Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 43
Found at i:2431234 original size:23 final size:23
Alignment explanation
Indices: 2431199--2431245 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2431189 TTTTACTTCT
* *
2431199 AAAAACATTAAAA-TAAGTTAAA
1 AAAAACATAAAAACAAAGTTAAA
2431221 AAAACACATAAAAACAAAGTTAAA
1 AAAA-ACATAAAAACAAAGTTAAA
2431245 A
1 A
2431246 CATTAATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (23 bp):
AAAAACATAAAAACAAAGTTAAA
Found at i:2437945 original size:17 final size:17
Alignment explanation
Indices: 2437900--2437948 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
2437890 TATAGCCACT
*
2437900 TAACAGACTAACAAATA
1 TAACAGACTAATAAATA
*
2437917 TAACAGACTAATATATA
1 TAACAGACTAATAAATA
*
2437934 TAACAGAATAATAAA
1 TAACAGACTAATAAA
2437949 CCCTTGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (17 bp):
TAACAGACTAATAAATA
Found at i:2442434 original size:22 final size:23
Alignment explanation
Indices: 2442398--2442443 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
2442388 TTTTTTTTCA
*
2442398 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
2442421 TTTGTTTTA-ATATTATTATTAT
1 TTTGTTTTATATATTATTATTAT
2442443 T
1 T
2442444 ATTATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTGTTTTATATATTATTATTAT
Found at i:2442478 original size:3 final size:3
Alignment explanation
Indices: 2442408--2442458 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
2442398 TTTGTTTTAT
* *
2442408 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2442453 TTA TTA
1 TTA TTA
2442459 AATAAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2446212 original size:6 final size:6
Alignment explanation
Indices: 2446203--2446236 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
2446193 CATTTTTAAT
* *
2446203 ATTTAC ATTTGC ATTTGC ATTTGC ATTAGC ATTT
1 ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC ATTT
2446237 TTACGTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTTGC
Found at i:2446212 original size:21 final size:20
Alignment explanation
Indices: 2446125--2446218 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 20
2446115 TTCATACATG
* *
2446125 CATTTGCATTTTTGCATTTTT
1 CATTTGCATTTTT-AATTTTA
* *
2446146 CATTGTGCATTTATACTTTTA
1 CATT-TGCATTTTTAATTTTA
* * *
2446167 TATTTGC-TTTTGT-ACTATA
1 CATTTGCATTTT-TAATTTTA
2446186 CAATTTGCATTTTTAATATTTA
1 C-ATTTGCATTTTTAAT-TTTA
2446208 CATTTGCATTT
1 CATTTGCATTT
2446219 GCATTTGCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
19 6 0.11
20 11 0.20
21 26 0.47
22 12 0.22
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (20 bp):
CATTTGCATTTTTAATTTTA
Found at i:2446255 original size:26 final size:26
Alignment explanation
Indices: 2446216--2446266 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
2446206 TACATTTGCA
*
2446216 TTTGCATTTGCATTAGCATTTTTACG
1 TTTGCATTTACATTAGCATTTTTACG
* **
2446242 TTTGTATTTACATTTTCATTTTTAC
1 TTTGCATTTACATTAGCATTTTTAC
2446267 ATAATTACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.57
Consensus pattern (26 bp):
TTTGCATTTACATTAGCATTTTTACG
Found at i:2452943 original size:22 final size:22
Alignment explanation
Indices: 2452914--2452968 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2452904 ATCTACACTC
2452914 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
2452936 TTTAAAGATGATAGATTTTCTT
1 TTCAAAGATGATAGATTCTCTT
2452958 TTCAAAGATGA
1 TTCAAAGATGA
2452969 AAGCTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:2453786 original size:162 final size:165
Alignment explanation
Indices: 2453478--2453799 Score: 499
Period size: 162 Copynumber: 2.0 Consensus size: 165
2453468 CAAGAATGAA
2453478 CATTATCTTGAGATTGGGTCATGATACCCAATCAACATGATATTTTGAAAAATAATGAGAAAACG
1 CATTATCTTGAGATTGGGTCATGATACCCAATCAACATGATATTTTGAAAAATAATGAGAAAACG
** *
2453543 ATTTCCATAGTTTCTCATTTTATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
* * * *
2453608 CTTAGTTTTTTTACTTAGTAAACTATTTCCAACAG
131 CATAGTTATCTTACTTAGTAAACCATTTCCAACAG
* * *
2453643 CATTATCTTGAGATTGGG-CATGTTACCCAAT-TACATGTTA-TTTGAAAAATAATGAGAAAACG
1 CATTATCTTGAGATTGGGTCATGATACCCAATCAACATGATATTTTGAAAAATAATGAGAAAACG
* *
2453705 ATTTTCATAGTTTCTCATTCAATCTTTTTTGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATC-TTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
2453770 CCATAG-TATCTTACTTAGTAAACCATTTCC
130 CCATAGTTATCTTACTTAGTAAACCATTTCC
2453800 CACATCTGTA
Statistics
Matches: 144, Mismatches: 12, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
162 64 0.44
163 50 0.35
164 12 0.08
165 18 0.12
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (165 bp):
CATTATCTTGAGATTGGGTCATGATACCCAATCAACATGATATTTTGAAAAATAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
CATAGTTATCTTACTTAGTAAACCATTTCCAACAG
Found at i:2454333 original size:112 final size:113
Alignment explanation
Indices: 2453879--2454403 Score: 912
Period size: 113 Copynumber: 4.7 Consensus size: 113
2453869 CCTTCGGGTC
* *
2453879 ATCAGCATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 ATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
2453943 TAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
65 TAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
*
2453992 ATCAGTATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
2454057 AATGAGAAGAGCTTGTTCAACCTTTTACTCAAATCCATCACTTGATGG
66 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
2454105 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
2454170 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
66 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
* * * * *
2454218 ATCAACATTTCCAGAGAACGTTCATAATGAGAAGAACTTAACTGAAGAA-TAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
2454282 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGG
66 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
* *
2454330 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
2454394 AATGAGAAGA
66 AATGAGAAGA
2454404 ACTCATCTGA
Statistics
Matches: 394, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
112 130 0.33
113 263 0.67
114 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (113 bp):
ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
Found at i:2454401 original size:39 final size:40
Alignment explanation
Indices: 2454347--2454447 Score: 186
Period size: 39 Copynumber: 2.5 Consensus size: 40
2454337 TTTCCAGAGA
2454347 AAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAATGAAGAAG
*
2454386 AAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAG
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAATGAAGAAG
2454426 AAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTT
2454448 GTTCAACTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 31 0.53
40 28 0.47
ACGTcount: A:0.48, C:0.09, G:0.22, T:0.22
Consensus pattern (40 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAGAATGAAGAAG
Found at i:2454403 original size:17 final size:17
Alignment explanation
Indices: 2454381--2454444 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 17
2454371 CTGAAGAAGA
2454381 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* *
2454398 AGAAGAACTCATCTGAAGAATG
1 AGAAGAAGT--TC---ATAATG
2454420 AAGAAGAAGTTCATAATG
1 -AGAAGAAGTTCATAATG
2454438 AGAAGAA
1 AGAAGAA
2454445 CTTGTTCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
17 15 0.41
18 5 0.14
19 2 0.05
21 2 0.05
22 5 0.14
23 8 0.22
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:2454424 original size:23 final size:21
Alignment explanation
Indices: 2454355--2454427 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 21
2454345 GAAAGTTCAT
2454355 AATGAGAAGAACTTATCTGAAG
1 AATGAGAAGAAC-TATCTGAAG
* *
2454377 AA-GAAGAAGAAGT-TC---AT
1 AATG-AGAAGAACTATCTGAAG
2454394 AATGAGAAGAACTCATCTGAAG
1 AATGAGAAGAACT-ATCTGAAG
2454416 AATGAAGAAGAA
1 AATG-AGAAGAA
2454428 GTTCATAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
17 11 0.28
18 1 0.03
19 2 0.05
20 2 0.05
21 2 0.05
22 14 0.36
23 7 0.18
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (21 bp):
AATGAGAAGAACTATCTGAAG
Found at i:2454425 original size:264 final size:266
Alignment explanation
Indices: 2454122--2454650 Score: 798
Period size: 264 Copynumber: 2.0 Consensus size: 266
2454112 TTTCCAGAGA
*
2454122 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
*
2454187 CAACCTTTTGCTCAAATCCATCACTT-GATGGATCAACATTTCCA-G-AGAACGTTCATAATGAG
66 CAACCTTTTGCTCAAATCCATCA-TTCGATGGATCAACATTACCAGGTAG-A-GTTCATAATGAG
* * *
2454249 AAGAACTTAACTGAAGAA-TAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCA
128 AAGAACTCAACTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCA
* *
2454313 AATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGA
193 AATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
2454378 A-GAAGAAG
258 AGGAAGAAG
*
2454386 AAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * ** * *
2454451 CAACTTTTTGTTTGAATTCATCATTCGATGGATCATCATTACCAGGTAGAGTTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAG
* * * *
2454516 AACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGAAT
131 AACTCAACTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT
* * * *
2454581 TCATCACTTGATGGATTAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
196 CCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
2454646 AAGAA
261 AAGAA
2454651 CTTGCTCAAT
Statistics
Matches: 238, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
263 2 0.01
264 125 0.53
265 103 0.43
266 8 0.03
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (266 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTACCAGGTAGAGTTCATAATGAGAAG
AACTCAACTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAAT
CCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
AAGAAG
Found at i:2454429 original size:152 final size:152
Alignment explanation
Indices: 2454232--2454559 Score: 480
Period size: 152 Copynumber: 2.2 Consensus size: 152
2454222 ACATTTCCAG
* *
2454232 AGAACGTTCATAATGAGAAGAACTTAACTGAAGAATAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AGAA-GTTCATAATGAGAAGAACTCAACTGAAGAATAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
2454297 TTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAG
65 TTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTACCAG-GTAAAGTTCATAATGAG
*
2454361 AAGAACTTATCTGAAGAA-GAAGA
129 AAGAACTCATCTGAAGAAGGAAGA
*
2454384 AGAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AGAAGTTCATAATGAGAAGAACTCAACTGAAGAAT-AAGAAGAAGTTCATAATGAGAAGAACTTG
* * ** * * * *
