48, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
28 4 0.02
29 67 0.26
30 182 0.69
31 9 0.03
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTCCAAAATTACATTTTGACCCTAAACT
Found at i:134969 original size:60 final size:59
Alignment explanation
Indices: 134890--135241 Score: 363
Period size: 60 Copynumber: 5.9 Consensus size: 59
134880 GTCCTTGAAC
* *
134890 TTTCCAAAAATCATATTTTGACTCCTAAACTTCTCTAAAATTACATTTGGACCCCTAAACT
1 TTTCC-AAAATTATATTTTGAC-CCTAAACTTCTCTAAAATTACATTTTGACCCCTAAACT
* * * * *
134951 TTTCCAAAGTTGTATTTTGACCTTTAAACTTCTCCAAAATTACATTTTAACCCCTAAACT
1 TTTCCAAAATTATATTTTGACC-CTAAACTTCTCTAAAATTACATTTTGACCCCTAAACT
* * *
135011 TTTCCAAAATTACATTTTGACCCTTAAACTTCTCTAAAATTACATTTTAACCCATAAACT
1 TTTCCAAAATTATATTTTGACCC-TAAACTTCTCTAAAATTACATTTTGACCCCTAAACT
* * * * *
135071 TTTCCAAAATTACATTTTCACCCTTAAACTTTTCTAAAATCACATTTCGA-CCCTAAACAT
1 TTTCCAAAATTATATTTTGACCC-TAAACTTCTCTAAAATTACATTTTGACCCCTAAAC-T
* * * * *
135131 TTT-CAAAATAATATTTTGACCCCAAACTTCCCCAAAATCACATTTTGACCCC-AAAC-
1 TTTCCAAAATTATATTTTGACCCTAAACTTCTCTAAAATTACATTTTGACCCCTAAACT
* * * * *
135187 TTTCATAAAATTACATTTTAACCCTTAAA-TTCTTCCAAAATTACATTTTAACCCC
1 TTTC-CAAAATTATATTTTGACCC-TAAACTTC-TCTAAAATTACATTTTGACCCC
135242 CAAATCATTT
Statistics
Matches: 248, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
56 3 0.01
58 43 0.17
59 49 0.20
60 148 0.60
61 5 0.02
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (59 bp):
TTTCCAAAATTATATTTTGACCCTAAACTTCTCTAAAATTACATTTTGACCCCTAAACT
Found at i:135040 original size:90 final size:89
Alignment explanation
Indices: 134887--135235 Score: 359
Period size: 90 Copynumber: 3.9 Consensus size: 89
134877 TAGGTCCTTG
* * * * *
134887 AACTT-TCCAAAAATCATATTTTGACTCCTAAACTTCTCTAAAATTACATTTGGACCCCTAAACT
1 AACTTCTCC-AAAATCACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCTTAAACT
* * *
134951 TTTCCAAAGTTGTATTTTGACCTTTA
65 TTTCCAAAATTATATTTTGACC-ATA
* * *
134977 AACTTCTCCAAAATTACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTGACCCTTAAACTT
1 AACTTCTCCAAAATCACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCTTAAACTT
* * * *
135042 CTCTAAAATTACATTTTAACCCATA
66 TTCCAAAATTATATTTTGA-CCATA
* * * * * *
135067 AACTTTTCCAAAATTACATTTTCACCCTTAAACTTTTCTAAAATCACATTTCGACCC-TAAACAT
1 AACTTCTCCAAAATCACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCTTAAAC-T
* **
135131 TTT-CAAAATAATATTTTGACCCCA
65 TTTCCAAAATTATATTTTGACCATA
* *
135155 AACTTCCCCAAAATCACATTTTGACCCC-AAAC-TTTCATAAAATTACATTTTAACCCTTAAA-T
1 AACTTCTCCAAAATCACATTTTGACCCCTAAACTTTTC-TAAAATTACATTTTGACCCTTAAACT
*
135217 TCTTCCAAAATTACATTTT
65 T-TTCCAAAATTATATTTT
135236 AACCCCCAAA
Statistics
Matches: 214, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
86 6 0.03
87 22 0.10
88 42 0.20
89 17 0.08
90 122 0.57
91 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.37
Consensus pattern (89 bp):
AACTTCTCCAAAATCACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCTTAAACTT
TTCCAAAATTATATTTTGACCATA
Found at i:144257 original size:3 final size:3
Alignment explanation
Indices: 144249--144313 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
