Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_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: 2791265
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:1947634 original size:120 final size:120
Alignment explanation
Indices: 1947421--1948119 Score: 1085
Period size: 120 Copynumber: 5.8 Consensus size: 120
1947411 CCCACAAACC
* *
1947421 TTGGATTTCAACTTCACGATGAAGGATATCCAATTCCAGGCTCAACTTCACAATGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
1947486 CCACGATTTCAACTTCACGATGAAGGATATCGTGTTCTCCAGTAACATCCTTATA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
* * *
1947541 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCATGCTCAACTTCACAACGAATGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
1947606 CCACGATTTCAACTTCACGACGAAGGATATCATGTTCACCAGTAACATCTTTATA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
* * * * *
1947661 TTGGATTTCAACTTCACAACGAAGGATATCCAATTTCATGCTCAACTTTACAACGAAGGGGTCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
** *
1947726 CCACGATTTCAACTTCACGAAAAAGGATATCGTGTTCACCAATAACATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
* * * *
1947781 TTGGATTTCAACTTCACGACGAAGGATATCCAATTTCAAGCTCAACTTCACAATGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
* * *
1947846 CCACGATTTTAACTTCACGATGAATGATATCGTGTTCACCAGTAACATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
* * *
1947901 TTGGATTTGAACTTCACGACGAAGGACATCTAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
*
1947966 CCACGATTACAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
* *
1948021 TTGGATTTCAACTTCACGACGAATGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGACCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
*
1948086 CCAC-AGTTTCAACTTCACGACGAATGATATCGTG
66 CCACGA-TTTCAACTTCACGACGAAGGATATCGTG
1948120 CCCATAAGCA
Statistics
Matches: 530, Mismatches: 48, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
119 1 0.00
120 529 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (120 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGA
Found at i:1947862 original size:360 final size:349
Alignment explanation
Indices: 1947191--1948123 Score: 1276
Period size: 360 Copynumber: 2.6 Consensus size: 349
1947181 ACAATACTCA
* **
1947191 GATTTCAACTTCACGAAGAAGGATATCCAATTTAAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
* * ** * *
1947256 TGATTTCAACTTCACGACGAAGGATATTGTGCCCACCAGCAACATTCAACTTTAGATTGGATTTT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACA-T---CTTTAGATTGGATTTC
* * * * * *
1947321 AACTTCACGACAAAGGATATCCAA-TTCAAGGCTCAACTTCACAATGAATGAGCCATCGATGATT
127 AACTTCACGACGAAGGATATCCAATTTC-AGGCTCAACTTCACAACGAAGGGGCCATCCACGATT
* * * *
1947385 TCAACTCCACGATGGAGGATATCGTGCCCACAAACCTTGGATTTCAACTTCACGATGAAGGATAT
191 TCAACTTCACGAAGAAGGATATCGTGCCCACAAACCTTGGATTTCAACTTCACGACGAAGGATAT
*
1947450 CCAATTCCAGGCTCAACTTCACAATGAAGGGGCCATCCACGATTTCAACTTCACGATGAAGGATA
256 CCAATTCCAAGCTCAACTTCACAATGAAGGGGCCATCCACGATTTCAACTTCACGATGAAGGATA
* *
1947515 TCGTGTTCTCCAGTAACATCCTTATATTG
321 TCGTGTTCACCAGTAACATCCTTAGATTG
* * *
1947544 GATTTCAACTTCACGACGAAGGATATCCAATTCCATGCTCAACTTCACAACGAATGGGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
* *
1947609 CGATTTCAACTTCACGACGAAGGATATCATGTTCACCAGTAACATCTTTATATTGGATTTCAACT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCTTTAGATTGGATTTCAACT
* * * *
1947674 TCACAACGAAGGATATCCAATTTCATGCTCAACTTTACAACGAAGGGGTCATCCACGATTTCAAC
131 TCACGACGAAGGATATCCAATTTCAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAAC
* *
1947739 TTCACGAAAAAGGATATCGTGTTCACCAATAACATCCTTAGATTGGATTTCAACTTCACGACGAA
196 TTCACGAAGAAGGATATCGTG--C-CC-ACAA-A-CC-----TTGGATTTCAACTTCACGACGAA
* * *
1947804 GGATATCCAATTTCAAGCTCAACTTCACAATGAATGGGCCATCCACGATTTTAACTTCACGATGA
250 GGATATCCAATTCCAAGCTCAACTTCACAATGAAGGGGCCATCCACGATTTCAACTTCACGATGA
*
1947869 ATGATATCGTGTTCACCAGTAACATCCTTAGATTG
315 AGGATATCGTGTTCACCAGTAACATCCTTAGATTG
* * *
1947904 GATTTGAACTTCACGACGAAGGACATCTAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
* *
1947969 CGATTACAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCTTTAGATTGGATTTCAACT
* * *
1948034 TCACGACGAATGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGACCATCCAC-AGTTTCAA
131 TCACGACGAAGGATATCCAATTTCAGGCTCAACTTCACAACGAAGGGGCCATCCACGA-TTTCAA
* *
1948098 CTTCACGACGAATGATATCGTGCCCA
195 CTTCACGAAGAAGGATATCGTGCCCA
1948124 TAAGCAGCAT
Statistics
Matches: 510, Mismatches: 57, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
349 86 0.17
350 3 0.01
351 1 0.00
352 3 0.01
353 100 0.20
354 1 0.00
355 2 0.00
356 1 0.00
357 2 0.00
358 1 0.00
359 1 0.00
360 309 0.61
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (349 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCTTTAGATTGGATTTCAACT
TCACGACGAAGGATATCCAATTTCAGGCTCAACTTCACAACGAAGGGGCCATCCACGATTTCAAC
TTCACGAAGAAGGATATCGTGCCCACAAACCTTGGATTTCAACTTCACGACGAAGGATATCCAAT
TCCAAGCTCAACTTCACAATGAAGGGGCCATCCACGATTTCAACTTCACGATGAAGGATATCGTG
TTCACCAGTAACATCCTTAGATTG
Found at i:1948066 original size:34 final size:34
Alignment explanation
Indices: 1948028--1948116 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 34
1948018 AGATTGGATT
*
1948028 TCAACTTCACGACGAATGATATCCAATTC-CAGGC
1 TCAACTTCACGACGAATGATATCC-ATCCACAGGC
* ** **
1948062 TCAACTTCACAACGAA-GGGA-CCATCCACAGTT
1 TCAACTTCACGACGAATGATATCCATCCACAGGC
1948094 TCAACTTCACGACGAATGATATC
1 TCAACTTCACGACGAATGATATC
1948117 GTGCCCATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
31 3 0.07
32 20 0.47
33 4 0.09
34 16 0.37
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (34 bp):
TCAACTTCACGACGAATGATATCCATCCACAGGC
Found at i:1948117 original size:240 final size:239
Alignment explanation
Indices: 1947191--1948119 Score: 1270
Period size: 240 Copynumber: 3.9 Consensus size: 239
1947181 ACAATACTCA
* **
1947191 GATTTCAACTTCACGAAGAAGGATATCCAATTTAAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
* * ** * *
1947256 TGATTTCAACTTCACGACGAAGGATATTGTGCCCACCAGCAACATTCAACTTTAGATTGGATTTT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACA-TC--C-TTAGATTGGATTTC
* * * * * *
1947321 AACTTCACGACAAAGGATATCCAATTCAAGGCTCAACTTCACAATGAATGAGCCATCGATGATTT
127 AACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAATGGGCCATCCACGATTT
* * * *
1947386 CAACTCCACGATGGAGGATATCGTG--C-CCA-CAA-A-CC----TTG
192 CAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAATTG
* *
1947424 GATTTCAACTTCACGATGAAGGATATCCAATTCCAGGCTCAACTTCACAATGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
* * *
1947489 CGATTTCAACTTCACGATGAAGGATATCGTGTTCTCCAGTAACATCCTTATATTGGATTTCAACT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
* *
1947554 TCACGACGAAGGATATCCAATTCCATGCTCAACTTCACAACGAATGGGTCATCCACGATTTCAAC
131 TCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAATGGGCCATCCACGATTTCAAC
* *
1947619 TTCACGACGAAGGATATCATGTTCACCAGTAACATCTTTATATTG
196 TTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTA-ATTG
* * * * *
1947664 GATTTCAACTTCACAACGAAGGATATCCAATTTCATGCTCAACTTTACAACGAAGGGGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
** *
1947729 CGATTTCAACTTCACGAAAAAGGATATCGTGTTCACCAATAACATCCTTAGATTGGATTTCAACT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
* * * *
1947794 TCACGACGAAGGATATCCAATTTCAAGCTCAACTTCACAATGAATGGGCCATCCACGATTTTAAC
131 TCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAATGGGCCATCCACGATTTCAAC
* *
1947859 TTCACGATGAATGATATCGTGTTCACCAGTAACATCCTTAGATTG
196 TTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTA-ATTG
* * *
1947904 GATTTGAACTTCACGACGAAGGACATCTAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
*
1947969 CGATTACAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
66 CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
*
1948034 TCACGACGAATGATATCCAATTCCAGGCTCAACTTCACAACGAA-GGGACCATCCAC-AGTTTCA
131 TCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAATGGG-CCATCCACGA-TTTCA
*
1948097 ACTTCACGACGAATGATATCGTG
194 ACTTCACGACGAAGGATATCGTG
1948120 CCCATAAGCA
Statistics
Matches: 616, Mismatches: 67, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
229 90 0.15
230 1 0.00
231 1 0.00