2454449 TTCAACTTTTTGTTTGAATTCATCATTCGATGGATCATCATTACCAGGTAGAGTTCATAATGAGA
65 TTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTACCAGGTAAAGTTCATAATGAGA
2454514 AGAACTCATCTGAAGAAGGAAGA
130 AGAACTCATCTGAAGAAGGAAGA
*
2454537 ATAAGTTCATAATGAGAAGAACT
1 AGAAGTTCATAATGAGAAGAACT
2454560 TGTTCAACTT
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
151 30 0.19
152 101 0.64
153 27 0.17
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (152 bp):
AGAAGTTCATAATGAGAAGAACTCAACTGAAGAATAAGAAGAAGTTCATAATGAGAAGAACTTGT
TCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTACCAGGTAAAGTTCATAATGAGAA
GAACTCATCTGAAGAAGGAAGA
Found at i:2454585 original size:113 final size:113
Alignment explanation
Indices: 2454387--2454650 Score: 424
Period size: 113 Copynumber: 2.3 Consensus size: 113
2454377 AAGAAGAAGA
*
2454387 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
2454452 AACTTTTTGTTTGAATTCATCA-TTCGATGGATCATCATTACCAG-GTAG
66 AACTTTTTGCTCGAATTCATCACTT-GATGGATCAACATTACCAGAG-AG
*
2454500 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
2454565 AACTTTTTGCTCGAATTCATCACTTGATGGATTAACTTTTCCAGAGAG
66 AACTTTTTGCTCGAATTCATCACTTGATGGATCAACATTACCAGAGAG
2454613 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
2454651 CTTGCTCAAT
Statistics
Matches: 141, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
113 138 0.98
114 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTTGCTCGAATTCATCACTTGATGGATCAACATTACCAGAGAG
Found at i:2455014 original size:22 final size:21
Alignment explanation
Indices: 2454981--2455052 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
2454971 ACTAGTTTTT
2454981 TTATT-TTCATTTGTTTTATTTA
1 TTATTATT-ATTTGTTTTA-TTA
*
2455003 TTATTATTATTTTGTTTTAATA
1 TTATTATTA-TTTGTTTTATTA
* *
2455025 TTATTATTATATTATATTATTA
1 TTATTATTAT-TTGTTTTATTA
2455047 TTATTA
1 TTATTA
2455053 AATAAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.02
22 31 0.72
23 11 0.26
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (21 bp):
TTATTATTATTTGTTTTATTA
Found at i:2455021 original size:19 final size:19
Alignment explanation
Indices: 2454999--2455052 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
2454989 ATTTGTTTTA
* *
2454999 TTTATTATTATTATTTTGT
1 TTTATTATTATTATTATAT
*
2455018 TTTAATATTATTATTATAT
1 TTTATTATTATTATTATAT
*
2455037 TATATTATTATTATTA
1 TTTATTATTATTATTA
2455053 AATAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTATTATTATTATTATAT
Found at i:2455072 original size:3 final size:3
Alignment explanation
Indices: 2455000--2455052 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
2454990 TTTGTTTTAT
* *
2455000 TTA TTA TTA TTA TT- TTG TT- TTA ATA TTA TTA TTA -TA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2455044 TTA TTA TTA
1 TTA TTA TTA
2455053 AATAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2456325 original size:24 final size:25
Alignment explanation
Indices: 2456278--2456325 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2456268 TTGATCATAT
*
2456278 AATTTTAATTGTTTTATTACATTAC
1 AATTTTAATTGTTTTAGTACATTAC
2456303 AATTTT-ATTGTTATTAGTA-ATTA
1 AATTTTAATTGTT-TTAGTACATTA
2456326 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.56
Consensus pattern (25 bp):
AATTTTAATTGTTTTAGTACATTAC
Found at i:2463170 original size:24 final size:24
Alignment explanation
Indices: 2463135--2463202 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
2463125 CTACATTTTT
2463135 AGCAACCCTCTCAGCAGCACAATC
1 AGCAACCCTCTCAGCAGCACAATC
*
2463159 AGTAACCCTCTCAGCAGCACAATC
1 AGCAACCCTCTCAGCAGCACAATC
*
2463183 AGCAACACC-CTCAGTAGCAC
1 AGCAAC-CCTCTCAGCAGCAC
2463203 CCTCAGTTGC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 38 0.95
25 2 0.05
ACGTcount: A:0.34, C:0.40, G:0.13, T:0.13
Consensus pattern (24 bp):
AGCAACCCTCTCAGCAGCACAATC
Found at i:2463196 original size:12 final size:12
Alignment explanation
Indices: 2463168--2463265 Score: 72
Period size: 12 Copynumber: 8.2 Consensus size: 12
2463158 CAGTAACCCT
*
2463168 CTCAGCAGCACA
1 CTCAGCAGCACC
* *
2463180 ATCAGCAACACC
1 CTCAGCAGCACC
*
2463192 CTCAGTAGCACC
1 CTCAGCAGCACC
**
2463204 CTCAGTTGCACC
1 CTCAGCAGCACC
* *
2463216 CTCACCAGCAAC
1 CTCAGCAGCACC
* *
2463228 CTCACCAACACC
1 CTCAGCAGCACC
*
2463240 CTCA-CTAACACC
1 CTCAGC-AGCACC
*
2463252 CTTAGCAGCACC
1 CTCAGCAGCACC
2463264 CT
1 CT
2463266 AAGCGGCAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
11 1 0.01
12 67 0.97
13 1 0.01
ACGTcount: A:0.30, C:0.46, G:0.10, T:0.14
Consensus pattern (12 bp):
CTCAGCAGCACC
Found at i:2463208 original size:24 final size:24
Alignment explanation
Indices: 2463181--2463265 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
2463171 AGCAGCACAA
*
2463181 TCAGCAACACCCTCAGTAGCACCC
1 TCAGCAACACCCTCACTAGCACCC
*** * *
2463205 TCAGTTGCACCCTCACCAGCAACC
1 TCAGCAACACCCTCACTAGCACCC
* *
2463229 TCACCAACACCCTCACTAACACCC
1 TCAGCAACACCCTCACTAGCACCC
* *
2463253 TTAGCAGCACCCT
1 TCAGCAACACCCT
2463266 AAGCGGCAGT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.28, C:0.47, G:0.09, T:0.15
Consensus pattern (24 bp):
TCAGCAACACCCTCACTAGCACCC
Found at i:2465281 original size:13 final size:13
Alignment explanation
Indices: 2465263--2465294 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2465253 TTTTAAGAAT
2465263 ATATTTGTATATC
1 ATATTTGTATATC
*
2465276 ATATTTGTATATT
1 ATATTTGTATATC
2465289 ATATTT
1 ATATTT
2465295 ATAAGAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (13 bp):
ATATTTGTATATC
Found at i:2473359 original size:21 final size:21
Alignment explanation
Indices: 2473333--2473382 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2473323 GTAATCCTGG
2473333 TATCGATATCAAGCCCATGGA
1 TATCGATATCAAGCCCATGGA
2473354 TATCGATATCAAGCCCATGGA
1 TATCGATATCAAGCCCATGGA
2473375 TATCGATA
1 TATCGATA
2473383 CCAAACCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (21 bp):
TATCGATATCAAGCCCATGGA
Found at i:2478215 original size:4 final size:4
Alignment explanation
Indices: 2478206--2478235 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2478196 TGTAAATGAT
2478206 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
2478236 AAGGGAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:2480870 original size:17 final size:19
Alignment explanation
Indices: 2480830--2480874 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
2480820 ATATATATAC
*
2480830 TATATATATATTTCAAAAG
1 TATATACATATTTCAAAAG
2480849 T-TATACAT-TTTCAAAA-
1 TATATACATATTTCAAAAG
2480865 TATATA-ATAT
1 TATATACATAT
2480875 ATATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 3 0.13
17 13 0.57
18 6 0.26
19 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (19 bp):
TATATACATATTTCAAAAG
Found at i:2480884 original size:83 final size:79
Alignment explanation
Indices: 2480794--2481016 Score: 213
Period size: 83 Copynumber: 2.7 Consensus size: 79
2480784 AATAATAATA
2480794 ATATATTTAAAACAATATATTTTTAAATATATATACTATATATATATTTCAAAAGTTATACATTT
1 ATATATTTAAAACAATATATTTTTAAATATATATACTATATATATATTT-AAAA-TTATACATTT
*
2480859 TCAAAATAT-ATAATAT
64 TCAAAACATCAT-ATAT
* * * * *
2480875 ATATTTATTTTAAAA-ACTGTATATTTTCAATATATATA-TATATATATA-TTAAAACTATATAT
1 ATA--TA-TTTAAAACAATATAT-TTTTAAATATATATACTATATATATATTTAAAATTATACAT
2480937 TTTCAAAACATCATATAT
62 TTTCAAAACATCATATAT
* * * *
2480955 ATATA-TTAGAAGCTATATATTTTCAAAATATATAATACATATATTTATATTTTAAAATTATA
1 ATATATTTA-AAACAATATATTTT-TAAATATAT-ATAC-TATATATATA-TTTAAAATTATA
2481017 ACATATATTA
Statistics
Matches: 115, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
76 3 0.03
77 5 0.04
78 13 0.11
79 3 0.03
80 23 0.20
81 18 0.16
82 2 0.02
83 27 0.23
84 21 0.18
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (79 bp):
ATATATTTAAAACAATATATTTTTAAATATATATACTATATATATATTTAAAATTATACATTTTC
AAAACATCATATAT
Found at i:2480908 original size:38 final size:38
Alignment explanation
Indices: 2480794--2480999 Score: 186
Period size: 38 Copynumber: 5.2 Consensus size: 38
2480784 AATAATAATA
* *
2480794 ATATAT-TTAAAACAATATATTTTTAAATATATATACTAT
1 ATATATATTAAAACTATATA-TTTTCAATATATATA-TAT
* *
2480833 ATATATATTTCAAAAGTTATACATTTTCAAAATATATAATATAT
1 ATATATA-TT-AAAA-CTATATATTTTC--AATATAT-ATATAT
* * *
2480877 ATTTATTTTAAAAACTGTATATTTTCAATATATATATAT
1 ATATATATT-AAAACTATATATTTTCAATATATATATAT
*
2480916 ATATATATTAAAACTATATATTTTCAA-A-ACATCATAT
1 ATATATATTAAAACTATATATTTTCAATATATAT-ATAT
* *
2480953 ATATATATTAGAAGCTATATATTTTCAAAATATATA-AT
1 ATATATATTA-AAACTATATATTTTCAATATATATATAT
*
2480991 ACATATATT
1 ATATATATT
2481000 TATATTTTAA
Statistics
Matches: 139, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
36 3 0.02
37 15 0.11
38 43 0.31
39 21 0.15
40 10 0.07
41 2 0.01
42 17 0.12
43 10 0.07
44 15 0.11
45 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (38 bp):
ATATATATTAAAACTATATATTTTCAATATATATATAT
Found at i:2480935 original size:15 final size:17
Alignment explanation
Indices: 2480914--2480956 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
2480904 ATATATATAT
2480914 ATATATATATT-AAAAC
1 ATATATATATTCAAAAC
*
2480930 -TATATATTTTCAAAAC
1 ATATATATATTCAAAAC
2480946 ATCATATATAT
1 AT-ATATATAT
2480957 ATATTAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 5 0.23
17 1 0.05
18 7 0.32
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATATATATTCAAAAC
Found at i:2481006 original size:30 final size:26
Alignment explanation
Indices: 2480970--2481025 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 26
2480960 TTAGAAGCTA
2480970 TATATTTTCAAAATATATAATACATATATT
1 TATATTTT-AAAAT-TAT-A-ACATATATT
2481000 TATATTTTAAAATTATAACATATATT
1 TATATTTTAAAATTATAACATATATT
2481026 AAAATTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 9 0.35
27 1 0.04
28 3 0.12
29 5 0.19
30 8 0.31
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATTTTAAAATTATAACATATATT
Found at i:2482022 original size:69 final size:66
Alignment explanation
Indices: 2481912--2482044 Score: 221
Period size: 69 Copynumber: 2.0 Consensus size: 66
2481902 AAATAAAAAG
*
2481912 AATTAGATCCGATAGGGGAGAATATATGTCTAATCTTCTTAAAGAAACTTGTGAGAAAGAATGCA
1 AATTAGATCCGATAGGGGAGAATATATGGCTAATCTTCTTAAAGAAACTTGTGAGAAAGAATGCA
2481977 T
66 T
*
2481978 AATTAGATCCGATAGGGGAGGAGAATGTATGGCTAATCTTCTTAAAGAAACTTGTGAGAAAGAAT
1 AATTAGATCCGATA--GG-GGAGAATATATGGCTAATCTTCTTAAAGAAACTTGTGAGAAAGAAT
2482043 GC
63 GC
2482045 CTTGTTCCTG
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
66 14 0.23
68 2 0.03
69 46 0.74
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (66 bp):
AATTAGATCCGATAGGGGAGAATATATGGCTAATCTTCTTAAAGAAACTTGTGAGAAAGAATGCA