144239 TTCTAAGCAA
144249 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
144297 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
144314 ACTTTTAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:144608 original size:86 final size:86
Alignment explanation
Indices: 144487--144649 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 86
144477 ATTGGACACA
* * * * * *
144487 ATTGGACACCATCGATAACTTAGGCCGATGATGGTGCGGGACCATAGGGAAGCATCGACACCTTG
1 ATTGGACACCACCGACAACTTAGGCCGATGATGGTGCAGGACCATAGAGAAGCATCGACACATTA
144552 GTGCCTTAGATGTGCGGAATC
66 GTGCCTTAGATGTGCGGAATC
* * * * * *
144573 ATTGGACACCACCGGCATCTTAGGCCGGTGGTGGTGCAGGACCATCGAGAAGCATCGGCACATTA
1 ATTGGACACCACCGACAACTTAGGCCGATGATGGTGCAGGACCATAGAGAAGCATCGACACATTA
144638 GTGCCTTAGATG
66 GTGCCTTAGATG
144650 AATGGGAGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 65 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (86 bp):
ATTGGACACCACCGACAACTTAGGCCGATGATGGTGCAGGACCATAGAGAAGCATCGACACATTA
GTGCCTTAGATGTGCGGAATC
Found at i:144681 original size:86 final size:85
Alignment explanation
Indices: 144503--145045 Score: 201
Period size: 86 Copynumber: 6.5 Consensus size: 85
144493 CACCATCGAT
* * * * * *
144503 AACTTAGGCCGATGATGGTGCGGGACCATAGGGAAGCATCGACACCTTGGTGCCTTAGATGTGCG
1 AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATCGACACATTAGTGCCTTAGATGTGCG
* *
144568 GAATCATTGGACACCACCGGC
66 GAA-CATCGGACACCACCAGC
* * *
144589 ATCTTAGGCCGGTGGTGGTGCAGGACCATCGAGAAGCATCGGCACATTAGTGCCTTAGATGAATG
1 AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATCGACACATTAGTGCCTTAGATG--TG
* **
144654 -GGAGA-ATCGGGCACCATTAGC
64 CGGA-ACATCGGACACCACCAGC
* * * * *
144675 AACTTAGGTCAATAGTAGTGCAGGACCATC--G--G---C-AC-C-TT-GATGCCTTGGATGTGC
1 AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATCGACACATTAG-TGCCTTAGATGTGC
* * *
144729 GAGAGCATCGGACACCATC-GAT
65 G-GAACATCGGACACCACCAG-C
* * * * * ** * * *
144751 AACTTAAGCCGATGGTGGTAC-GAGACCATTGGGAACCATCGGTACCTT-GATGCCTTGGATGTA
1 AACTTAGGCCGATGGTGGTGCAG-GACCATCGAGAAGCATCGACACATTAG-TGCCTTAGATGTG
* * * *
144814 CGAGAGCATC-GACACCATCGGT
64 CG-GAACATCGGACACCACCAGC
** * * * * * * * * *
144836 AACTTAAACTGATGGTAGTGC-GAGACCATTGGGAAGTATCGGCACCTTGGTGCCTTGGATGTGC
1 AACTTAGGCCGATGGTGGTGCAG-GACCATCGAGAAGCATCGACACATTAGTGCCTTAGATGTGC
* * *
144900 GGGAGCATCGGATACCATC-GAC
65 -GGAACATCGGACACCACCAG-C
* * ** ** * * *
144922 AACTTAGGCCGATGGTGGTG--TGACCATCGGGAAGTTTCGGTACCTTTGTGCCTTGGATGTGCT
1 AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATCGACACATTAGTGCCTTAGATGTGC-
* * * * *
144985 AGAGCATCGGACACCATCGGT
65 GGAACATCGGACACCACCAGC
* ***
145006 AACTTAGGCCGATGATGGTTTTGGACCATCGAGAAGCATC
1 AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATC
145046 AGTACCTTGG
Statistics
Matches: 364, Mismatches: 66, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
74 2 0.01
75 4 0.01
76 46 0.13
77 1 0.00
78 2 0.01
79 1 0.00
82 1 0.00
83 1 0.00
84 72 0.20
85 74 0.20
86 154 0.42
87 3 0.01
88 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (85 bp):
AACTTAGGCCGATGGTGGTGCAGGACCATCGAGAAGCATCGACACATTAGTGCCTTAGATGTGCG
GAACATCGGACACCACCAGC
Done.