232 5 0.01
233 100 0.16
234 1 0.00
235 1 0.00
239 4 0.01
240 413 0.67
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (239 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAAGGGGCCATCCA
CGATTTCAACTTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAGATTGGATTTCAACT
TCACGACGAAGGATATCCAATTCCAGGCTCAACTTCACAACGAATGGGCCATCCACGATTTCAAC
TTCACGACGAAGGATATCGTGTTCACCAGTAACATCCTTAATTG
Found at i:1949966 original size:19 final size:19
Alignment explanation
Indices: 1949942--1949982 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1949932 GTATTATCAT
1949942 TATTAT-TATTTTTATTTTA
1 TATTATCTA-TTTTATTTTA
*
1949961 TATTATCTATTTTGTTTTA
1 TATTATCTATTTTATTTTA
1949980 TAT
1 TAT
1949983 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTATCTATTTTATTTTA
Found at i:1950194 original size:3 final size:3
Alignment explanation
Indices: 1950176--1950279 Score: 56
Period size: 3 Copynumber: 33.3 Consensus size: 3
1950166 TGTTTATACG
*
1950176 TTA TTA TATA TATA TTA TTTA TTA TTA TTA TTA TTA -TA TTAA CCTA
1 TTA TTA T-TA T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * *
1950222 -TA TATA TATA TT- TTA TTT TTA TTT TTA TTTA TT- TT- TTCC TTA TTA
1 TTA T-TA T-TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA
1950267 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
1950280 ACCTACTTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
2 10 0.12
3 49 0.58
4 24 0.29
5 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1950265 original size:27 final size:25
Alignment explanation
Indices: 1950232--1950354 Score: 92
Period size: 27 Copynumber: 4.8 Consensus size: 25
1950222 TATATATATA
1950232 TTTTATTTTTATTTTTATTTATTTT
1 TTTTATTTTTATTTTTATTTATTTT
* * *
1950257 TTCCTTATTATTATTATTATTATACCTACTT
1 TT--TTATTTTTATTTTTATT-TA--T-TTT
1950288 TTTTA-TTTTA-TTTTATTTA-TTT
1 TTTTATTTTTATTTTTATTTATTTT
* * *
1950310 ATTTA-TTTTATTTCTATTTATTTA
1 TTTTATTTTTATTTTTATTTATTTT
* *
1950334 TTCTATTTTTATTGTTATTTA
1 TTTTATTTTTATTTTTATTTA
1950355 ATACTATATT
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
22 11 0.14
23 8 0.11
24 5 0.07
25 15 0.20
26 2 0.03
27 21 0.28
28 6 0.08
29 3 0.04
30 1 0.01
31 4 0.05
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (25 bp):
TTTTATTTTTATTTTTATTTATTTT
Found at i:1950265 original size:61 final size:62
Alignment explanation
Indices: 1950200--1950318 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 62
1950190 TTATTTATTA
1950200 TTATTATTATTA-TATTA-ACCTA-TATATATATATTTTATTTT-TATT-TTTATTTATTTTTTC
1 TTATTATTATTATTATTATACCTACT-T-T-TATATTTTATTTTAT-TTATTTATTTATTTTTTC
1950260 C
62 C
*
1950261 TTATTATTATTATTATTATACCTACTTTTTTATTTTATTTTATTTATTTATTTATTTT
1 TTATTATTATTATTATTATACCTACTTTTATATTTTATTTTATTTATTTATTTATTTT
1950319 ATTTCTATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
61 26 0.50
62 19 0.37
63 6 0.12
64 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (62 bp):
TTATTATTATTATTATTATACCTACTTTTATATTTTATTTTATTTATTTATTTATTTTTTCC
Found at i:1950298 original size:5 final size:5
Alignment explanation
Indices: 1950288--1950353 Score: 61
Period size: 5 Copynumber: 13.6 Consensus size: 5
1950278 ATACCTACTT
1950288 TTTTA TTTTA TTTTA -TTTA -TTTA -TTTA TTTTA TTTCTA -TTTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA
*
1950334 TTCTA TTTTTA TTGTTA TTT
1 TTTTA -TTTTA TT-TTA TTT
1950354 AATACTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
4 18 0.33
5 25 0.46
6 11 0.20
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:1950329 original size:19 final size:18
Alignment explanation
Indices: 1950289--1950342 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
1950279 TACCTACTTT
1950289 TTTATTTTATTTTA-TTTA
1 TTTA-TTTATTTTATTTTA
1950307 TTTATTTATTTTATTTCTA
1 TTTATTTATTTTATTT-TA
*
1950326 TTTATTTATTCTATTTT
1 TTTATTTATTTTATTTT
1950343 TATTGTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 9 0.27
18 7 0.21
19 17 0.52
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTATTTTATTTTA
Found at i:1950542 original size:2 final size:2
Alignment explanation
Indices: 1950537--1950561 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1950527 TAAATATTAC
1950537 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1950562 TTTTTCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1950680 original size:5 final size:5
Alignment explanation
Indices: 1950670--1950711 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
1950660 GCACTTGTTT
1950670 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1950712 ACATTACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:1952083 original size:35 final size:35
Alignment explanation
Indices: 1952044--1952154 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 35
1952034 ACTTTGAATA
1952044 TAAAAGGTAATTATATTCTTTTGAATATTTCAAAT
1 TAAAAGGTAATTATATTCTTTTGAATATTTCAAAT
** * * * *
1952079 TAAAATATATTTAT-TATCTTTTTTAA-GTTTGAATAT
1 TAAAAGGTAATTATAT-TC-TTTTGAATATTTCAA-AT
* * *
1952115 TGAAAGGTAACTATA-TCTTTTGAATATTTTAAAT
1 TAAAAGGTAATTATATTCTTTTGAATATTTCAAAT
1952149 TAAAAG
1 TAAAAG
1952155 ATATTTATTA
Statistics
Matches: 56, Mismatches: 15, Indels: 11
0.68 0.18 0.13
Matches are distributed among these distances:
34 14 0.25
35 25 0.45
36 17 0.30
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (35 bp):
TAAAAGGTAATTATATTCTTTTGAATATTTCAAAT
Found at i:1952110 original size:70 final size:70
Alignment explanation
Indices: 1952030--1952188 Score: 214
Period size: 70 Copynumber: 2.3 Consensus size: 70
1952020 TTATTATGAA
* *
1952030 TTTAACTTTGAATA-TAAAAGGTAATTATATTCTTTTGAATATTTCAAATTAAAATATATTTATT
1 TTTAACTTTGAATATTAAAAGGTAACTATA-TCTTTTGAATATTTCAAATTAAAAGATATTTATT
1952094 ATCTTT
65 ATCTTT
* * *
1952100 TTTAAGTTTGAATATTGAAAGGTAACTATATCTTTTGAATATTTTAAATTAAAAGATATTTATTA
1 TTTAACTTTGAATATTAAAAGGTAACTATATCTTTTGAATATTTCAAATTAAAAGATATTTATTA
**
1952165 TC-CA
66 TCTTT
* *
1952169 TCTAAATTTGAATATTAAAA
1 TTTAACTTTGAATATTAAAA
1952189 AAATCTATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
69 17 0.22
70 48 0.62
71 13 0.17
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.47
Consensus pattern (70 bp):
TTTAACTTTGAATATTAAAAGGTAACTATATCTTTTGAATATTTCAAATTAAAAGATATTTATTA
TCTTT
Found at i:1953468 original size:43 final size:41
Alignment explanation
Indices: 1953421--1953656 Score: 171
Period size: 44 Copynumber: 5.6 Consensus size: 41
1953411 TTGAAAGAAA
* *
1953421 TAGGGGCCTCAATTATAAATGTATAATTGAGATAAAAAAAACT
1 TAGGGGCCTCAATTATAAA-GTAAAAGTGAGATAAAAAAAA-T
* *
1953464 TAGGGGCCTCAA-T-T--AG--AAAGTGAGATTAAAAACAT
1 TAGGGGCCTCAATTATAAAGTAAAAGTGAGATAAAAAAAAT
* *
1953499 TAAGGGCCTCAATTATAAAGTTAAAAACGTGAGATTAAAAAAAT
1 TAGGGGCCTCAATTATAAAG-T-AAAA-GTGAGATAAAAAAAAT
* *
1953543 TAGGGGCCTCAATTATAAAGGTAGAAATTAAGATTGAAAAAAAAAT
1 TAGGGGCCTCAATTATAAA-GTA-AAAGTGAGA-T--AAAAAAAAT
*** * * *
1953589 TAAAAGCCTCAATTATAAAGTTAAAAAGCGAGAT-TACAAAAT
1 TAGGGGCCTCAATTATAAAG-T-AAAAGTGAGATAAAAAAAAT
*
1953631 TAGGGGCCTAAATTATAAAGGTAAAA
1 TAGGGGCCTCAATTATAAA-GTAAAA
1953657 AAGGATTGAA
Statistics
Matches: 154, Mismatches: 22, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
35 12 0.08
36 15 0.10
37 1 0.01
38 1 0.01
39 3 0.02
41 5 0.03
42 23 0.15
43 21 0.14
44 38 0.25
45 3 0.02
46 31 0.20
47 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (41 bp):
TAGGGGCCTCAATTATAAAGTAAAAGTGAGATAAAAAAAAT
Found at i:1953495 original size:36 final size:35
Alignment explanation
Indices: 1953448--1953519 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
1953438 AATGTATAAT
*
1953448 TGAGATAAAAAAAACTTAGGGGCCTCAATTAGAAAG
1 TGAGATAAAAAAAA-TTAAGGGCCTCAATTAGAAAG
* * *
1953484 TGAGATTAAAAACATTAAGGGCCTCAATTATAAAG
1 TGAGATAAAAAAAATTAAGGGCCTCAATTAGAAAG
1953519 T
1 T
1953520 TAAAAACGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (35 bp):
TGAGATAAAAAAAATTAAGGGCCTCAATTAGAAAG
Found at i:1953550 original size:44 final size:44
Alignment explanation
Indices: 1953480--1953741 Score: 218
Period size: 42 Copynumber: 6.1 Consensus size: 44
1953470 CCTCAATTAG
*
1953480 AAAGTGAGATT-AAAAACATTAAGG-GCCTCAATTATAAAGTTAA
1 AAAGTGAGATTGAAAAAAATT-AGGAGCCTCAATTATAAAGTTAA
* * *