T
Found at i:2489869 original size:28 final size:29
Alignment explanation
Indices: 2489838--2489900 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
2489828 ATGAAATTAT
*
2489838 AAAAATTAGGGA-CCTAATTATAAATATA
1 AAAAATTAAGGACCCTAATTATAAATATA
2489866 AAAAATTAAGGACCCTAATTATAAATATA
1 AAAAATTAAGGACCCTAATTATAAATATA
2489895 AGAAAA
1 A-AAAA
2489901 ATTGGAGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 11 0.34
29 17 0.53
30 4 0.12
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (29 bp):
AAAAATTAAGGACCCTAATTATAAATATA
Found at i:2490927 original size:22 final size:22
Alignment explanation
Indices: 2490899--2490940 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2490889 CCTTGAGTCC
*
2490899 TCAGCTACTGTTCAACTACCAT
1 TCAGCTACTGCTCAACTACCAT
*
2490921 TCAGCTACTGCTCAGCTACC
1 TCAGCTACTGCTCAACTACC
2490941 TAAGCTACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.29
Consensus pattern (22 bp):
TCAGCTACTGCTCAACTACCAT
Found at i:2492362 original size:11 final size:11
Alignment explanation
Indices: 2492346--2492372 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2492336 ATATAATTAA
2492346 AATAACATAAC
1 AATAACATAAC
2492357 AATAACATAAC
1 AATAACATAAC
2492368 AATAA
1 AATAA
2492373 ATATAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAACATAAC
Found at i:2492381 original size:15 final size:15
Alignment explanation
Indices: 2492340--2492398 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
2492330 CTAGTCATAT
2492340 AATTAAAATAACATAA
1 AATTAAAATAACA-AA
*
2492356 CAA-TAACATAACAATA
1 -AATTAAAATAACAA-A
*
2492372 AA-TATAATAACAAA
1 AATTAAAATAACAAA
2492386 AATTAAAATAACA
1 AATTAAAATAACA
2492399 TAATTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 3 0.08
15 21 0.58
16 10 0.28
17 2 0.06
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (15 bp):
AATTAAAATAACAAA
Found at i:2493614 original size:34 final size:34
Alignment explanation
Indices: 2493571--2493635 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
2493561 TGAGTCAGGA
2493571 ATACACAGTTGATTTGACATGTCAATGGCCTAGC
1 ATACACAGTTGATTTGACATGTCAATGGCCTAGC
2493605 ATACACAGTTGATTTGACATGTCAATGGCCT
1 ATACACAGTTGATTTGACATGTCAATGGCCT
2493636 CGCGTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (34 bp):
ATACACAGTTGATTTGACATGTCAATGGCCTAGC
Found at i:2496705 original size:10 final size:10
Alignment explanation
Indices: 2496690--2496723 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2496680 TCTTGATTCT
2496690 GTGAGCTAAA
1 GTGAGCTAAA
*
2496700 GTGAGCTAAT
1 GTGAGCTAAA
*
2496710 GTGAGCTATA
1 GTGAGCTAAA
2496720 GTGA
1 GTGA
2496724 ACCAATTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.26
Consensus pattern (10 bp):
GTGAGCTAAA
Found at i:2499030 original size:26 final size:25
Alignment explanation
Indices: 2498987--2499036 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
2498977 ATTATAGTAA
2498987 AAAATTACAATAACATAAACTAAAAT
1 AAAATTACAATAACATAAA-TAAAAT
* **
2499013 AAAATTTCAATATTATAAATAAAA
1 AAAATTACAATAACATAAATAAAA
2499037 ATTCAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAATTACAATAACATAAATAAAAT
Found at i:2499051 original size:21 final size:20
Alignment explanation
Indices: 2499009--2499052 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2498999 ACATAAACTA
* * *
2499009 AAATAAAATTTCAATATTAT
1 AAATAAAAATTCAAAATAAT
2499029 AAATAAAAATTCAAAATAAAT
1 AAATAAAAATTCAAAAT-AAT
2499050 AAA
1 AAA
2499053 CGTAGATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAAAATTCAAAATAAT
Found at i:2499522 original size:18 final size:18
Alignment explanation
Indices: 2499499--2499555 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
2499489 TTCAATTAAA
2499499 TAAATAAATTATTCAAAG
1 TAAATAAATTATTCAAAG
2499517 TAAAT-AA--A-T--AAG
1 TAAATAAATTATTCAAAG
2499529 TAAATAAATTATTCGAAA-
1 TAAATAAATTATTC-AAAG
2499547 TAAATAAAT
1 TAAATAAAT
2499556 AAAACTTACC
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
12 8 0.25
13 2 0.06
14 1 0.03
15 2 0.06
16 1 0.03
17 2 0.06
18 14 0.44
19 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (18 bp):
TAAATAAATTATTCAAAG
Found at i:2499533 original size:30 final size:30
Alignment explanation
Indices: 2499499--2499557 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2499489 TTCAATTAAA
2499499 TAAATAAATTATTC-AAAGTAAATAAATAAG
1 TAAATAAATTATTCGAAA-TAAATAAATAAG
2499529 TAAATAAATTATTCGAAATAAATAAATAA
1 TAAATAAATTATTCGAAATAAATAAATAA
2499558 AACTTACCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (30 bp):
TAAATAAATTATTCGAAATAAATAAATAAG
Found at i:2509871 original size:105 final size:105
Alignment explanation
Indices: 2509745--2509960 Score: 263
Period size: 105 Copynumber: 2.1 Consensus size: 105
2509735 TCTTTGGTAT
* * * * *
2509745 TGTAAGTGAATAAAATCAAAAAGCATGGCACTTAATAAATGCTTACATCAG-TGTAAATATGTAT
1 TGTAAGTGAATAAAATAAAAAAACATAGCACTTAACAAATACTTACA-CAGATGTAAATATGTAT
2509809 ATATCCCAAAAACTGTAACACTTAACACATACTTACACCGA
65 ATATCCCAAAAACTGTAACACTTAACACATACTTACACCGA
* * * * * *
2509850 TGTAAGTGAATAAACTAAAAAAATATAGCATTTAACACATACTTACACCGATGTAAGTATGTATA
1 TGTAAGTGAATAAAATAAAAAAACATAGCACTTAACAAATACTTACACAGATGTAAATATGTATA
* * * * * *
2509915 TCTCCCAAAAAGTGTAGCACTTAATACATACTTACACTGG
66 TATCCCAAAAACTGTAACACTTAACACATACTTACACCGA
2509955 TGTAAG
1 TGTAAG
2509961 CATGTATATC
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 2 0.02
105 91 0.98
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (105 bp):
TGTAAGTGAATAAAATAAAAAAACATAGCACTTAACAAATACTTACACAGATGTAAATATGTATA
TATCCCAAAAACTGTAACACTTAACACATACTTACACCGA
Found at i:2510154 original size:105 final size:106
Alignment explanation
Indices: 2509772--2510332 Score: 478
Period size: 105 Copynumber: 5.3 Consensus size: 106
2509762 AAAAAGCATG
* * * * * * *
2509772 GCACTTAATAAATGCTTACATCAGTGTAAATATGTATATATCCCAAAAACTGTAACACTTAACAC
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTATATATCCCAAAAAGTATAACACTTAACAC
* * * *
2509837 ATACTTACACCGATGTAAG--TGAATAAACT-AAAAAAATATA
66 ATACTTACACCGATGTAAGTATG-AT-ATCTCCAAAAAGTGTA
* * * * * * *
2509877 GCATTTAACACATACTTACACCGATGTAAGTATGTATATCTCCCAAAAAGTGTAGCACTTAATAC
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTATATATCCCAAAAAGTATAACACTTAACAC
* * * *
2509942 ATACTTACACTGGTGTAAGCATGTATATCTCCAAAAAAAATGTA
66 ATACTTACACCGATGTAAGTATG-ATATCTCC--AAAAAGTGTA
* * **
2509986 TCACTTAACACATACTTACACCGGTGTAAG--TG-A-ATA--AAAAAAAG--TAACACTTAACAC
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTATATATCCCAAAAAGTATAACACTTAACAC
* *
2510043 ATACTTATACCGATGTAATTATG-TATCTCCAAAAGAGTGTA
66 ATACTTACACCGATGTAAGTATGATATCTCCAAAA-AGTGTA
* *
2510084 GCACTTAATACATACTTACA-CGGTGTAAGTATGTATATCTCCCAAAAAGTATAACACTTAACAC
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTATATATCCCAAAAAGTATAACACTTAACAC
** **
2510148 ATACTTACACTAATGTAAGTATGTATATCTTTTAAAAAGTGTTA
66 ATACTTACACCGATGTAAGTATG-ATATC-TCCAAAAAGTG-TA
* *
2510192 -CACTTAACACATACTTACATCGGTGTAAG--TGAATAAAAT---AAGAAAGTATAGA-ACTTAA
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTAT-ATATCCCAA-AAAGTATA-ACACTTAA
* * ** *
2510250 CACATATTTATATGGGTGTAAGTATGTATATCTCCCCAAAAAGTGTA
63 CACATACTTACACCGATGTAAGTATG-ATATCT--CCAAAAAGTGTA
2510297 GCACTTAACACATACTTACATCGGTGTAAGTATGTA
1 GCACTTAACACATACTTACATCGGTGTAAGTATGTA
2510333 CTTCTCTCAA
Statistics
Matches: 373, Mismatches: 56, Indels: 51
0.78 0.12 0.11
Matches are distributed among these distances:
97 13 0.03
98 23 0.06
99 9 0.02
100 1 0.00
101 31 0.08
103 12 0.03
104 3 0.01
105 146 0.39
106 46 0.12
107 34 0.09
108 19 0.05
109 36 0.10
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.30
Consensus pattern (106 bp):
GCACTTAACACATACTTACATCGGTGTAAGTATGTATATATCCCAAAAAGTATAACACTTAACAC
ATACTTACACCGATGTAAGTATGATATCTCCAAAAAGTGTA
Found at i:2510177 original size:206 final size:208
Alignment explanation
Indices: 2509823--2510332 Score: 620
Period size: 206 Copynumber: 2.4 Consensus size: 208
2509813 CCCAAAAACT
* * * * * * * *
2509823 GTAACACTTAACACATACTTACACCGATGTAAGTGAAT-AAACT-AAAAAAATATAGCATTTAAC
1 GTAACACTTAACACATACTTATACCGATGTAA-T-TATGTATCTCCAAAAAGTGTAGCACTTAAC
* * * *
2509886 ACATACTTACACCGATGTAAGTATGTATATCTCCCAAAAAGTGTAGCACTTAATACATACTTACA
64 ACATACTTACACCGGTGTAAGTATGTATATCTCCCAAAAAGTATAACACTTAACACATACTTACA
**
2509951 CTGGTGTAAGCATGTATATCTCCAAAAAAAATG-TATCACTTAACACATACTTACACCGGTGTAA
129 CTAATGTAAGCATGTATATCT-CAAAAAAAATGTTA-CACTTAACACATACTTACACCGGTGTAA
2510015 GTGAAT-AAA-AA-AAA
192 GTGAATAAAATAAGAAA
*
2510029 GTAACACTTAACACATACTTATACCGATGTAATTATGTATCTCCAAAAGAGTGTAGCACTTAATA
1 GTAACACTTAACACATACTTATACCGATGTAATTATGTATCTCCAAAA-AGTGTAGCACTTAACA
2510094 CATACTTACA-CGGTGTAAGTATGTATATCTCCCAAAAAGTATAACACTTAACACATACTTACAC
65 CATACTTACACCGGTGTAAGTATGTATATCTCCCAAAAAGTATAACACTTAACACATACTTACAC
* *** * *
2510158 TAATGTAAGTATGTATATCTTTTAAAAAGTGTTACACTTAACACATACTTACATCGGTGTAAGTG
130 TAATGTAAGCATGTATATCTCAAAAAAAATGTTACACTTAACACATACTTACACCGGTGTAAGTG
2510223 AATAAAATAAGAAA
195 AATAAAATAAGAAA
* * ** * *
2510237 GTATAGAACTTAACACATATTTATATGGGTGTAAGTATGTATATCTCCCCAAAAAGTGTAGCACT
1 GTA-A-CACTTAACACATACTTATACCGATGTAATTATG--TATCT--CCAAAAAGTGTAGCACT
*
2510302 TAACACATACTTACATCGGTGTAAGTATGTA
60 TAACACATACTTACACCGGTGTAAGTATGTA
2510333 CTTCTCTCAA
Statistics
Matches: 262, Mismatches: 28, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
204 2 0.01
205 44 0.17
206 107 0.41
207 24 0.09
208 6 0.02
209 1 0.00
210 27 0.10
212 5 0.02
213 25 0.10
214 21 0.08
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (208 bp):
GTAACACTTAACACATACTTATACCGATGTAATTATGTATCTCCAAAAAGTGTAGCACTTAACAC
ATACTTACACCGGTGTAAGTATGTATATCTCCCAAAAAGTATAACACTTAACACATACTTACACT
AATGTAAGCATGTATATCTCAAAAAAAATGTTACACTTAACACATACTTACACCGGTGTAAGTGA
ATAAAATAAGAAA
Found at i:2512852 original size:132 final size:132
Alignment explanation
Indices: 2512610--2512878 Score: 459
Period size: 132 Copynumber: 2.0 Consensus size: 132
2512600 CTGAAGAATT
*
2512610 GTATCGGTACTTATTCCTAACATAATCTACTGCATGGTTAATTTATCATCTTCTCTAGTTATCAA
1 GTATCGGTACTTATTCCTAACATAATCTA-TGCATGGTTAATTTATCATCTTCTCTAATTATCAA
* * *
2512675 TTTACATGACAATATGTAGTCATTTCACTACAAGAGGGTAGCATGTTCTGCTAAGCGGCATAGCA
65 TTTACATGACAATATGTAGTCATTTCACTACAAAAGGGTAACATGTTCTGCT-AGCAGCATAGCA
2512740 TGTA
129 TGTA
2512744 GTATCGGTACTTATTCCTAACATAATCT-TGCATGGTTAATTTATCATCTTCTCTAATTATCAAT
1 GTATCGGTACTTATTCCTAACATAATCTATGCATGGTTAATTTATCATCTTCTCTAATTATCAAT
*
2512808 TTACATGACAATATGTAGTCATTTCACTACAAAAGGGTAACATGTTCTGCTAGCAGCATTGCATG
66 TTACATGACAATATGTAGTCATTTCACTACAAAAGGGTAACATGTTCTGCTAGCAGCATAGCATG
*
2512873 TC
131 TA
2512875 GTAT
1 GTAT
2512879 AAGACCCATG
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
131 17 0.13
132 84 0.65
134 28 0.22
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (132 bp):
GTATCGGTACTTATTCCTAACATAATCTATGCATGGTTAATTTATCATCTTCTCTAATTATCAAT
TTACATGACAATATGTAGTCATTTCACTACAAAAGGGTAACATGTTCTGCTAGCAGCATAGCATG
TA
Found at i:2514608 original size:21 final size:21
Alignment explanation
Indices: 2514582--2514623 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2514572 TATTACTAGA
2514582 AACCAAT-AGCTGCTAACAGGT
1 AACCAATGA-CTGCTAACAGGT
2514603 AACCAATGACTGCTAACAGGT
1 AACCAATGACTGCTAACAGGT
2514624 TTTCTCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (21 bp):
AACCAATGACTGCTAACAGGT
Found at i:2522758 original size:13 final size:15
Alignment explanation
Indices: 2522740--2522771 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
2522730 ATTGTTCATA
2522740 AAAATATT-TTA-AT
1 AAAATATTATTATAT
2522753 AAAATATTATTATAT
1 AAAATATTATTATAT
2522768 AAAA
1 AAAA
2522772 AATCATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATTATTATAT
Found at i:2525023 original size:20 final size:20
Alignment explanation
Indices: 2524994--2525033 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2524984 TTAACGACAC
2524994 AACTTAAATCCCTTGAAGAG
1 AACTTAAATCCCTTGAAGAG
*
2525014 AACTTCAATCCCTTGAAGAG
1 AACTTAAATCCCTTGAAGAG
2525034 GTCGCGGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (20 bp):
AACTTAAATCCCTTGAAGAG
Found at i:2528950 original size:2 final size:2
Alignment explanation
Indices: 2528943--2528969 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2528933 ATTATTTTTA
2528943 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2528970 GAAAATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2529198 original size:15 final size:15
Alignment explanation
Indices: 2529178--2529208 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2529168 AGAATATTAC
2529178 GGTGTTAAAATTTAA
1 GGTGTTAAAATTTAA
2529193 GGTGTTAAAATTTAA
1 GGTGTTAAAATTTAA
2529208 G
1 G
2529209 AAATTGAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (15 bp):
GGTGTTAAAATTTAA
Found at i:2541899 original size:35 final size:33
Alignment explanation
Indices: 2541835--2542021 Score: 151
Period size: 33 Copynumber: 5.5 Consensus size: 33
2541825 TGTATATACC
*
2541835 ATATAGTTTATATATACTAATGAACTATATAAT
1 ATATAGTTTATATATACTAATGAAATATATAAT
*
2541868 ATATAGTTTATATATGCTAATGAAATATATATAAT
1 ATATAGTTTATATATACTAATG-AA-ATATATAAT
* * ** *
2541903 GTATAGTTTATATATACCATATAGTTTATATATATT
1 ATATAGTTTATATATACTA-AT-G-AAATATATAAT
* * * * *** **
2541939 AATAAACTATATAATGTA-TAATTTTATATATACC
1 -ATATAGTTTAT-ATATACTAATGAAATATATAAT
*
2541973 ATATAGTTTATATATACTAATGAACTATATAAT
1 ATATAGTTTATATATACTAATGAAATATATAAT
2542006 ATATAGTTTATATATA
1 ATATAGTTTATATATA
2542022 TTATAGTATA
Statistics
Matches: 119, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
32 4 0.03
33 55 0.46
34 11 0.09
35 24 0.20
36 12 0.10
37 9 0.08
38 4 0.03
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (33 bp):
ATATAGTTTATATATACTAATGAAATATATAAT
Found at i:2541917 original size:20 final size:18
Alignment explanation
Indices: 2541892--2542094 Score: 72
Period size: 18 Copynumber: 11.5 Consensus size: 18
2541882 TGCTAATGAA
2541892 ATATATATAATGTATAGTTT
1 ATATATATAA--TATAGTTT
**
2541912 ATATATACCATATAGTTT
1 ATATATATAATATAGTTT
* * *
2541930 ATATATATTAATAAACTAT
1 ATATATA-TAATATAGTTT
* *
2541949 ATA-ATGT-ATA-ATTTT
1 ATATATATAATATAGTTT
**
2541964 ATATATACCATATAGTTT
1 ATATATATAATATAGTTT
*
2541982 ATATATACTAATGA-A--CT
1 ATATATA-TAAT-ATAGTTT
2541999 ATATA-AT-ATATAGTTT
1 ATATATATAATATAGTTT
*
2542015 ATATATAT--TATAGTAT
1 ATATATATAATATAGTTT
* *
2542031 AAATTATATTATATA-TTAT
1 ATA-TATATAATATAGTT-T
* *
2542050 ATAAATATCAACTATAGTAT
1 ATATATAT-AA-TATAGTTT
* *
2542070 ATA-AT-TTATATGGTTT
1 ATATATATAATATAGTTT
*
2542086 TTATATATA
1 ATATATATA
2542095 GTTCATATGT
Statistics
Matches: 135, Mismatches: 29, Indels: 40
0.66 0.14 0.20
Matches are distributed among these distances:
13 1 0.01
14 3 0.02
15 7 0.05
16 29 0.21
17 20 0.15
18 35 0.26
19 22 0.16
20 17 0.13
21 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATATATAATATAGTTT
Found at i:2541981 original size:52 final size:52
Alignment explanation
Indices: 2541868--2542022 Score: 213
Period size: 52 Copynumber: 2.9 Consensus size: 52
2541858 ACTATATAAT
* * *
2541868 ATATAGTTTATATATGCTAATGAAATATATATAATGTAT-AGTTTATATATACC
1 ATATAGTTTATATATACTAAT-AAA-CTATATAATGTATAATTTTATATATACC
*
2541921 ATATAGTTTATATATATTAATAAACTATATAATGTATAATTTTATATATACC
1 ATATAGTTTATATATACTAATAAACTATATAATGTATAATTTTATATATACC
* * *
2541973 ATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAT
1 ATATAGTTTATATATACTAATAAACTATATAATGTATAATTT-TATATAT
2542023 TATAGTATAA
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 12 0.13
52 54 0.59
53 26 0.28
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (52 bp):
ATATAGTTTATATATACTAATAAACTATATAATGTATAATTTTATATATACC
Found at i:2542128 original size:9 final size:9
Alignment explanation
Indices: 2542114--2542190 Score: 56
Period size: 9 Copynumber: 8.9 Consensus size: 9
2542104 TAAATTATAC
2542114 TATATAGTA
1 TATATAGTA
2542123 TATATAGTA
1 TATATAGTA
2542132 TATA-A--A
1 TATATAGTA
* *
2542138 TATAAACTA
1 TATATAGTA
*
2542147 TAATTTA-TA
1 T-ATATAGTA
2542156 TATATAGTA
1 TATATAGTA
2542165 TATACTA-TA
1 TATA-TAGTA
* *
2542174 TAAATAGTT
1 TATATAGTA
2542183 TATATAGT
1 TATATAGT
2542191 TCACTAATAA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
6 5 0.09
7 1 0.02
8 7 0.13
9 37 0.67
10 5 0.09
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (9 bp):
TATATAGTA
Found at i:2542188 original size:2 final size:2
Alignment explanation
Indices: 2541998--2542175 Score: 52
Period size: 2 Copynumber: 87.0 Consensus size: 2
2541988 ACTAATGAAC
* *
2541998 TA TA TA -A TA TA TA GTT TA TA TA TA T- TA TA GTA TA AA T- TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
2542039 T- TA TA TA T- TA TA TA AA TA TCA -A CTA TA GTA TA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA -TA TA TA TA TA TA
* * * * *
2542078 TA TGG TT TT TA TA TA TA GT- TCA TA TG TA AA T- TA TA CTA TA TA
1 TA T-A TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA -TA TA TA
* * *
2542120 GTA TA TA TA GTA TA TA AA TA TA AA CTA TA -A TT TA TA TA TA TA
1 -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
2542162 GTA TA TA CTA TA TA
1 -TA TA TA -TA TA TA
2542176 AATAGTTTAT
Statistics
Matches: 131, Mismatches: 21, Indels: 48
0.65 0.10 0.24
Matches are distributed among these distances:
1 10 0.08
2 100 0.76
3 21 0.16
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2542231 original size:44 final size:43
Alignment explanation
Indices: 2542203--2542332 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 43
2542193 ACTAATAAAC
2542203 TATATATATAGTTCATATGTAAACTATATAGTTTAC-ATAGTT
1 TATATATATAGTTCATATGTAAACTATATAGTTTACTATAGTT
* * *
2542245 TATATATATAGTTTATATAATTTATAC-ATATAGTTTA-TATAGTT
1 TATATATATAG-TT-CAT-ATGTAAACTATATAGTTTACTATAGTT
* *
2542289 TATACATATAGTTCATATGTAAACTATATAGTATA-TATAGTT
1 TATATATATAGTTCATATGTAAACTATATAGTTTACTATAGTT
2542331 TA
1 TA
2542333 CGTATAGTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
41 6 0.08
42 31 0.41
43 4 0.05
44 28 0.37
45 6 0.08
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (43 bp):
TATATATATAGTTCATATGTAAACTATATAGTTTACTATAGTT
Found at i:2542241 original size:22 final size:22
Alignment explanation
Indices: 2542203--2542320 Score: 99
Period size: 22 Copynumber: 5.6 Consensus size: 22
2542193 ACTAATAAAC
*
2542203 TATA-TATATAG-TT-CATATG
1 TATACTATATAGTTTACATATT
*
2542222 TAAACTATATAGTTTACATAGTT
1 TATACTATATAGTTTACATA-TT
*
2542245 TATA-TATATAGTTTATATAATT
1 TATACTATATAGTTTACAT-ATT
*
2542267 TATAC-ATATAGTTTATATAGTT
1 TATACTATATAGTTTACATA-TT
*
2542289 TATAC-ATATAG-TT-CATATG
1 TATACTATATAGTTTACATATT
*
2542308 TAAACTATATAGT
1 TATACTATATAGT
2542321 ATATATAGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
19 8 0.10
20 16 0.19
21 5 0.06
22 49 0.59
23 5 0.06
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (22 bp):
TATACTATATAGTTTACATATT
Found at i:2542257 original size:13 final size:13
Alignment explanation
Indices: 2542239--2542285 Score: 57
Period size: 11 Copynumber: 3.9 Consensus size: 13
2542229 TATAGTTTAC
2542239 ATAGTTTATATAT
1 ATAGTTTATATAT
2542252 ATAG-TT-TATAT
1 ATAGTTTATATAT
*
2542263 A-A-TTTATACAT
1 ATAGTTTATATAT
2542274 ATAGTTTATATA
1 ATAGTTTATATA
2542286 GTTTATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 3 0.11
13 11 0.39
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:2542297 original size:13 final size:12
Alignment explanation
Indices: 2542239--2542301 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 12
2542229 TATAGTTTAC
2542239 ATAGTTTATATAT
1 ATAGTTTATA-AT
2542252 ATAGTTTAT-AT
1 ATAGTTTATAAT
2542263 A-A-TTTATACAT
1 ATAGTTTATA-AT
2542274 ATAG-TT-T-AT
1 ATAGTTTATAAT
2542283 ATAGTTTATACAT
1 ATAGTTTATA-AT
2542296 ATAGTT
1 ATAGTT
2542302 CATATGTAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
9 11 0.26
10 3 0.07
11 8 0.19
12 3 0.07
13 17 0.40
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (12 bp):
ATAGTTTATAAT
Found at i:2542482 original size:22 final size:22
Alignment explanation
Indices: 2542455--2542504 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
2542445 CCATATATAC
2542455 TATATATATATAAACTATAGAATT
1 TATAT-TA-ATAAACTATAGAATT
2542479 TATATTAATAAACTATAGAATT
1 TATATTAATAAACTATAGAATT
2542501 TATA
1 TATA
2542505 CAATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 19 0.73
23 2 0.08
24 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (22 bp):
TATATTAATAAACTATAGAATT
Found at i:2542517 original size:22 final size:22
Alignment explanation
Indices: 2542464--2542509 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
2542454 CTATATATAT
*
2542464 ATAAACTATAGAATTTATATTA
1 ATAAACTATAGAATTTATATCA
2542486 ATAAACTATAGAATTTATA-CA
1 ATAAACTATAGAATTTATATCA
2542507 ATA
1 ATA
2542510 TATATATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (22 bp):
ATAAACTATAGAATTTATATCA
Found at i:2542555 original size:20 final size:20
Alignment explanation
Indices: 2542530--2542803 Score: 116
Period size: 20 Copynumber: 13.6 Consensus size: 20
2542520 TAATATATAA
*
2542530 ATATAAATTGTATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
2542550 ATATAATTCATATATAATTTAT
1 ATATAAAT--TATATAGTTTAT
* * *
2542572 ATATAAACTATGTAGTTTCT
1 ATATAAATTATATAGTTTAT
* *
2542592 ATAT-AGTTCA-ATAGTTCAT