1953523 AAACGTGAGATT-AAAAAAATTAGGGGCCTCAATTATAAAGGTAG
1 AAA-GTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGTTAA
* * **
1953567 AAATTAAGATTGAAAAAAAAATTAAAAGCCTCAATTATAAAGTTAA
1 AAAGTGAGATTG--AAAAAAATTAGGAGCCTCAATTATAAAGTTAA
* * * * *
1953613 AAAGCGAGATT--ACAAAATTAGGGGCCTAAATTATAAAGGTAA
1 AAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGTTAA
* * * * * *
1953655 AAA-AG-GATTGAAAAAAAATAGAAACTTCAATTATAAAGATAA
1 AAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGTTAA
* * **
1953697 AAAGTGAGATTGAATAATATTA-GAAACTCAATTATAAA-TTAA
1 AAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGTTAA
1953739 AAA
1 AAA
1953742 AATAATATTT
Statistics
Matches: 174, Mismatches: 36, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
40 4 0.02
41 1 0.01
42 60 0.34
43 26 0.15
44 48 0.28
46 35 0.20
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.24
Consensus pattern (44 bp):
AAAGTGAGATTGAAAAAAATTAGGAGCCTCAATTATAAAGTTAA
Found at i:1953742 original size:84 final size:84
Alignment explanation
Indices: 1953504--1953707 Score: 270
Period size: 84 Copynumber: 2.4 Consensus size: 84
1953494 AACATTAAGG
1953504 GCCTCAATTATAAAGTTAAAAACGTGAGATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAGAA
1 GCCTCAATTATAAAGTTAAAAA-GTGAGATT--AAAAATTAGGGGCCTCAATTATAAAGGTA-AA
1953569 ATTAAGATTGAAAAAAAAATTAAAA
62 A--AAGATTGAAAAAAAAATTAAAA
* *
1953594 GCCTCAATTATAAAGTTAAAAAGCGAGATTACAAAATTAGGGGCCTAAATTATAAAGGTAAAAAA
1 GCCTCAATTATAAAGTTAAAAAGTGAGATTA-AAAATTAGGGGCCTCAATTATAAAGGTAAAAAA
1953659 GGATTG-AAAAAAAA-TAGAAA
65 -GATTGAAAAAAAAATTA-AAA
* *
1953679 -CTTCAATTATAAAGATAAAAAGTGAGATT
1 GCCTCAATTATAAAGTTAAAAAGTGAGATT
1953708 GAATAATATT
Statistics
Matches: 106, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
84 28 0.26
85 13 0.12
86 5 0.05
87 4 0.04
88 27 0.25
89 7 0.07
90 22 0.21
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (84 bp):
GCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAAG
ATTGAAAAAAAAATTAAAA
Found at i:1959865 original size:85 final size:85
Alignment explanation
Indices: 1959704--1959869 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
1959694 ATACAATCAC
* * * * *
1959704 GACACACGAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAATGACACGCAATGTAAGTCATA
1 GACACACAAATGTGTGTAATCTTATTTAATGACGGGTGCTTCAATGACACGCAATGTAAGTCATA
* *
1959769 CATGCATGTCATAAATTTAT
66 AATGCACGTCATAAATTTAT
* * * *
1959789 GACACACAAATGTGTGTAATCTTAATTT-ATGACGGGTTCTTCAATGACGCTCAATG-AACGTTA
1 GACACACAAATGTGTGTAATCTT-ATTTAATGACGGGTGCTTCAATGACACGCAATGTAA-GTCA
*
1959852 TAAATGCGCGTCATAAAT
64 TAAATGCACGTCATAAAT
1959870 GTGTGTCATA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 62 0.93
86 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (85 bp):
GACACACAAATGTGTGTAATCTTATTTAATGACGGGTGCTTCAATGACACGCAATGTAAGTCATA
AATGCACGTCATAAATTTAT
Found at i:1959867 original size:13 final size:13
Alignment explanation
Indices: 1959851--1959908 Score: 89
Period size: 13 Copynumber: 4.5 Consensus size: 13
1959841 AATGAACGTT
*
1959851 ATAAATGCGCGTC
1 ATAAATGTGCGTC
*
1959864 ATAAATGTGTGTC
1 ATAAATGTGCGTC
*
1959877 ATAAATGTGTGTC
1 ATAAATGTGCGTC
1959890 ATAAATGTGCGTC
1 ATAAATGTGCGTC
1959903 ATAAAT
1 ATAAAT
1959909 TTATGACGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (13 bp):
ATAAATGTGCGTC
Found at i:1963807 original size:21 final size:21
Alignment explanation
Indices: 1963781--1963822 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1963771 AGCTCGAGTT
1963781 GAACAAATTGAAAAAATCCAA
1 GAACAAATTGAAAAAATCCAA
* * *
1963802 GAACAACTTGTAGAAATCCAA
1 GAACAAATTGAAAAAATCCAA
1963823 AGAGAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.17, G:0.12, T:0.17
Consensus pattern (21 bp):
GAACAAATTGAAAAAATCCAA
Found at i:1967695 original size:23 final size:23
Alignment explanation
Indices: 1967669--1967712 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1967659 TTTTGCAAGG
1967669 ATGATAGATCCTCTTTTCAAAAA
1 ATGATAGATCCTCTTTTCAAAAA
*
1967692 ATGATAGATTCTCTTTTCAAA
1 ATGATAGATCCTCTTTTCAAA
1967713 GACATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (23 bp):
ATGATAGATCCTCTTTTCAAAAA
Found at i:1972158 original size:54 final size:54
Alignment explanation
Indices: 1971992--1972262 Score: 370
Period size: 54 Copynumber: 5.1 Consensus size: 54
1971982 CTTAATAGTT
* * * * * *
1971992 CAAA-TCATTATAAATTCCGTGGTTTTGCACACATAATGCCAATACGGTAATTCA
1 CAAACTCATTATGAATTACGTGG-GTTGCACACATAGTGTCGATACGGTAATTCA
* * *
1972046 CAAACTCATTATGAATTACATGGG-TGTACACATAGTGTCGATACTGTAATTCA
1 CAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATTCA
* * * *
1972099 CAAACTCATTATAAATTACGTGGGTTGCACGCATAGTGTCGATTCGATAATTCA
1 CAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATTCA
1972153 CAAACTCATTATGAATTACGTGGGTTGCACACATAGTGCTC-ATACGGTAATTCA
1 CAAACTCATTATGAATTACGTGGGTTGCACACATAGTG-TCGATACGGTAATTCA
*
1972207 CAAACTCATTATGAATTACGAGGGTTGCACACATAGTGTCGATACGGTAATT-A
1 CAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATTCA
1972260 CAA
1 CAA
1972263 CATATACATT
Statistics
Matches: 192, Mismatches: 21, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
53 52 0.27
54 123 0.64
55 17 0.09
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (54 bp):
CAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATTCA
Found at i:1975777 original size:15 final size:15
Alignment explanation
Indices: 1975743--1975771 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1975733 GAAAAATAAT
1975743 TAAAAACGCAAAAAG
1 TAAAAACGCAAAAAG
1975758 TAAAAACGCAAAAA
1 TAAAAACGCAAAAA
1975772 AGAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.14, G:0.10, T:0.07
Consensus pattern (15 bp):
TAAAAACGCAAAAAG
Found at i:1987680 original size:21 final size:21
Alignment explanation
Indices: 1987651--1987702 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
1987641 CATTAGGTTT
1987651 ATTTGTTCAATT-TTCTCTTTCC
1 ATTT-TTCAATTGTTCTCTTT-C
*
1987673 ATTTTTCAGTTGTTCTCTTTC
1 ATTTTTCAATTGTTCTCTTTC
*
1987694 ATGTTTCAA
1 ATTTTTCAA
1987703 GACACATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (21 bp):
ATTTTTCAATTGTTCTCTTTC
Found at i:1988792 original size:189 final size:192
Alignment explanation
Indices: 1988472--1988854 Score: 736
Period size: 189 Copynumber: 2.0 Consensus size: 192
1988462 CTGAATTCTG
1988472 CAGGAACCTCTAGTGTGAACTCAGGGTCCGTTAATGATGCTGTAACAAGTAGTGTCAAGCCGGAG
1 CAGGAACCTCTAGTGTGAACTCAGGGTCCGTTAATGATGCTGTAACAAGTAGTGTCAAGCCGGAG
1988537 TCCACCATCGATGCTGTGACCCCAGTGTCAAGCCAGAATTATCTGAAGGAAGAGGCAGTAAGAAC
66 TCCACCATCGATGCTGTGACCCCAGTGTCAAGCCAGAATTATCTGAAGGAAGAGGCAGTAAGAAC
1988602 CAGGGTTTCAAATCGCGGTCGCAGT-CG-TTTCGGTTATTTCGGATTT-CCGTGATTGCGGC
131 CAGGGTTTCAAATCGCGGTCGCAGTCCGTTTTCGGTTATTTCGGATTTACCGTGATTGCGGC
1988661 CAGGAACCTCTAGTGTGAACTCAGGGTCCGTTAATGATGCTGTAACAAGTAGTGTCAAGCCGGAG
1 CAGGAACCTCTAGTGTGAACTCAGGGTCCGTTAATGATGCTGTAACAAGTAGTGTCAAGCCGGAG
1988726 TCCACCATCGATGCTGTGACCCCAGTGTCAAGCCAGAATTATCTGAAGGAAGAGGCAGTAAGAAC
66 TCCACCATCGATGCTGTGACCCCAGTGTCAAGCCAGAATTATCTGAAGGAAGAGGCAGTAAGAAC
1988791 CAGGGTTTCAAATCGCGGTCGCAGTCGCGTTTTCGGTTATTTCGGATTTACCGTGATTGCGGC
131 CAGGGTTTCAAATCGCGGTCGCAGTC-CGTTTTCGGTTATTTCGGATTTACCGTGATTGCGGC
1988854 C
1 C
1988855 GTCGCGGACG
Statistics
Matches: 190, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
189 155 0.82
191 2 0.01
192 19 0.10
193 14 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (192 bp):
CAGGAACCTCTAGTGTGAACTCAGGGTCCGTTAATGATGCTGTAACAAGTAGTGTCAAGCCGGAG
TCCACCATCGATGCTGTGACCCCAGTGTCAAGCCAGAATTATCTGAAGGAAGAGGCAGTAAGAAC
CAGGGTTTCAAATCGCGGTCGCAGTCCGTTTTCGGTTATTTCGGATTTACCGTGATTGCGGC
Found at i:1996570 original size:19 final size:18
Alignment explanation
Indices: 1996533--1996575 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1996523 TATTTTATTG
1996533 ATTTAATTAATTTTAAAT
1 ATTTAATTAATTTTAAAT
*
1996551 AATTTAATTGATATTT-AAT
1 -ATTTAATTAAT-TTTAAAT
1996570 ATTTAA
1 ATTTAA
1996576 AAATCTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 13 0.59
20 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATTTAATTAATTTTAAAT
Found at i:1997413 original size:2 final size:2