1 ATATAAATT-ATATAGTTTAT
*
2542611 ATATAAACTATATAG--TAT
1 ATATAAATTATATAGTTTAT
** * *
2542629 -TATAGTTTATACA-TGGTAT
1 ATATAAATTATATAGT-TTAT
** * *
2542648 ATATAGTTTATACA-TAATAT
1 ATATAAATTATATAGT-TTAT
* *
2542668 ATATATATTATATAGTTTAC
1 ATATAAATTATATAGTTTAT
* * * *
2542688 ATAT-AGTATATAATAATATAA
1 ATATAAAT-TAT-ATAGTTTAT
2542709 ATATAAATTATATAGTTTAT
1 ATATAAATTATATAGTTTAT
* *
2542729 ATATATAATACATATATTTTAT
1 ATATA-AAT-TATATAGTTTAT
**
2542751 ATATAACCTATATAGTTTATT
1 ATATAAATTATATAGTTTA-T
* *
2542772 ATATATATATATATA-TATAT
1 ATATAAAT-TATATAGTTTAT
*
2542792 ATATATATTATA
1 ATATAAATTATA
2542804 GTTGTTTTAA
Statistics
Matches: 191, Mismatches: 46, Indels: 35
0.70 0.17 0.13
Matches are distributed among these distances:
17 9 0.05
18 2 0.01
19 21 0.11
20 93 0.49
21 27 0.14
22 39 0.20
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATAAATTATATAGTTTAT
Found at i:2542575 original size:13 final size:11
Alignment explanation
Indices: 2542540--2542577 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
2542530 ATATAAATTG
*
2542540 TATAGTTTATA
1 TATAATTTATA
*
2542551 TATAATTCATA
1 TATAATTTATA
2542562 TATAATTTATA
1 TATAATTTATA
2542573 TATAA
1 TATAA
2542578 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:2542652 original size:2 final size:2
Alignment explanation
Indices: 2542645--2542803 Score: 95
Period size: 2 Copynumber: 82.0 Consensus size: 2
2542635 TTATACATGG
* * *
2542645 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA T- TA TA TA GTT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
2542687 CA TA TA GTA TA TA -A TA -A TA TA AA TA TA AA T- TA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * ** *
2542728 TA TA TA TA -A TA CA TA TA T- TT TA TA TA TA -A CC TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
2542768 TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2542804 GTTGTTTTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 30
0.70 0.13 0.17
Matches are distributed among these distances:
1 10 0.08
2 104 0.87
3 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2542659 original size:11 final size:10
Alignment explanation
Indices: 2542645--2542803 Score: 95
Period size: 9 Copynumber: 16.4 Consensus size: 10
2542635 TTATACATGG
*
2542645 TATATATAGTT
1 TATATATA-TA
*
2542656 TATACATA-A
1 TATATATATA
2542665 TATATATATA
1 TATATATATA
*
2542675 T-TATATAGTT
1 TATATATA-TA
*
2542685 TACATATAGTA
1 TATATATA-TA
2542696 TATA-ATA-A
1 TATATATATA
*
2542704 TATAAATATA
1 TATATATATA
*
2542714 AAT-TATATA
1 TATATATATA
*
2542723 GTTTATATATA
1 -TATATATATA
*
2542734 TA-ATACATA
1 TATATATATA
*
2542743 TAT-TTTATA
1 TATATATATA
**
2542752 TATA-ACCTA
1 TATATATATA
*
2542761 TATAGTTTAT-
1 TATA-TATATA
2542771 TATATATATA
1 TATATATATA
2542781 TATATATATA
1 TATATATATA
2542791 TATATATAT-
1 TATATATATA
2542800 TATA
1 TATA
2542804 GTTGTTTTAA
Statistics
Matches: 114, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
8 5 0.04
9 50 0.44
10 35 0.31
11 24 0.21
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (10 bp):
TATATATATA
Found at i:2548991 original size:32 final size:32
Alignment explanation
Indices: 2548950--2549102 Score: 172
Period size: 32 Copynumber: 4.8 Consensus size: 32
2548940 GAGTCGAGGG
*
2548950 TTACCTATGTTCTTTGGAACATATGGGCATGA
1 TTACCTATGTTCTTTGGAACATATGGACATGA
* *
2548982 TTACCTATGTTCTTTGGGACATATGGATA-GTA
1 TTACCTATGTTCTTTGGAACATATGGACATG-A
* * *
2549014 TTACCTATG-TCTTTCGAGATATATGGACATAA
1 TTACCTATGTTCTTTGGA-ACATATGGACATGA
*
2549046 TTACCTATG-TCTTTCGGGACATATGGACA-G-
1 TTACCTATGTTCTTT-GGAACATATGGACATGA
*
2549076 TTACCTATGTTCTTAGGAACATATGGA
1 TTACCTATGTTCTTTGGAACATATGGA
2549103 TAGGTCATTC
Statistics
Matches: 102, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
30 20 0.20
31 11 0.11
32 70 0.69
33 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (32 bp):
TTACCTATGTTCTTTGGAACATATGGACATGA
Found at i:2551750 original size:39 final size:39
Alignment explanation
Indices: 2551671--2551752 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
2551661 GTAAAAGCGA
* *
2551671 TATGAAAAGAGTATGAGAGCCTGAAGAAAATAAATTATC
1 TATGAAAAGAGTATGAGAGCCTGAAGAAAAGAAATGATC
*
2551710 TATGAAAAGAGTATGAGAGCCTGAAGAAAAGATATGATC
1 TATGAAAAGAGTATGAGAGCCTGAAGAAAAGAAATGATC
2551749 TATG
1 TATG
2551753 TTACAAGGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.07, G:0.23, T:0.23
Consensus pattern (39 bp):
TATGAAAAGAGTATGAGAGCCTGAAGAAAAGAAATGATC
Found at i:2553039 original size:13 final size:14
Alignment explanation
Indices: 2553016--2553045 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2553006 TTTAATTGTG
2553016 AAAATTACAATTTA
1 AAAATTACAATTTA
2553030 AAAATT-CAATTTA
1 AAAATTACAATTTA
2553043 AAA
1 AAA
2553046 TAATTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATTACAATTTA
Found at i:2553293 original size:26 final size:26
Alignment explanation
Indices: 2553251--2553326 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
2553241 AAAAACAATG
2553251 TTAAAAG-AAATAAAAGATATTATAA
1 TTAAAAGAAAATAAAAGATATTATAA
2553276 TTAAAAGAAAATAAAAGATATTATAA
1 TTAAAAGAAAATAAAAGATATTATAA
*
2553302 CTAAAAGAAAATAAAA-ATATATATA
1 TTAAAAGAAAATAAAAGATAT-TATA
2553327 TACAAAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
25 11 0.23
26 37 0.77
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (26 bp):
TTAAAAGAAAATAAAAGATATTATAA
Found at i:2553333 original size:26 final size:25
Alignment explanation
Indices: 2553253--2553341 Score: 103
Period size: 26 Copynumber: 3.5 Consensus size: 25
2553243 AAACAATGTT
*
2553253 AAAAG-AAATAAAAGATATTATAATT
1 AAAAGAAAATAAAAGATATTATAA-C
2553278 AAAAGAAAATAAAAGATATTATAAC
1 AAAAGAAAATAAAAGATATTATAAC
2553303 TAAAAGAAAATAAAA-ATATATATATAC
1 -AAAAGAAAATAAAAGATAT-TATA-AC
*
2553330 AAAA-TAAATAAA
1 AAAAGAAAATAAA
2553342 TAAATAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
25 16 0.28
26 40 0.69
27 2 0.03
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAGAAAATAAAAGATATTATAAC
Found at i:2553450 original size:29 final size:29
Alignment explanation
Indices: 2553404--2553468 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
2553394 AAATATCTAA
* * *
2553404 AACAAAAATTTAAATGACTAAAATAAAAT
1 AACAGAAACTTAAATGACAAAAATAAAAT
* *
2553433 AATAGAAACTTAAGTGACAAAAATAAAAT
1 AACAGAAACTTAAATGACAAAAATAAAAT
2553462 AACAGAA
1 AACAGAA
2553469 TATAAAGTGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.20
Consensus pattern (29 bp):
AACAGAAACTTAAATGACAAAAATAAAAT
Found at i:2553485 original size:29 final size:29
Alignment explanation
Indices: 2553414--2553477 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2553404 AACAAAAATT
* *
2553414 TAAA-TGACTAAAATAAAATAATAGAAAC
1 TAAAGTGACAAAAATAAAATAACAGAAAC
*
2553442 TTAAGTGACAAAAATAAAATAACAGAATA-
1 TAAAGTGACAAAAATAAAATAACAGAA-AC
2553471 TAAAGTG
1 TAAAGTG
2553478 CCCAAAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.10
29 26 0.87
30 1 0.03
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (29 bp):
TAAAGTGACAAAAATAAAATAACAGAAAC
Found at i:2555130 original size:84 final size:83
Alignment explanation
Indices: 2554732--2555123 Score: 386
Period size: 80 Copynumber: 4.8 Consensus size: 83
2554722 CAATTTTGTT
* * * * * * * * * *
2554732 GACACATAGCCCTTCTTGCCTTAAGTTATGCTGTAAATTTTATTTGCCTCTGAGTTGAATGTAGT
1 GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAAT
*
2554797 CGAACTCGAAGGTCTTTGTT-
64 TGAACTCGAAGGTCTTT-TTG
* * * * * * * *
2554817 GACAGATAACCCTTCTAGCCTTGAGTTTTGCTGTAAATGATGAGCCTTTGAGCTAAGCGTAATTG
1 GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTG
*
2554882 AACTCGAA-GT-TCTTTG
66 AACTCGAAGGTCTTTTTG
* * * *
2554898 G-TAGACAGCCCTTCTTGCCTTAAGCTATGCTGGAAATGATGTGCCTTTGAGCTGAGTGTAATTG
1 GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTG
* *
2554962 AACTTGAAGGTC---TTC
66 AACTCGAAGGTCTTTTTG
* * *
2554977 GACAGATAGCCCTTCTTACCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCG
1 GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTG
2555042 AACTCGAAGGTCTTTTGTTG
66 AACTCGAAGGTC-TTT-TTG
* * * *
2555062 GA-AAATAGCTCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAAT
2555124 ATAACTCTTC
Statistics
Matches: 254, Mismatches: 44, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
79 3 0.01
80 128 0.50
81 5 0.02
82 2 0.01
83 26 0.10
84 54 0.21
85 36 0.14
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (83 bp):
GACAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATTG
AACTCGAAGGTCTTTTTG
Found at i:2555133 original size:58 final size:58
Alignment explanation
Indices: 2555070--2555181 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
2555060 TGGAAAATAG
* * *
2555070 CTCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATATAA
1 CTCTTCTCGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATATAA
*
2555128 CTCTTCTTGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAAT
1 CTCTTCTCGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAAT
2555182 CGAACTCGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (58 bp):
CTCTTCTCGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATATAA
Found at i:2555244 original size:142 final size:142
Alignment explanation
Indices: 2554988--2555265 Score: 475
Period size: 142 Copynumber: 2.0 Consensus size: 142
2554978 ACAGATAGCC
* * *
2554988 CTTCTTACCTTGAGCTATGCTGCAAATGGTGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
1 CTTCTTACCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGT
*
2555053 CTTTTGTTGGAAAATAGCTCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAG
66 CTTTTGTTGGAAAATAGCCCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAG
2555118 TGTAATATAACT
131 TGTAATATAACT
* *
2555130 CTTCTTGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAATGT
1 CTTCTTACCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGT
* * *
2555195 CTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCTTTTGAGCTGAG
66 CTTTTGTTGGAAAATAGCCCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAG
2555260 TGTAAT
131 TGTAAT
2555266 CGAACTTGAA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 127 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (142 bp):
CTTCTTACCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTCGAAGGT
CTTTTGTTGGAAAATAGCCCTTCTCGCCTTGAGCTATGTTGCAAATGATGTGCCTTTGAGCTGAG
TGTAATATAACT
Found at i:2555344 original size:80 final size:80
Alignment explanation
Indices: 2555124--2555933 Score: 913
Period size: 80 Copynumber: 9.9 Consensus size: 80
2555114 TGAGTGTAAT
* ** *
2555124 ATAACTCTTCTTGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * *
2555189 GAATGTCTTTTGTTGGAAA
66 GAAGGTC---T-TTGGCAG
* * * *
2555208 ATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCTTTTGAGCTGAGTGTAATCGAACTT
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555273 GAAGGTCTTTGGCAG
66 GAAGGTCTTTGGCAG
* * * * * * * *
2555288 ATAACCCTTATTGCCTTAAGCTATACTGCAAATGATATGCCTTTAAACTGAATGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555353 AAAGGTCTTTGTTGACAG
66 GAAGGTCTTTG--G-CAG
** **
2555371 ATAACCCTTCTAACCTTGAGTTATGCTATAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555436 GAAGGTCTTTGGCAG
66 GAAGGTCTTTGGCAG
* * * * * * *
2555451 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATTATATGCCTTTGAGTTGAATGCAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555516 GAAGGTCTTTGTTGACAG
66 GAAGGTCTTTG--G-CAG
* * * * *
2555534 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTT
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555599 GAAGGTCTTTGGCAG
66 GAAGGTCTTTGGCAG
* * * *
2555614 ATAACCCTTATTGCCTTGAGTTATGCTACAAATGATGTTCCTTTGAGTTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
2555679 GAAGGTGTTT-G-TG
66 GAAGGTCTTTGGCAG
* * *
2555692 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555757 GAAGGTCTTTGTTGGAAG
66 GAAGGTC--T-TTGGCAG
* * * *
2555775 ATAGCTCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555840 GAAGGTCTTTTGTTGGTAG
66 GAAGGTC---T-TTGGCAG
* ** * * * * * *
2555859 ATAGCCCTTCCCGCTTTGAGCTATGTTGCAAATGATGCGCCTTTGAACTGAGTGTAATTGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555924 GAAGGTCTTT
66 GAAGGTCTTT
2555934 TGTTGAAGGT
Statistics
Matches: 618, Mismatches: 96, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
78 65 0.11
79 1 0.00
80 207 0.33
81 6 0.01
82 3 0.00
83 200 0.32
84 136 0.22
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (80 bp):
ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGGCAG
Found at i:2555412 original size:83 final size:83
Alignment explanation
Indices: 2555124--2555939 Score: 953
Period size: 83 Copynumber: 10.0 Consensus size: 83
2555114 TGAGTGTAAT
* ** *
2555124 ATAACTCTTCTTGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* *
2555189 GAATGTCTTTTGTTGGA-AA
66 GAAGGTC-TTTGTT-GACAG
* * * *
2555208 ATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCTTTTGAGCTGAGTGTAATCGAACTT
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555273 GAAGGTCTTTG--G-CAG
66 GAAGGTCTTTGTTGACAG
* * * * * * * *
2555288 ATAACCCTTATTGCCTTAAGCTATACTGCAAATGATATGCCTTTAAACTGAATGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555353 AAAGGTCTTTGTTGACAG
66 GAAGGTCTTTGTTGACAG
** **
2555371 ATAACCCTTCTAACCTTGAGTTATGCTATAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555436 GAAGGTCTTTG--G-CAG
66 GAAGGTCTTTGTTGACAG
* * * * * * *
2555451 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATTATATGCCTTTGAGTTGAATGCAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555516 GAAGGTCTTTGTTGACAG
66 GAAGGTCTTTGTTGACAG
* * * * *
2555534 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTT
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555599 GAAGGTCTTTG--G-CAG
66 GAAGGTCTTTGTTGACAG
* * * *
2555614 ATAACCCTTATTGCCTTGAGTTATGCTACAAATGATGTTCCTTTGAGTTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555679 GAAGGTGTTTG-T----G
66 GAAGGTCTTTGTTGACAG
* * *
2555692 ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555757 GAAGGTCTTTGTTGGA-AG
66 GAAGGTCTTTGTT-GACAG
* * * *
2555775 ATAGCTCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
**
2555840 GAAGGTCTTTTGTTGGTAG
66 GAAGGTC-TTTGTTGACAG
* ** * * * * * *
2555859 ATAGCCCTTCCCGCTTTGAGCTATGTTGCAAATGATGCGCCTTTGAACTGAGTGTAATTGAACTC
1 ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
2555924 GAAGGTCTTTTGTTGA
66 GAAGGTC-TTTGTTGA
2555940 AGGTGCTTTT
Statistics
Matches: 623, Mismatches: 94, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
78 69 0.11
79 1 0.00
80 202 0.32
81 2 0.00
82 2 0.00
83 205 0.33
84 142 0.23
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (83 bp):
ATAACCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGTTGACAG
Found at i:2555418 original size:163 final size:162
Alignment explanation
Indices: 2555124--2555933 Score: 1070
Period size: 163 Copynumber: 5.0 Consensus size: 162
2555114 TGAGTGTAAT
* * * *
2555124 ATAACTCTTCTTGCCTTGAACTATGCTGCAAATGATGTGCCTTTGAACTGAGTGTAATCGAACTC
1 ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * * * *
2555189 GAATGTCTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCTTTTGA
66 GAAGGTC-TTTGTT-GAAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGA
*
2555254 GCTGAGTGTAATCGAACTTGAAGGTCTTTGGCAG
129 GCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
* * * * * *
2555288 ATAACCCTTATTGCCTTAAGCTATACTGCAAATGATATGCCTTTAAACTGAATGTAATCGAACTC
1 ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * * *
2555353 AAAGGTCTTTGTTGACAGATAACCCTTCTAACCTTGAGTTATGCTATAAATGATGTGCCTTTGAG
66 GAAGGTCTTTGTTGA-AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAG
2555418 CTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
130 CTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
* * * * * * *
2555451 ATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATTATATGCCTTTGAGTTGAATGCAATCGAACTC
1 ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555516 GAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATAATGTGCCTTTGAG
66 GAAGGTCTTTGTTGA-AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAG
*
2555581 CTGAGTGTAATCGAACTTGAAGGTCTTTGGCAG
130 CTGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
* * * *
2555614 ATAACCCTTATTGCCTTGAGTTATGCTACAAATGATGTTCCTTTGAGTTGAGTGTAATCGAACTC
1 ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
*
2555679 GAAGGTGTTTG-T---GATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGC
66 GAAGGTCTTTGTTGAAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGC
*
2555740 TGAGTGTAATCGAACTCGAAGGTCTTTGTTGGAAG
131 TGAGTGTAATCGAACTCGAAGGTC--T-TTGGCAG
* * *
2555775 ATAGCTCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
* * ** * * * *
2555840 GAAGGTCTTTTGTTGGTAGATAGCCCTTCCCGCTTTGAGCTATGTTGCAAATGATGCGCCTTTGA
66 GAAGGTC-TTTGTT-GAAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGA
* *
2555905 ACTGAGTGTAATTGAACTCGAAGGTCTTT
129 GCTGAGTGTAATCGAACTCGAAGGTCTTT
2555934 TGTTGAAGGT
Statistics
Matches: 572, Mismatches: 64, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
158 71 0.12
160 1 0.00
161 70 0.12
162 7 0.01
163 294 0.51
164 64 0.11
165 1 0.00
167 64 0.11
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (162 bp):
ATAACCCTTATTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
GAAGGTCTTTGTTGAAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTTGAGC
TGAGTGTAATCGAACTCGAAGGTCTTTGGCAG
Found at i:2556969 original size:100 final size:99
Alignment explanation
Indices: 2556734--2557003 Score: 400
Period size: 100 Copynumber: 2.7 Consensus size: 99
2556724 GGCTAGCTGG
*
2556734 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAA--TATTATTGTATAGA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTGTATAGA
*
2556797 TATTATATTCACCTTTATCAGGCTAGCTGAATATT
65 TATTATAATCACCTTTATCAGGCTAGCTGAATATT
* * *
2556832 ATCCATAAAGTCGGGTCGTTTAACCAATTGATCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
* * *
2556897 ATTATAATCACCTTTATTAGGCTTAGTTGAATCTT
66 ATTATAATCACCTTTATCAGGC-TAGCTGAATATT
* * *
2556932 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGATAACTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
2556997 ATATATA
66 AT-TATA
2557004 TAATTATAAT
Statistics
Matches: 154, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
98 45 0.29
99 33 0.21
100 72 0.47
101 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (99 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAGAT
ATTATAATCACCTTTATCAGGCTAGCTGAATATT
Found at i:2559290 original size:41 final size:41
Alignment explanation
Indices: 2559231--2559322 Score: 150
Period size: 41 Copynumber: 2.2 Consensus size: 41
2559221 GCTTTGACTT
*
2559231 GAATAAAATGGATTAGAGTCGCCATCGATCATTTATTTTAA
1 GAATAAAATGGATTAGAGTCGCCACCGATCATTTATTTTAA
*
2559272 -ATATAAAATGGATTAGAGTCGTCACCGATCATTTATTTTAA
1 GA-ATAAAATGGATTAGAGTCGCCACCGATCATTTATTTTAA
2559313 GAATAAAATG
1 GAATAAAATG
2559323 AGTTGATTGC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
40 1 0.02
41 45 0.96
42 1 0.02
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (41 bp):
GAATAAAATGGATTAGAGTCGCCACCGATCATTTATTTTAA
Found at i:2559886 original size:29 final size:29
Alignment explanation
Indices: 2559849--2559904 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
2559839 AAATAGAAGT
2559849 TTAAATGACTAAAATAAAATAACATAAAC
1 TTAAATGACTAAAATAAAATAACATAAAC
*
2559878 TTAAGTGACTAAAATAAAATAACATAA
1 TTAAATGACTAAAATAAAATAACATAA
2559905 TATAAAGTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (29 bp):
TTAAATGACTAAAATAAAATAACATAAAC
Found at i:2559912 original size:29 final size:29
Alignment explanation
Indices: 2559850--2559913 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
2559840 AATAGAAGTT
2559850 TAAA-TGACTAAAATAAAATAACATAAAC
1 TAAAGTGACTAAAATAAAATAACATAAAC
*
2559878 TTAAGTGACTAAAATAAAATAACATAATA-
1 TAAAGTGACTAAAATAAAATAACATAA-AC
2559907 TAAAGTG
1 TAAAGTG
2559914 CCCAAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 28 0.88
30 1 0.03
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.25
Consensus pattern (29 bp):
TAAAGTGACTAAAATAAAATAACATAAAC
Found at i:2559920 original size:29 final size:29
Alignment explanation
Indices: 2559850--2559930 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
2559840 AATAGAAGTT
*
2559850 TAAA-TGACTAAAATAAAATAACATAAAC
1 TAAAGTGACCAAAATAAAATAACATAAAC
* *
2559878 TTAAGTGACTAAAATAAAATAACATAATA-
1 TAAAGTGACCAAAATAAAATAACATAA-AC
*
2559907 TAAAGTGCCCAAAATCAGAAATAA
1 TAAAGTGACCAAAAT-A-AAATAA
2559931 ACAAAATAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 3 0.07
29 34 0.76
30 2 0.04
31 6 0.13
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (29 bp):
TAAAGTGACCAAAATAAAATAACATAAAC
Found at i:2561200 original size:13 final size:16
Alignment explanation
Indices: 2561167--2561202 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
2561157 AGTTGTCGAG
2561167 TCGAGCTCAGCAATAC
1 TCGAGCTCAGCAATAC
2561183 TCGAGCTC-G-AAT-C
1 TCGAGCTCAGCAATAC
2561196 TCGAGCT
1 TCGAGCT
2561203 AACTGAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 3 0.15
15 1 0.05
16 8 0.40
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (16 bp):
TCGAGCTCAGCAATAC