Alignment explanation
Indices: 1997406--1997435 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1997396 GGTTTTACTG
1997406 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1997436 GACAATTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2002472 original size:183 final size:183
Alignment explanation
Indices: 2002045--2002639 Score: 874
Period size: 183 Copynumber: 3.3 Consensus size: 183
2002035 ATACAAATAA
* ** * * ** * *
2002045 AAAATATATCGATCCATAGTAATATAACAGGTAAAAATATGACAAAATCGGTTTCATTATAATAA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
* * ** ** *
2002110 ATCTGG-TAAAGCGCTACCAGATATGTTGAAAGTATCGATTAGATTAAAATAAGTATCGACACTT
66 AACTGGTTAAATCGCTACTGGATATGTTGAAAGTATCGA-TACTTTAATATAAGTATCGACACTT
* * * **
2002174 TTGAAATTTAAAAGAAAAGAAATAATAGTACCTATAAAGTGTCGATACTTTAAT
130 TTAAAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAAT
2002228 AAAATGTATCGATCCATAACAATAT-ACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
*
2002292 AACTGGTTAAATCGCTACTGGATATGTTGAAAGTGTCGATACTTTAATATAAGCT-TCGACACTT
66 AACTGGTTAAATCGCTACTGGATATGTTGAAAGTATCGATACTTTAATATAAG-TATCGACACTT
*
2002356 TTAAAATTTAAAAGAGAAGAAGTAATAGCGTCTATAAAGTGTCGATACTTTAAT
130 TTAAAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAAT
2002410 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
* **
2002475 AATTGGTTAAATCGCTACTGGATATGTTGAAAGTATCGATACTTTAATATAAGTATTAACACTTT
66 AACTGGTTAAATCGCTACTGGATATGTTGAAAGTATCGATACTTTAATATAAGTATCGACACTTT
* *
2002540 TAGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTTGATACTTT-AT
131 TAAAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAAT
*
2002592 AAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAA
1 -AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAA
2002640 CCAGTAAAGC
Statistics
Matches: 376, Mismatches: 31, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
182 134 0.36
183 242 0.64
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (183 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCAAAATGACAA
AACTGGTTAAATCGCTACTGGATATGTTGAAAGTATCGATACTTTAATATAAGTATCGACACTTT
TAAAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAAT
Found at i:2002673 original size:161 final size:161
Alignment explanation
Indices: 2002494--2002799 Score: 499
Period size: 162 Copynumber: 1.9 Consensus size: 161
2002484 AATCGCTACT
* * * *
2002494 GGATATGTTGAAAGTATCGA-TA-CTTTAATATAAGTATTAACACTTTTAGAATTTAAAAGAGAA
1 GGATATGTTGAAAGTATCGATTAGATTGAA-ATAAGTATCAACACTTTTAGAACTTAAAAGAGAA
* * *
2002557 GAAGTAATAGCGCCTATAAAGTGTTGATACTTTATAAAAATGTATCGATCCATAATAATATAACA
65 GAAGTAATAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCGA-CCATAACAATATAACA
2002622 GGTAAAAATATGACAAAACCAGTAAAGCGTACC
129 GGTAAAAATATGACAAAACCAGTAAAGCGTACC
* *
2002655 GGATATGTTGAAAGTATCGATTAGATTGAAATAAGTATCGACACTTTTGGAACTTAAAAGAGAAG
1 GGATATGTTGAAAGTATCGATTAGATTGAAATAAGTATCAACACTTTTAGAACTTAAAAGAGAAG
2002720 AAGTAATAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCGACCATAACAATATAACAGG
66 AAGTAATAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCGACCATAACAATATAACAGG
2002785 TAAAAATATGACAAA
131 TAAAAATATGACAAA
2002800 CTCGGTCTCC
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
161 52 0.39
162 78 0.58
163 4 0.03
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (161 bp):
GGATATGTTGAAAGTATCGATTAGATTGAAATAAGTATCAACACTTTTAGAACTTAAAAGAGAAG
AAGTAATAGCACCTATAAAGTGTCGATACTTTATAAAAATGTATCGACCATAACAATATAACAGG
TAAAAATATGACAAAACCAGTAAAGCGTACC
Found at i:2005546 original size:16 final size:17
Alignment explanation
Indices: 2005511--2005550 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
2005501 TATGTAGAGG
*
2005511 AAAAATATGATGAATTGA
1 AAAAATATGAAGAA-TGA
2005529 AAAAATATGAAGAA-GA
1 AAAAATATGAAGAATGA
2005545 AAAAAT
1 AAAAAT
2005551 GGAGGAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
18 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (17 bp):
AAAAATATGAAGAATGA
Found at i:2007431 original size:39 final size:39
Alignment explanation
Indices: 2007377--2007462 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
2007367 ACAAAGATTT
2007377 GTTTCCAACATTTTGTCCAGTATGGTTCCCAAACATAAA
1 GTTTCCAACATTTTGTCCAGTATGGTTCCCAAACATAAA
*
2007416 GTTTCCAACATTTTGTTCAGTATGGTTCCCAAACATAAA
1 GTTTCCAACATTTTGTCCAGTATGGTTCCCAAACATAAA
2007455 GTTTCCAA
1 GTTTCCAA
2007463 AAAAGTGTCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (39 bp):
GTTTCCAACATTTTGTCCAGTATGGTTCCCAAACATAAA
Found at i:2008032 original size:200 final size:199
Alignment explanation
Indices: 2007590--2008740 Score: 1522
Period size: 200 Copynumber: 5.7 Consensus size: 199
2007580 TACATTTTCT
* * * * *
2007590 AAAAGTATCAACCCCAAAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTA
1 AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
* ** *
2007655 ACAGATATAAATATACATGTTTAATTAGAAACGCGGTCAACATAATGTATCGACACAAAACATGT
66 ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCG--AC---AC-TGT
* * * * * *
2007720 GGAATTTGTGTCGATACATTTTGTCCAGAATGAATGCCCAAACGAGGTGCACACATAAAGTGACG
125 GAAATTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCG
* * *
2007785 ATAAATATAT
190 ATACATTTAA
* * *
2007795 AAAAGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATAGGTAAATTTTCAATATA
1 AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
*
2007860 ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACATGTGGAAT
66 ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACAC-TGTGAAAT
* * * *
2007925 TCGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAATGAGGT-CACGCATAAAGTGTCGATACA
130 TTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATACA
2007989 TTTATA
195 TTTA-A
* * *
2007995 AAAAGTATCGATCCCAGAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTAAAAATGTA
1 AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
** *
2008060 ACC-AGTATAAATATACCAATTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTTTGTAAA
66 ACCGA-TATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTGTG-AAA
* *
2008124 TTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAATGAGGTGTACGCATAAAGTGTCGATAT
129 TTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATAC
2008189 ATTTAA
194 ATTTAA
** * * * * *
2008195 AATTGTTTCAATCCCAAAAACATCGAAACCCATCATTATAATGTAATAGATAAATTTACAATGTA
1 AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
* * * *
2008260 ACCGGTATAAATATACCAGTTTAATTAGAAAAGCGATCAACATAATGTATCGACACTTTGTAAAT
66 ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTGTG-AAAT
*
2008325 TTGTGTCGATA-TGTTTTGTCCATAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATAC
130 TTGTGTCGATACT-TTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATAC
2008389 ATTTAA
194 ATTTAA
** * * *
2008395 AATTGTATCGATCCCAAAAACATCGAAACCTATAATTATAAAGTAATAGGTAAATTTTCAATGTA
1 AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
* * * *
2008460 ATCGGTATAAATATACCGGTTTAATTAGAAAA-CGTTCAACATAATGTATCAACACT-TCGTAAA
66 ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTGT-G-AAA
* *
2008523 TTTGTGTCGATACTTTTTATCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCAATAC
129 TTTGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATAC
2008588 ATTTAA
194 ATTTAA
* * * * *
2008594 AATTA-TATCGATCCCAAAAATATCAAAACCTATAATTATAATGTAATAGGTAAATTTCCAATGT
1 AA-AAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT
* * * *
2008658 AACCGCTATAAATATACAGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTTTTTAAA
65 AACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACAC-TGTGAAA
2008723 TTTGTGTCGATACTTTTT
129 TTTGTGTCGATACTTTTT
2008741 TAAATTTCGC
Statistics
Matches: 859, Mismatches: 75, Indels: 29
0.89 0.08 0.03
Matches are distributed among these distances:
198 1 0.00
199 206 0.24
200 520 0.61
201 24 0.03
202 1 0.00
203 2 0.00
205 105 0.12
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (199 bp):
AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTA
ACCGATATAAATATACCGGTTTAATTAGAAAAGCGGTCAACATAATGTATCGACACTGTGAAATT
TGTGTCGATACTTTTTGTCCAGAATCAATGCCCAAACGAGGTGTACGCATAAAGTGTCGATACAT
TTAA
Found at i:2010234 original size:18 final size:18
Alignment explanation
Indices: 2010211--2010245 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2010201 CCAAGCGCTC
2010211 AATGAAGATGACGATGAA
1 AATGAAGATGACGATGAA
*
2010229 AATGAAGATGATGATGA
1 AATGAAGATGACGATGA
2010246 TGATCCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.29, T:0.20
Consensus pattern (18 bp):
AATGAAGATGACGATGAA
Found at i:2013105 original size:15 final size:15
Alignment explanation
Indices: 2013085--2013114 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2013075 ATATATCGAC
2013085 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
2013100 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
2013115 CAAAGTGTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (15 bp):
ACATAAAGTTTCCAA
Found at i:2013598 original size:199 final size:199
Alignment explanation
Indices: 2013225--2014366 Score: 1558
Period size: 199 Copynumber: 5.8 Consensus size: 199
2013215 GTAAACAAAT
* * * ** *
2013225 GTGTCGATACATTT-AAATTATATCAATCTCAAAAACATTAAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
* * * *
2013289 GTAAATTTACAATGTAACCGGTAGATATATACC-GATTTTATGAGAAAATAGATCTACATAATGT
66 GTAAATTAACAATGTAACCGATAGAAATATACCAG-TTTTATGAGAAAATAGGTCTACATAATGT
** * * ** * * *
2013353 ATCGATGCTTTATAAATTTGTGTCGATATTTTTTGTTAACAATGAATGCCCAACGAGGTGCACGC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGC
2013418 ATAAA
195 ATAAA
* * *
2013423 GTGTCGATACATTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATATAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
* * * * * *
2013488 ATAACTTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACATAATGTA
66 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
* * * * * * *
2013553 TCGACACTTTTTAATTTTGTGTTGATACTTTTTGTACAGAATGAATGACAAACTAGATGCACGCA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
2013618 TAAA
196 TAAA
* *
2013622 GTGTCGATACATTTAAAATTGTATCGATCCGAAAAACATCGAAACCAATAATTACAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
* * *
2013687 GTAAATTAACAATGTAACCGATAGAAATATACCATTTTTATGAGAAAATAGGTCAACATATTGTA
66 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
* * * *
2013752 TCGATACTTGTTAAA-TTGTGTCGATACCTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACACA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
2013816 TAAA
196 TAAA
* * *
2013820 GTGTCAATTCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTACAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
* * * * * *
2013885 GTAAATTAACAATGTAACTGGTAGAAATATTCCGGTTTTATGAGAAAATATGTCTACATAATGTT
66 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
* *
2013950 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAAAGCCAAACGAGGTGCACACA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
2014015 TAAA
196 TAAA
*
2014019 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATCATTACAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
*
2014084 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAAGTCTACATAATGTA
66 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
*
2014149 TCGACACTTTTTAAATTTGTATCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
2014214 TAAA
196 TAAA
* * * *
2014218 GTGTCGATACATTTATTAAATT-TATCGATCCCAAAGATATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAAT
* * * * * * * * *
2014282 AAGTAAATTTACAATGTAACCGATAG--ATACATCGGTATAATTAGAAAATAGGTCAACATAATG
64 AGGTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATG
* *
2014345 TATCAACACTATTTAAATTTGT
129 TATCGACACTTTTTAAATTTGT
2014367 ATCAATATTT
Statistics
Matches: 840, Mismatches: 99, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
198 237 0.28
199 536 0.64
200 62 0.07
201 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (199 bp):
GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAG
GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
TAAA
Found at i:2013958 original size:397 final size:395
Alignment explanation
Indices: 2013225--2014366 Score: 1583
Period size: 397 Copynumber: 2.9 Consensus size: 395
2013215 GTAAACAAAT
* * ** *
2013225 GTGTCGATACATTT-AAATTATATCAATCTCAAAAACATTAAAACCGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATC-CAAAAACATCGAAACCGATAATTACAATGTAATAG
* * * *
2013289 GTAAATTTACAATGTAACCGGTAGATATATACCGATTTTATGAGAAAATAGATCTACATAATGTA
65 GTAAATTAACAATGTAACCGATAGAAATATACC-ATTTTATGAGAAAATAGGTCTACATAATGTA
* * ** * * *
2013354 TCGATGCTTTATAAATTTGTGTCGATATTTTTTGTTAACAATGAATGCCCAACGAGGTGCACGCA
129 TCGATACTTT-TAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
* *
2013419 TAAAGTGTCGATACATTTAAAATTGTATCGATTCCAAAAACATCGAAACCGATAATTATAATATA
193 TAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* *
2013484 ATAGATAACTTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACATAA
258 ATAGGTAAATTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACATAA
* * * * *
2013549 TGTATCGACACTTTTTAATTTTGTGTTGATACTTTTTGTACAGAATGAATGACAAACTAGATGCA
323 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTACAAAATGAAAGACAAACGAGATGCA
*
2013614 CGCATAAA
388 CACATAAA
*
2013622 GTGTCGATACATTTAAAATTGTATCGATCCGAAAAACATCGAAACCAATAATTACAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCC-AAAAACATCGAAACCGATAATTACAATGTAATAG
* *
2013687 GTAAATTAACAATGTAACCGATAGAAATATACCATTTTTATGAGAAAATAGGTCAACATATTGTA
65 GTAAATTAACAATGTAACCGATAGAAATATACCA-TTTTATGAGAAAATAGGTCTACATAATGTA
* *
2013752 TCGATACTTGTTAAA-TTGTGTCGATACCTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACACA
129 TCGATACTT-TTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
* * * *
2013816 TAAAGTGTCAATTCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTACAATGTA
193 TAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTA
* * ** * *
2013881 ATAGGTAAATTAACAATGTAACTGGTAGAAATATTCCGGTTTTATGAGAAAATATGTCTACATAA
258 ATAGGTAAATTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACATAA
* * * *
2013946 TGTTTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAAAGCCAAACGAGGTGCA
323 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTACAAAATGAAAGACAAACGAGATGCA
2014011 CACATAAA
388 CACATAAA
*
2014019 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATCATTACAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGAT-CCAAAAACATCGAAACCGATAATTACAATGTAATAG
*
2014084 GTAAATTAACAATGTAACCGATAGAAATATACCAGTTTTATGAGAAAATAAGTCTACATAATGTA
65 GTAAATTAACAATGTAACCGATAGAAATATACCA-TTTTATGAGAAAATAGGTCTACATAATGTA
* *
2014149 TCGACACTTTTTAAATTTGTATCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
129 TCGATAC-TTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCA
* * *
2014214 TAAAGTGTCGATACATTTATTAAATT-TATCGATCCCAAAGATATCGAAACCCATAATTATAATG
193 TAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * * * * * * *
2014278 TAATAAGTAAATTTACAATGTAACCGATAG--ATACATCGGTATAATTAGAAAATAGGTCAACAT
256 TAATAGGTAAATTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACAT
* *
2014341 AATGTATCAACACTATTTAAATTTGT
321 AATGTATCGACACTTTTTAAATTTGT
2014367 ATCAATATTT
Statistics
Matches: 659, Mismatches: 77, Indels: 18
0.87 0.10 0.02
Matches are distributed among these distances:
397 416 0.63
398 178 0.27
399 60 0.09
400 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (395 bp):
GTGTCGATACATTTAAAATTGTATCGATCCAAAAACATCGAAACCGATAATTACAATGTAATAGG
TAAATTAACAATGTAACCGATAGAAATATACCATTTTATGAGAAAATAGGTCTACATAATGTATC
GATACTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCATAA
AGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTAGAAATACACCAGTTTTATGAGAAAATACGTCTACATAATGT
ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTACAAAATGAAAGACAAACGAGATGCACAC
ATAAA
Found at i:2015210 original size:19 final size:19
Alignment explanation
Indices: 2015186--2015233 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
2015176 CTCGTAATGA
2015186 AATTTTGTATATGATTCAT
1 AATTTTGTATATGATTCAT
* *
2015205 AATTTTGTTTATGATTTAT
1 AATTTTGTATATGATTCAT
2015224 AATTTTGTAT
1 AATTTTGTAT
2015234 GTGAATGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
AATTTTGTATATGATTCAT
Found at i:2018501 original size:87 final size:87
Alignment explanation
Indices: 2018396--2018558 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
2018386 AAATAGGTCA