Found at i:2570715 original size:45 final size:45
Alignment explanation
Indices: 2570651--2570741 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
2570641 GTTGTTGATG
2570651 TAAGACTTCAAAAGGTGACTTTCCATGTAATACTCTTGTAGGTAA
1 TAAGACTTCAAAAGGTGACTTTCCATGTAATACTCTTGTAGGTAA
2570696 TAAGACTTCAAAAGGTGACTTTCCATGTAATACTCTTGTAGGTAA
1 TAAGACTTCAAAAGGTGACTTTCCATGTAATACTCTTGTAGGTAA
2570741 T
1 T
2570742 CGATTAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (45 bp):
TAAGACTTCAAAAGGTGACTTTCCATGTAATACTCTTGTAGGTAA
Found at i:2574956 original size:31 final size:31
Alignment explanation
Indices: 2574918--2575040 Score: 212
Period size: 31 Copynumber: 4.0 Consensus size: 31
2574908 CCCGAAGGAC
* *
2574918 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2574949 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2574980 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2575011 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
2575041 CCCTCGACCC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2575744 original size:21 final size:21
Alignment explanation
Indices: 2575714--2575758 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2575704 ATTCTGTCGT
* *
2575714 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
2575735 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
2575756 TTG
1 TTG
2575759 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:2579599 original size:31 final size:31
Alignment explanation
Indices: 2579561--2579683 Score: 212
Period size: 31 Copynumber: 4.0 Consensus size: 31
2579551 CCCGAAGGAC
* *
2579561 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2579592 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2579623 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2579654 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
2579684 CCCTCGACCC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2580389 original size:21 final size:21
Alignment explanation
Indices: 2580359--2580403 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2580349 ATTCTGTCGT
*
2580359 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
* *
2580380 TTGAATGGGTATTGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
2580401 TTG
1 TTG
2580404 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.36
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:2584241 original size:31 final size:31
Alignment explanation
Indices: 2584203--2584325 Score: 212
Period size: 31 Copynumber: 4.0 Consensus size: 31
2584193 CCCGAAGGAC
* *
2584203 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2584234 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2584265 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2584296 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
2584326 CCCTCGACCC
Statistics
Matches: 89, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2585031 original size:21 final size:21
Alignment explanation
Indices: 2585001--2585045 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2584991 ATTCTGTCGT
*
2585001 TTGAAGGGGTA-TCGGTTCCCC
1 TTGAAGGGGTACT-GATTCCCC
*
2585022 TTGAATGGGTACTGATTCCCC
1 TTGAAGGGGTACTGATTCCCC
2585043 TTG
1 TTG
2585046 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACTGATTCCCC
Found at i:2595286 original size:35 final size:35
Alignment explanation
Indices: 2595247--2595324 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
2595237 CACAAGCATT
**
2595247 AATTACATTATAAACCCCAAATTCCAAAATGTTTC
1 AATTACATTATAAACCCCAAATTCCAAAATACTTC
* * *
2595282 AATTACATTCTAAACCTCAAATTCCAAAGTACTTC
1 AATTACATTATAAACCCCAAATTCCAAAATACTTC
2595317 AATTACAT
1 AATTACAT
2595325 ACCCAACCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (35 bp):
AATTACATTATAAACCCCAAATTCCAAAATACTTC
Found at i:2595338 original size:35 final size:35
Alignment explanation
Indices: 2595258--2595340 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 35
2595248 ATTACATTAT
** * *
2595258 AAACCCCAAATTCCAAAATGTTTCAATTACATTCT
1 AAACCCCAAATTCCAAAATACTTCAATTACATACC
* *
2595293 AAACCTCAAATTCCAAAGTACTTCAATTACATACC
1 AAACCCCAAATTCCAAAATACTTCAATTACATACC
*
2595328 CAACCCCAAATTC
1 AAACCCCAAATTC
2595341 ATAATCCATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.27
Consensus pattern (35 bp):
AAACCCCAAATTCCAAAATACTTCAATTACATACC
Found at i:2596179 original size:35 final size:35
Alignment explanation
Indices: 2596140--2596219 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
2596130 GGAGTTGGGC
* *
2596140 ATGTAATTGAAATATTTTGGAATTTGAGGTTTATA
1 ATGTAATTGAAACATTTTGGAATTTGAGGTTTAGA
* * *
2596175 ATGTAATTGAAGCATTTTGGATTTTGGGGTTTAGA
1 ATGTAATTGAAACATTTTGGAATTTGAGGTTTAGA
2596210 ATGTAATTGA
1 ATGTAATTGA
2596220 TGATTGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (35 bp):
ATGTAATTGAAACATTTTGGAATTTGAGGTTTAGA
Found at i:2597090 original size:88 final size:88
Alignment explanation
Indices: 2596941--2597125 Score: 361
Period size: 88 Copynumber: 2.1 Consensus size: 88
2596931 TATAGAATTT
2596941 AAAATTTAATAAAAGTATGTCAGTTATACCATTTTAATATTTAAACTTACATAGTATAATTACAA
1 AAAATTTAATAAAAGTATGTCAGTTATACCATTTTAATATTTAAACTTACATAGTATAATTACAA
2597006 TTACTATTATTAAATATGGCATA
66 TTACTATTATTAAATATGGCATA
*
2597029 AAAATTTAATAAAAGTATGTCAGTTATACTATTTTAATATTTAAACTTACATAGTATAATTACAA
1 AAAATTTAATAAAAGTATGTCAGTTATACCATTTTAATATTTAAACTTACATAGTATAATTACAA
2597094 TTACTATTATTAAATATGGCATA
66 TTACTATTATTAAATATGGCATA
2597117 AAAATTTAA
1 AAAATTTAA
2597126 GATGTAGTTA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (88 bp):
AAAATTTAATAAAAGTATGTCAGTTATACCATTTTAATATTTAAACTTACATAGTATAATTACAA
TTACTATTATTAAATATGGCATA
Found at i:2600683 original size:13 final size:13
Alignment explanation
Indices: 2600665--2600692 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2600655 ACCTTAACAC
2600665 TCGATAGACATCT
1 TCGATAGACATCT
2600678 TCGATAGACATCT
1 TCGATAGACATCT
2600691 TC
1 TC
2600693 TAAGTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (13 bp):
TCGATAGACATCT
Found at i:2601962 original size:33 final size:33
Alignment explanation
Indices: 2601925--2602032 Score: 119
Period size: 33 Copynumber: 3.3 Consensus size: 33
2601915 GTCAGGAAAA
* *
2601925 TGTTTTGAGGTTGTTGTTTGATGTTTATGACAG
1 TGTTTTGAGGTTGTTGTTTGATGTTCAAGACAG
* *
2601958 TGTTTTGAGGTTGTTGTTTGGTGTTCAAGATAG
1 TGTTTTGAGGTTGTTGTTTGATGTTCAAGACAG
* * * ** *
2601991 TGTTTTGAGGATG-TGTTCGGTGTTCGGGACGG
1 TGTTTTGAGGTTGTTGTTTGATGTTCAAGACAG
2602023 TGTTTTGAGG
1 TGTTTTGAGG
2602033 CTGCTGTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
32 24 0.37
33 41 0.63
ACGTcount: A:0.13, C:0.05, G:0.36, T:0.46
Consensus pattern (33 bp):
TGTTTTGAGGTTGTTGTTTGATGTTCAAGACAG
Found at i:2604460 original size:67 final size:67
Alignment explanation
Indices: 2604352--2604486 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
2604342 TGGGTGTGTG
*
2604352 CGGACTTGGTATGGGTAAGAATTTCTGTTATTGCGGTCTTTCATTCTATTCATATCAACGTTCTT
1 CGGACTTGATATGGGTAAGAATTTCTGTTATTGCGGTCTTTCATTCTATTCATATCAACGTTCTT
2604417 CA
66 CA
* *
2604419 CGGACTTGATATGGGTAAGAATTTCTGTTATTGGGGTCTTTCATTCTATTCATATCAACTTTCTT
1 CGGACTTGATATGGGTAAGAATTTCTGTTATTGCGGTCTTTCATTCTATTCATATCAACGTTCTT
2604484 CA
66 CA
2604486 C
1 C
2604487 TGAACTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (67 bp):
CGGACTTGATATGGGTAAGAATTTCTGTTATTGCGGTCTTTCATTCTATTCATATCAACGTTCTT
CA
Found at i:2606484 original size:19 final size:19
Alignment explanation
Indices: 2606460--2606498 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2606450 TCGAATGCAT
2606460 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2606479 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2606498 T
1 T
2606499 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2606566 original size:45 final size:46
Alignment explanation
Indices: 2606481--2606586 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 46
2606471 ATGCACTCTC
*
2606481 CATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
* **
2606527 GATGCATCGATGCA-TCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACTCAGAATA-TTTTCAAAACATCGAATGCATTT
2606572 CATGCATCGATGCAC
1 CATGCATCGATGCAC
2606587 ACTTGGTGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 35 0.66
46 18 0.34
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:2614017 original size:21 final size:21
Alignment explanation
Indices: 2613975--2614018 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2613965 ACCCCGTGAG
*
2613975 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
2613996 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
2614017 CT
1 CT
2614019 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:2615066 original size:19 final size:19
Alignment explanation
Indices: 2615042--2615078 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2615032 TCGAATGCAT
2615042 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2615061 TCCATGCATCGATGCACT
1 TCCATGCACCGATGCACT
2615079 TTGAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2615178 original size:64 final size:63
Alignment explanation
Indices: 2614979--2615188 Score: 213
Period size: 65 Copynumber: 3.3 Consensus size: 63
2614969 TATTCAAAGG
* * * ** * *
2614979 CATGCACCGATGCATCAATACATGCATCGATGCATCGATGAATTAATTGAACATCGAATGCATTC
1 CATGCACCGATGCA-CAATCCATGCATCGATGCATC-AGGTATTTTTTAAACATCGAATGCATTT
** ** * **
2615044 CATGCACCGATGCACTCTCCATGCATCGATGCACTTTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACAATCCATGCATCGATGCA-TCAG-GTATTTTTTAAACATCGAATGCATTT
* * *
2615109 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTTAAACATCGAATGCATTT
1 CATGCACCGATGCACAATCCATGCATCGATGCATCAGG-TATTTTTTAAACATCGAATGCATTT
*
2615173 CATGCATCGATGCACA
1 CATGCACCGATGCACA
2615189 CTTGGTGCAC
Statistics
Matches: 117, Mismatches: 25, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
64 56 0.48
65 61 0.52
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (63 bp):
CATGCACCGATGCACAATCCATGCATCGATGCATCAGGTATTTTTTAAACATCGAATGCATTT
Found at i:2615203 original size:64 final size:64
Alignment explanation
Indices: 2615028--2615208 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 64
2615018 GAATTAATTG
* * * **
2615028 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTTTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** ** **
2615093 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTTA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
*** *
2615157 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
2615209 AGTGTTCCAA
Statistics