*
2018396 ATATAAACGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTATTTGATAATATTT
1 ATATAAACGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
2018461 TCGGTTAAATGCCTATTTTATT
66 TCGGTTAAATGCCTATTTTATT
* * *
2018483 ATATAAGCGCTACCTATTACATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
2018548 TCGGTTAAATG
66 TCGGTTAAATG
2018559 ATATAACATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAACGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
TCGGTTAAATGCCTATTTTATT
Found at i:2018530 original size:23 final size:23
Alignment explanation
Indices: 2018480--2018524 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2018470 TGCCTATTTT
*
2018480 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
2018503 ATTATATAAGTGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2018525 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2018900 original size:38 final size:38
Alignment explanation
Indices: 2018849--2018933 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
2018839 ATATCACCAA
2018849 AAATTAATGGTTCTATTAGTCAAGATGGTTGAAAGAAG
1 AAATTAATGGTTCTATTAGTCAAGATGGTTGAAAGAAG
* *
2018887 AAATTGATGGTTCTATTAGTCAATATGGTTGAAAGAAG
1 AAATTAATGGTTCTATTAGTCAAGATGGTTGAAAGAAG
2018925 AAATTAATG
1 AAATTAATG
2018934 CAATTAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (38 bp):
AAATTAATGGTTCTATTAGTCAAGATGGTTGAAAGAAG
Found at i:2021063 original size:19 final size:19
Alignment explanation
Indices: 2020931--2021082 Score: 65
Period size: 19 Copynumber: 7.7 Consensus size: 19
2020921 ATGACCAACA
** **
2020931 AAATCGCAACGCGAAATAA
1 AAATCGCAACGCGATTTCC
**
2020950 AAATCGCAACGCGATCCCC
1 AAATCGCAACGCGATTTCC
** *
2020969 AGAATCGCAAATC-AGTTCC
1 A-AATCGCAACGCGATTTCC
**
2020988 AAAATCGCAACGCGATTCTTGA
1 -AAATCGCAACGCGA-T-TTCC
* * *
2021010 AAATCGCAATGCGATAGTAC
1 AAATCGCAACGCGAT-TTCC
**
2021030 AAATTCGCATTGCGATTTCC
1 AAA-TCGCAACGCGATTTCC
* *
2021050 AAATCGCAACGCGAATAT-G
1 AAATCGCAACGCG-ATTTCC
2021069 AAATCGCAACGCGA
1 AAATCGCAACGCGA
2021083 ACACATAAAT
Statistics
Matches: 99, Mismatches: 27, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
18 1 0.01
19 48 0.48
20 24 0.24
21 24 0.24
22 2 0.02
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (19 bp):
AAATCGCAACGCGATTTCC
Found at i:2021094 original size:20 final size:19
Alignment explanation
Indices: 2021050--2021100 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
2021040 TGCGATTTCC
*
2021050 AAATCGCAACGCGAATATG
1 AAATCGCAACGCGAACATG
2021069 AAATCGCAACGCGAACACAT-
1 AAATCGCAACGCG-A-ACATG
2021089 AAATCGCAACGC
1 AAATCGCAACGC
2021101 ATATCCGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 13 0.45
21 3 0.10
ACGTcount: A:0.43, C:0.27, G:0.18, T:0.12
Consensus pattern (19 bp):
AAATCGCAACGCGAACATG
Found at i:2021179 original size:37 final size:37
Alignment explanation
Indices: 2021051--2021193 Score: 125
Period size: 37 Copynumber: 3.8 Consensus size: 37
2021041 GCGATTTCCA
* *
2021051 AATCGCAACGCGAATAT-G-AAATCGCAACGCGAACACAT
1 AATCGCAACGCG--TATCGTAAATCGCAACG-TAATACAT
* * * *
2021089 AAATCGCAACGCATATCCGTAAATCGCAACGTGTATCCGT
1 -AATCGCAACGCGTAT-CGTAAATCGCAACGT-AATACAT
2021129 ATATCGCAA--CGTATCGTAAATCGC-ACGATAATACAT
1 A-ATCGCAACGCGTATCGTAAATCGCAACG-TAATACAT
2021165 AATCGCAACGCGTATCGTAAATCGCAACG
1 AATCGCAACGCGTATCGTAAATCGCAACG
2021194 CGATATTTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 19
0.75 0.09 0.17
Matches are distributed among these distances:
35 7 0.08
36 8 0.09
37 29 0.34
38 7 0.08
39 13 0.15
40 21 0.25
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (37 bp):
AATCGCAACGCGTATCGTAAATCGCAACGTAATACAT
Found at i:2021204 original size:19 final size:19
Alignment explanation
Indices: 2021050--2021195 Score: 108
Period size: 20 Copynumber: 7.7 Consensus size: 19
2021040 TGCGATTTCC
2021050 AAATCGCAACGCGAATAT-G-
1 AAATCGCAACGCG--TATCGT
* * *
2021069 AAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTA-TCGT
*
2021089 AAATCGCAACGCATATCCGT
1 AAATCGCAACGCGTAT-CGT
*
2021109 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAT-CGT
*
2021129 ATATCGCAA--CGTATCGT
1 AAATCGCAACGCGTATCGT
* *
2021146 AAATCGC-ACG-ATAATACAT
1 AAATCGCAACGCGT-AT-CGT
2021165 -AATCGCAACGCGTATCGT
1 AAATCGCAACGCGTATCGT
2021183 AAATCGCAACGCG
1 AAATCGCAACGCG
2021196 ATATTTAAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
16 1 0.01
17 11 0.11
18 14 0.14
19 32 0.32
20 42 0.42
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGCGTATCGT
Found at i:2021607 original size:32 final size:31
Alignment explanation
Indices: 2021565--2021632 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
2021555 TTCACTTAGA
*
2021565 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCG-TACGATTCT-CCGTTGCGAT
* *
2021598 TTTCA-TTCGCGTGCTATTCTCCGTTGCGAT
1 TTTCATTTCGCGTACGATTCTCCGTTGCGAT
2021628 TTTCA
1 TTTCA
2021633 AGTTAGTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 14 0.44
31 7 0.22
32 6 0.19
33 5 0.16
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (31 bp):
TTTCATTTCGCGTACGATTCTCCGTTGCGAT
Found at i:2021738 original size:21 final size:20
Alignment explanation
Indices: 2021712--2021815 Score: 96
Period size: 21 Copynumber: 5.5 Consensus size: 20
2021702 TGCAGAAGAG
2021712 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
2021733 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
2021753 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
2021774 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
2021788 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
2021807 TCGCAACGA
1 TCGCAACGA
2021816 AAGAATCGCA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 10 0.15
20 16 0.24
21 26 0.39
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:2021756 original size:20 final size:20
Alignment explanation
Indices: 2021712--2021788 Score: 100
Period size: 21 Copynumber: 3.8 Consensus size: 20
2021702 TGCAGAAGAG
*
2021712 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
2021733 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
2021753 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
2021774 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
2021789 CGCAACGCGA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 20 0.42
21 28 0.58
ACGTcount: A:0.45, C:0.17, G:0.25, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:2021769 original size:41 final size:41
Alignment explanation
Indices: 2021711--2021788 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
2021701 TTGCAGAAGA
*
2021711 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
2021752 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
2021789 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:2021791 original size:14 final size:14
Alignment explanation
Indices: 2021772--2021828 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2021762 GAGAAATGAA
2021772 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2021786 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2021805 AATCGCAACGAAAG
1 AATCGCAACGAGAG
2021819 AATCGCAACG
1 AATCGCAACG
2021829 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2021804 original size:33 final size:33
Alignment explanation
Indices: 2021764--2021844 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
2021754 CGCAACGAGA
*
2021764 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
2021797 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
**
2021830 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
2021845 TTGCGATTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAAAGAATCGCAACGC
Found at i:2023763 original size:39 final size:39
Alignment explanation
Indices: 2023672--2023793 Score: 156
Period size: 39 Copynumber: 3.1 Consensus size: 39
2023662 TTTTCCACAT
* **
2023672 GAAACCACCAATATTCAGCCCACAAGTCCTGGCACCACC
1 GAAACCACCAACATTCAGCCCACAAGTCCTGAAACCACC
* * * * *
2023711 AAAAGCACAAACATTTAGCCCACAAGTCCTGAAACCATC
1 GAAACCACCAACATTCAGCCCACAAGTCCTGAAACCACC
2023750 GAAACCACCAACATTCAGCCCACAAGTCCT-AATACCACC
1 GAAACCACCAACATTCAGCCCACAAGTCCTGAA-ACCACC
2023789 GAAAC
1 GAAAC
2023794 ACAAAATCTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
38 2 0.03
39 67 0.97
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.13
Consensus pattern (39 bp):
GAAACCACCAACATTCAGCCCACAAGTCCTGAAACCACC
Found at i:2025259 original size:19 final size:19
Alignment explanation
Indices: 2025235--2025272 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2025225 CATATTCTAG
2025235 CTGGGCTAGAAAGTTAACA
1 CTGGGCTAGAAAGTTAACA
2025254 CTGGGCTAGAAAGTTAACA
1 CTGGGCTAGAAAGTTAACA
2025273 GACAAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
CTGGGCTAGAAAGTTAACA
Found at i:2029046 original size:3 final size:3
Alignment explanation
Indices: 2029038--2029072 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2029028 TATTTATTTT
2029038 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2029073 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2029531 original size:113 final size:113
Alignment explanation
Indices: 2029414--2029806 Score: 666
Period size: 113 Copynumber: 3.5 Consensus size: 113
2029404 TCGAACAAGC
* *
2029414 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
2029479 AAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAAGTTGAACAAAT
66 AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAT
2029527 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
2029592 AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAT
66 AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAT
2029640 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* ** * * *
2029705 AAAAGCTGATCCATCAAGTGATGTATTTGAGCAAAAGGTTGAACAAGT
66 AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAT
*
2029753 TCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACT
1 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
2029807 CGACCTGGAA
Statistics
Matches: 269, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
110 38 0.14
113 231 0.86
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACAAAT
Found at i:2030816 original size:114 final size:114
Alignment explanation
Indices: 2030611--2030830 Score: 386
Period size: 114 Copynumber: 1.9 Consensus size: 114
2030601 CATGCAGTAT
* * *
2030611 ATCTTTCAATTCTAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
* *
2030676 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAATTC
66 CTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAATTC
*
2030725 ATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
2030790 CTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
66 CTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGA
2030831 TAACGTGGCA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 100 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (114 bp):
ATCTTTCAAATCTAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAATTC
Found at i:2031186 original size:19 final size:17
Alignment explanation
Indices: 2031158--2031206 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
2031148 CAAAATAAAG
*
2031158 AATAAGTTGAATTTTCAAA
1 AATAAATTGAATTTTC--A
*
2031177 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
2031193 AATAAATTGAATTT
1 AATAAATTGAATTT
2031207 AGAGAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 1 0.04
18 3 0.12
19 10 0.38
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:2031574 original size:10 final size:10
Alignment explanation
Indices: 2031559--2031583 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2031549 TTGACCCCCT
2031559 TTTTTTTTTC
1 TTTTTTTTTC
2031569 TTTTTTTTTC
1 TTTTTTTTTC
2031579 TTTTT
1 TTTTT
2031584 CTTCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:2031592 original size:17 final size:16
Alignment explanation
Indices: 2031558--2031605 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
2031548 CTTGACCCCC
**
2031558 TTTTT-TTTTTCTTTT
1 TTTTTCTTTTTCTTCA
2031573 TTTTTCTTTTTCTTCA
1 TTTTTCTTTTTCTTCA
2031589 TTTTTCTTTTTTCTTCA
1 TTTTTC-TTTTTCTTCA
2031606 AGCATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 5 0.17
16 14 0.48
17 10 0.34
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTTCTTCA
Found at i:2036850 original size:84 final size:82
Alignment explanation
Indices: 2036711--2036876 Score: 314
Period size: 84 Copynumber: 2.0 Consensus size: 82
2036701 TTTTCTCTTC
2036711 TGTTTTTTCCAGAGAAAATATCCTCCTACCATGAAACATTGGTAGTATAATTTCAAGGTACCCTG
1 TGTTTTTTCCAGAGAAAATATCCTCCTACCATGAAACATTGGTAGTATAATTTCAAGGTACCCTG
2036776 CGGGTATCCTTGTATGG
66 CGGGTATCCTTGTATGG
2036793 TGTTTTTTCCAGAGAAACATATCCTCCTACCATTGAAACATTGGTAGTATAATTTCAAGGTACCC
1 TGTTTTTTCCAGAGAAA-ATATCCTCCTACCA-TGAAACATTGGTAGTATAATTTCAAGGTACCC
2036858 TGCGGGTATCCTTGTATGG
64 TGCGGGTATCCTTGTATGG
2036877 GAATGGTAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 17 0.21
83 14 0.17
84 51 0.62
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (82 bp):
TGTTTTTTCCAGAGAAAATATCCTCCTACCATGAAACATTGGTAGTATAATTTCAAGGTACCCTG
CGGGTATCCTTGTATGG
Found at i:2041235 original size:21 final size:22
Alignment explanation
Indices: 2041189--2041236 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2041179 ATAACGCCCA
2041189 AAATTTGGTACTCATTAATTAT
1 AAATTTGGTACTCATTAATTAT
*
2041211 -AATTTTGT-CTCTATT-ATTAT
1 AAATTTGGTACTC-ATTAATTAT
2041231 AAATTT
1 AAATTT
2041237 AAATATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.52
Consensus pattern (22 bp):
AAATTTGGTACTCATTAATTAT
Found at i:2044791 original size:44 final size:45
Alignment explanation
Indices: 2044721--2044814 Score: 165
Period size: 44 Copynumber: 2.1 Consensus size: 45
2044711 TGAGGTTGTT
2044721 TTAATTTAGTTAAAGTCAAATAACTATGAGATACTTATGTATCCG
1 TTAATTTAGTTAAAGTCAAATAACTATGAGATACTTATGTATCCG
2044766 TATAATTTAGTT-AA-TCAAATAACTATGAGATACTTATGTATCCG
1 T-TAATTTAGTTAAAGTCAAATAACTATGAGATACTTATGTATCCG
2044810 TTAAT
1 TTAAT
2044815 GTTCTTTACT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
43 4 0.08
44 31 0.65
45 3 0.06
46 10 0.21
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (45 bp):
TTAATTTAGTTAAAGTCAAATAACTATGAGATACTTATGTATCCG
Found at i:2054049 original size:13 final size:14
Alignment explanation
Indices: 2054021--2054074 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
2054011 GATCCATTTT
2054021 CTTTTTT-TC-TT-
1 CTTTTTTCTCTTTG
2054032 CTTTTTTCTCTTTG
1 CTTTTTTCTCTTTG
* *
2054046 TTTTTTTTTCTTTG
1 CTTTTTTCTCTTTG
2054060 CTTTTTT-TCTTTG
1 CTTTTTTCTCTTTG
2054073 CT
1 CT
2054075 CTTTCTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 7 0.19
12 2 0.05
13 10 0.27
14 18 0.49
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (14 bp):
CTTTTTTCTCTTTG
Found at i:2054053 original size:17 final size:17
Alignment explanation
Indices: 2054033--2054093 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
2054023 TTTTTTCTTC
2054033 TTTTTTCTCTTTG--TT
1 TTTTTTCTCTTTGTTTT
2054048 TTTTTT-TCTTTGCTTTT
1 TTTTTTCTCTTTG-TTTT
*
2054065 TTTCTTTGCTCTTTCTTTT
1 TTT-TTT-CTCTTTGTTTT
*
2054084 TCTTTTCTCT
1 TTTTTTCTCT
2054094 CCCTTTTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.16
15 6 0.16
17 9 0.24
18 6 0.16
19 6 0.16
20 5 0.13
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTCTCTTTGTTTT
Found at i:2054084 original size:30 final size:29
Alignment explanation
Indices: 2054017--2054088 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
2054007 ACTTGATCCA
*
2054017 TTTTCTTTTT-TTCTTCTTTTTTCTCTTTG
1 TTTTCTTTTTCTT-TGCTTTTTTCTCTTTG
2054046 TTTT-TTTTTCTTTGCTTTTTT-TCTTTG
1 TTTTCTTTTTCTTTGCTTTTTTCTCTTTG
2054073 CTCTTTCTTTTTCTTT
1 -T-TTTCTTTTTCTTT
2054089 TCTCTCCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.16
28 14 0.37
29 9 0.24
30 9 0.24
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (29 bp):
TTTTCTTTTTCTTTGCTTTTTTCTCTTTG
Found at i:2054099 original size:17 final size:18
Alignment explanation
Indices: 2054062--2054106 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
2054052 TTTCTTTGCT
**
2054062 TTTTTTCTTTGCTCTTTC
1 TTTTTTCTTTGCTCTCCC
*
2054080 -TTTTTCTTTTCTCTCCC
1 TTTTTTCTTTGCTCTCCC
2054097 TTTTTTCTTT
1 TTTTTTCTTT
2054107 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTCTTTGCTCTCCC
Found at i:2054101 original size:35 final size:34