Matches: 97, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
64 54 0.56
65 43 0.44
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:2617144 original size:22 final size:22
Alignment explanation
Indices: 2617119--2617185 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
2617109 ATGAAAAGGT
2617119 TTAACCTTATTCATAAAAAGAC
1 TTAACCTTATTCATAAAAAGAC
* *
2617141 TTAACTTTAATT-ATGAAAAA-AT
1 TTAACCTT-ATTCAT-AAAAAGAC
2617163 TTAACCTTATTCATAAAAAGAC
1 TTAACCTTATTCATAAAAAGAC
2617185 T
1 T
2617186 CAACTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 8 0.22
22 21 0.57
23 8 0.22
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
TTAACCTTATTCATAAAAAGAC
Found at i:2617166 original size:44 final size:44
Alignment explanation
Indices: 2617095--2617204 Score: 166
Period size: 44 Copynumber: 2.4 Consensus size: 44
2617085 GACTTAACCT
**
2617095 TTAACCTTTAATCTATGAAAAGGTTTAACCTTATTCATAAAAAGAC
1 TTAA-CTTTAAT-TATGAAAAAATTTAACCTTATTCATAAAAAGAC
2617141 TTAACTTTAATTATGAAAAAATTTAACCTTATTCATAAAAAGAC
1 TTAACTTTAATTATGAAAAAATTTAACCTTATTCATAAAAAGAC
*
2617185 TCAACTTTAATTTATGAAAA
1 TTAACTTTAA-TTATGAAAA
2617205 TGTACGATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
44 40 0.67
45 16 0.27
46 4 0.07
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (44 bp):
TTAACTTTAATTATGAAAAAATTTAACCTTATTCATAAAAAGAC
Found at i:2622236 original size:22 final size:22
Alignment explanation
Indices: 2622211--2622276 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
2622201 TATGAAAATT
2622211 TTTAACCTTATTCATAAAAAGA
1 TTTAACCTTATTCATAAAAAGA
** * * *
2622233 TTT-ATTTTAATTTATGAAAAGG
1 TTTAACCTT-ATTCATAAAAAGA
2622255 TTTAACCTTATTCATAAAAAGA
1 TTTAACCTTATTCATAAAAAGA
2622277 CTCAACTTTA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
21 3 0.09
22 26 0.81
23 3 0.09
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (22 bp):
TTTAACCTTATTCATAAAAAGA
Found at i:2625980 original size:38 final size:38
Alignment explanation
Indices: 2625922--2626290 Score: 493
Period size: 38 Copynumber: 9.7 Consensus size: 38
2625912 TTATTTATTT
** **
2625922 ATATATATATATATATTATAGTTTGCAAATGATTTTTG-AA
1 ATATATATATA-ATA-TATAGTTTTTAAAACA-TTTTGAAA
*
2625962 ATATATATATAATATATAG-TTTTAAAATATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2625999 A-CT-TATATAATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2626035 ATATGTATATAATATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2626073 AAATATATATAATATATAGTTTTTAAAATATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
*
2626111 A-CT-TATATAATATATAG-TTTTAAAACATTTTGAAA
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
* *
2626146 ATATGTATATAATATATAGTTTTTAAAACATTTTGAAT
1 ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
2626184 ATATATATATATATAATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATA-AT-ATATAGTTTTTAAAACATTTTGAAA
2626224 ATATATATATATACTATATAGTTTTTAAAACATTTTGAAA
1 ATATATATATA-A-TATATAGTTTTTAAAACATTTTGAAA
* *
2626264 AAATATATATAATATATA-ATTTTAAAA
1 ATATATATATAATATATAGTTTTTAAAA
2626291 TATATTATAT
Statistics
Matches: 301, Mismatches: 18, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
35 32 0.11
36 39 0.13
37 33 0.11
38 107 0.36
39 6 0.02
40 83 0.28
41 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (38 bp):
ATATATATATAATATATAGTTTTTAAAACATTTTGAAA
Found at i:2626068 original size:111 final size:111
Alignment explanation
Indices: 2625955--2626290 Score: 525
Period size: 111 Copynumber: 3.0 Consensus size: 111
2625945 TGCAAATGAT
2625955 TTTTGAAATATATATATAATATATAG-TTTTAAAATATTTTGAAAACTTATATAATATATAGTTT
1 TTTTGAAATATATATATAATATATAGTTTTTAAAATATTTTGAAAACTTATATAATATATAGTTT
2626019 TTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAACA
66 TTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAACA
*
2626065 TTTTGAAAAAATATATATAATATATAGTTTTTAAAATATTTTGAAAACTTATATAATATATAG-T
1 TTTTG-AAATATATATATAATATATAGTTTTTAAAATATTTTGAAAACTTATATAATATATAGTT
2626129 TTTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAACA
65 TTTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAACA
* *
2626176 TTTTGAATATATATATATATATAATATAGTTTTTAAAACATTTTGAAAATATATATATATACTAT
1 TTTTGAA-ATATATATATA-AT-ATATAGTTTTTAAAATATTTTGAAAA-CT-TATATA-A-TAT
* * *
2626241 ATAGTTTTTAAAACATTTTGAAAAAATATATATAATATATA-ATTTTAAAA
59 ATAGTTTTTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAA
2626291 TATATTATAT
Statistics
Matches: 209, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
110 7 0.03
111 83 0.40
112 37 0.18
113 25 0.12
114 1 0.00
115 6 0.03
116 1 0.00
117 15 0.07
118 34 0.16
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (111 bp):
TTTTGAAATATATATATAATATATAGTTTTTAAAATATTTTGAAAACTTATATAATATATAGTTT
TTAAAACATTTTGAAAATATGTATATAATATATAGTTTTTAAAACA
Found at i:2626299 original size:25 final size:26
Alignment explanation
Indices: 2626255--2626323 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
2626245 TTTTTAAAAC
*
2626255 ATTTTGAAAAAATATATATAATATATA
1 ATTTTGAAAATATAT-TATAATATATA
* *
2626282 ATTTT-AAAATATATTATATTATATG
1 ATTTTGAAAATATATTATAATATATA
*
2626307 GTTTTGAAAATA-ATTAT
1 ATTTTGAAAATATATTAT
2626324 TTTGAAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 18 0.49
26 14 0.38
27 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (26 bp):
ATTTTGAAAATATATTATAATATATA
Found at i:2626429 original size:33 final size:33
Alignment explanation
Indices: 2626364--2626430 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
2626354 AAAATTTTTA
*
2626364 TTATATATTATATTAATATTAGTTTTTATTATT
1 TTATATATTATATTAATATTAATTTTTATTATT
*
2626397 TTATATATTATTATTTAT-TTAA-TTTTATTTATT
1 TTATATATTA-TATTAATATTAATTTTTA-TTATT
2626430 T
1 T
2626431 ACTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
33 19 0.63
34 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (33 bp):
TTATATATTATATTAATATTAATTTTTATTATT
Found at i:2626436 original size:18 final size:18
Alignment explanation
Indices: 2626407--2626447 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2626397 TTATATATTA
*
2626407 TTATTTATTTAATTTTAT
1 TTATTTACTTAATTTTAT
*
2626425 TTATTTACTTAATTTTCT
1 TTATTTACTTAATTTTAT
2626443 TTATT
1 TTATT
2626448 GTTTTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (18 bp):
TTATTTACTTAATTTTAT
Found at i:2627708 original size:5 final size:5
Alignment explanation
Indices: 2627690--2627819 Score: 74
Period size: 5 Copynumber: 25.4 Consensus size: 5
2627680 TTAACCTTGT
*
2627690 TTTTA TTATTA TTTTA TTTTA TTTTA TTTTA TTTCA TTATT- TTTTA TTATT-
1 TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TT-TTA
* ** *
2627741 TTTTAAA TTTTA TTTTTA CTCAA TTTTA -TTTA TTTGTA -TTTA TTGT-
1 TTTT--A TTTTA -TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA
* *
2627787 TTTCA -TTTA TTTTA TTTCTA TTATTA TATTA TT
1 TTTTA TTTTA TTTTA TTT-TA TT-TTA TTTTA TT
2627820 ATTCTTATTA
Statistics
Matches: 96, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
4 15 0.16
5 54 0.56
6 22 0.23
7 5 0.05
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:2639856 original size:20 final size:21
Alignment explanation
Indices: 2639831--2639924 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 21
2639821 TTGTGCTTCA
2639831 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-AG
* *
2639851 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAAAG
* *
2639873 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAAAG
* * *
2639894 TGCACCGATGCACGCCTTGAATG
1 TGCATCGAT--ACACCTTGAAAG
2639917 TGCATCGA
1 TGCATCGA
2639925 AGCACAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.19
21 17 0.29
22 13 0.22
23 18 0.31
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (21 bp):
TGCATCGATACACCTTGAAAG
Found at i:2639896 original size:21 final size:20
Alignment explanation
Indices: 2639831--2639902 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
2639821 TTGTGCTTCA
2639831 TGCATCGATACACCT-AACAG
1 TGCATCGATACACCTGAA-AG
* *
2639851 TGCATCGATGCATCCTTGAATG
1 TGCATCGATACA-CC-TGAAAG
*
2639873 TGCATCGATACACCATGAAGG
1 TGCATCGATACACC-TGAAAG
*
2639894 TGCACCGAT
1 TGCATCGAT
2639903 GCACGCCTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.26
21 17 0.40
22 13 0.30
23 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (20 bp):
TGCATCGATACACCTGAAAG
Found at i:2639919 original size:23 final size:23
Alignment explanation
Indices: 2639850--2639930 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
2639840 ACACCTAACA
*
2639850 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
2639872 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
2639893 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
*
2639916 GTGCATCGAAGCACA
1 GTGCATCGATGCACA
2639931 GGGTCATGCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
22 10 0.22
23 20 0.43
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:2639921 original size:44 final size:42
Alignment explanation
Indices: 2639831--2639924 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 42
2639821 TTGTGCTTCA
* *
2639831 TGCATCGATACACCTAACAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
*
2639873 TGCATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC-T-AACAGTGCACCGATGCA-GCCTTGAATG
2639917 TGCATCGA
1 TGCATCGA
2639925 AGCACAGGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 14 0.30
43 13 0.28
44 19 0.41
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (42 bp):
TGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAATG
Found at i:2639946 original size:43 final size:43
Alignment explanation
Indices: 2639831--2639948 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 43
2639821 TTGTGCTTCA
* *
2639831 TGCATCGATACACC--TAACAGTGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCAGGAACA-TGCATCGATGCAGCCTTGAATG
* ** *
2639873 TGCATCGATACACCATGAAGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACCAGGAACATGCATCGATGCA-GCCTTGAATG
**
2639917 TGCATCGA-AGCA-CAGGGTCATGCATCGATGCA
1 TGCATCGATA-CACCAGGAACATGCATCGATGCA
2639949 TTTGTCGGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 14 0.23
43 26 0.43
44 21 0.34
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (43 bp):
TGCATCGATACACCAGGAACATGCATCGATGCAGCCTTGAATG
Found at i:2641505 original size:21 final size:21
Alignment explanation
Indices: 2641463--2641506 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2641453 ACCCCGGGAG
*
2641463 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
2641484 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
2641505 CT
1 CT
2641507 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Done.