Alignment explanation
Indices: 2054039--2054106 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
2054029 CTTCTTTTTT
* * * *
2054039 CTCTTTGTTTTTTTTTCTTTGCTTTTTTTCTTTG
1 CTCTTTCTTTTTTTTTCTCTCCCTTTTTTCTTTG
2054073 CTCTTTCTTTTTCTTTTCTCTCCCTTTTTTCTTT
1 CTCTTTCTTTTT-TTTTCTCTCCCTTTTTTCTTT
2054107 ATTTTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (34 bp):
CTCTTTCTTTTTTTTTCTCTCCCTTTTTTCTTTG
Found at i:2058091 original size:16 final size:16
Alignment explanation
Indices: 2058067--2058101 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2058057 AATTTAATAA
*
2058067 AAAAATGCATAAATTT
1 AAAAATGCATAAAGTT
*
2058083 AAAAGTGCATAAAGTT
1 AAAAATGCATAAAGTT
2058099 AAA
1 AAA
2058102 TAGCAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (16 bp):
AAAAATGCATAAAGTT
Found at i:2058180 original size:16 final size:16
Alignment explanation
Indices: 2058161--2058197 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2058151 GTAATTAGTG
*
2058161 GTTAGAAAGGTTAGCA
1 GTTAGAAAAGTTAGCA
*
2058177 GTTAGAAAAGTTAGCG
1 GTTAGAAAAGTTAGCA
2058193 GTTAG
1 GTTAG
2058198 TAGAGTCTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (16 bp):
GTTAGAAAAGTTAGCA
Found at i:2058467 original size:135 final size:130
Alignment explanation
Indices: 2058303--2058573 Score: 371
Period size: 135 Copynumber: 2.0 Consensus size: 130
2058293 ATAAATATAA
* * * * * ** *
2058303 AAAAGTTAGTGGTTAGGAGAGTCCAAACCATAATAATGTGGATTATACCTCGGATCGGGTCACCA
1 AAAAGTAAGTAGTTAGCAGAGTACAAACCATAATAATGTGGATCATACAGCGCATCGGGTCACCA
* *
2058368 CAAGGTCGATTCAAATATTAGAAACAATAAATAAATAAATAAATAAACAATGGTTAGAGTGCAAT
66 CAAGGTCGAATCAAATATTAGAAACAATAAATAAATAAAT-AA-AAAC-A--GTTAAAGTGCAAT
2058433 AAAAT
126 AAAAT
*
2058438 AAAAGTAAGTAGTTAGCAGAGTACGAACCATAATAATGTGGATCATACAGCGCATCGGGTCACCA
1 AAAAGTAAGTAGTTAGCAGAGTACAAACCATAATAATGTGGATCATACAGCGCATCGGGTCACCA
* * *
2058503 TAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAACAGTTAAAGTGCAATAAAAT
66 CAAGGTCGAATCAAATATTAGAAACAATAAATAAATAAATAAAAACAGTTAAAGTGCAATAAAAT
2058568 AAAAGT
1 AAAAGT
2058574 TAGTGATTAA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
130 23 0.19
132 1 0.01
133 3 0.02
134 2 0.02
135 93 0.76
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (130 bp):
AAAAGTAAGTAGTTAGCAGAGTACAAACCATAATAATGTGGATCATACAGCGCATCGGGTCACCA
CAAGGTCGAATCAAATATTAGAAACAATAAATAAATAAATAAAAACAGTTAAAGTGCAATAAAAT
Found at i:2058611 original size:29 final size:29
Alignment explanation
Indices: 2058557--2058613 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2058547 ACAGTTAAAG
* **
2058557 TGCAATAAAATAAAAGTTAGTGATTAATA
1 TGCAATAAAATAAAAATTAGCAATTAATA
2058586 TGCAATAAAATAAAAATTAGCAATTAAT
1 TGCAATAAAATAAAAATTAGCAATTAAT
2058614 TCGAAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (29 bp):
TGCAATAAAATAAAAATTAGCAATTAATA
Found at i:2058621 original size:29 final size:29
Alignment explanation
Indices: 2058560--2058621 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
2058550 GTTAAAGTGC
* ** *
2058560 AATAAAATAAAAGTTAGTGATTAATATGC
1 AATAAAATAAAAATTAGCAATTAATATGA
2058589 AATAAAATAAAAATTAGCAATTAAT-TCGA
1 AATAAAATAAAAATTAGCAATTAATAT-GA
2058618 AATA
1 AATA
2058622 GAAAAAGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (29 bp):
AATAAAATAAAAATTAGCAATTAATATGA
Found at i:2059980 original size:23 final size:23
Alignment explanation
Indices: 2059953--2060009 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 23
2059943 AATTATGTTA
* *
2059953 TAAAATTAATTTGATATATTATT
1 TAAAATTAATGTAATATATTATT
* *
2059976 TAAAAATGATATGTAATATGTTATT
1 T-AAAATTA-ATGTAATATATTATT
2060001 TAAAATTAA
1 TAAAATTAA
2060010 ATACATGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (23 bp):
TAAAATTAATGTAATATATTATT
Found at i:2060175 original size:32 final size:32
Alignment explanation
Indices: 2060134--2060195 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
2060124 CAATTGTTGT
2060134 GATTTATCTTTAACT-AGTACGAGTGATTATGC
1 GATTTATCTTTAA-TGAGTACGAGTGATTATGC
* *
2060166 GATTTATCTTTAATGATTGCGAGTGATTAT
1 GATTTATCTTTAATGAGTACGAGTGATTAT
2060196 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (32 bp):
GATTTATCTTTAATGAGTACGAGTGATTATGC
Found at i:2074901 original size:12 final size:12
Alignment explanation
Indices: 2074884--2074909 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2074874 CATAGAAACA
2074884 TGCTCAATACCT
1 TGCTCAATACCT
2074896 TGCTCAATACCT
1 TGCTCAATACCT
2074908 TG
1 TG
2074910 ATAACCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.35
Consensus pattern (12 bp):
TGCTCAATACCT
Found at i:2077147 original size:60 final size:60
Alignment explanation
Indices: 2077080--2077320 Score: 333
Period size: 60 Copynumber: 4.0 Consensus size: 60
2077070 GCAACATTTG
* * * *
2077080 TCATCTAACTTGCATTAGTGGCACATTTCTTCCAAAATACATCGTTGGGCATTTAACTTT
1 TCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
** *
2077140 TCATCTAACTTGTGTTAGTGGCACCTTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
1 TCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
* * *
2077200 TCATCTAACTTCCATTAGTGGCACATTTATGCCAAAATGCACCGTTAGACATTTAACTTT
1 TCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
* * *
2077260 TCATCTAACTAT-CATTAGTGAC-CTCTTTCTGCCAAAATGCACCGTTAGGCAGTTAACTTT
1 TCATCTAACT-TGCATTAGTGGCAC-ATTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
2077320 T
1 T
2077321 TCATTTTAGA
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
59 1 0.01
60 159 0.99
61 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (60 bp):
TCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCATTTAACTTT
Found at i:2078297 original size:20 final size:20
Alignment explanation
Indices: 2078272--2078311 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2078262 CGGAAGCTAT
2078272 CTTAAGATTATCTTGGATAA
1 CTTAAGATTATCTTGGATAA
2078292 CTTAAGATTATCTTGGATAA
1 CTTAAGATTATCTTGGATAA
2078312 TTTTCATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
CTTAAGATTATCTTGGATAA
Found at i:2081092 original size:46 final size:46
Alignment explanation
Indices: 2081040--2081127 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
2081030 ACTGTTATAT
* *
2081040 ATTTTCATTTGTGGCATCCGTTCATGTCGATTATGCACCATTATGC
1 ATTTTCATTTATGGCATCCGTTCATGTCGATAATGCACCATTATGC
*
2081086 ATTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCATT
1 ATTTTCATTTATGGCATCCGTTCATGTCGATAATGCACCATT
2081128 TGTCATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCGTTCATGTCGATAATGCACCATTATGC
Found at i:2081243 original size:60 final size:59
Alignment explanation
Indices: 2081130--2081384 Score: 276
Period size: 60 Copynumber: 4.1 Consensus size: 59
2081120 GCACCATTTG
* * * * *
2081130 TCATATAACTTGTATTAATGGCACTTTTCTGCAAAATGCACCGTTAGGCATTTAACTTT
1 TCATCTAACTTGCATTAGTGGCACATTTCTCCAAAATGCACCGTTAGGCATTTAACTTT
* * *
2081189 TCATCTAACTTGTATTAGTGGCATATTTCTACCAAAATGCACTGTTAGGCATTTAACTTGTCATC
1 TCATCTAACTTGCATTAGTGGCACATTTCT-CCAAAATGCACCGTTAGGCATTT-A------A-C
2081254 TAACTT
57 T---TT
*
2081260 GTCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCGTTTAACTTT
1 -TCATCTAACTTGCATTAGTGGCACATTTCT-CCAAAATGCACCGTTAGGCATTTAACTTT
* *
2081321 TCATCTAACTTGCATTAGTGACACCTTTCTTCCAAAATGCACCGTTAGGCATTTAACTTT
1 TCATCTAACTTGCATTAGTGGCACATTTC-TCCAAAATGCACCGTTAGGCATTTAACTTT
2081381 TCAT
1 TCAT
2081385 TTTAGAACAG
Statistics
Matches: 168, Mismatches: 14, Indels: 27
0.80 0.07 0.13
Matches are distributed among these distances:
59 26 0.15
60 80 0.48
61 4 0.02
64 2 0.01
65 1 0.01
67 1 0.01
68 2 0.01
71 3 0.02
72 49 0.29
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (59 bp):
TCATCTAACTTGCATTAGTGGCACATTTCTCCAAAATGCACCGTTAGGCATTTAACTTT
Found at i:2081259 original size:12 final size:12
Alignment explanation
Indices: 2081242--2081272 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2081232 GTTAGGCATT
2081242 TAACTTGTCATC
1 TAACTTGTCATC
2081254 TAACTTGTCATC
1 TAACTTGTCATC
2081266 TAACTTG
1 TAACTTG
2081273 CATTAGTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.42
Consensus pattern (12 bp):
TAACTTGTCATC
Found at i:2081299 original size:72 final size:72
Alignment explanation
Indices: 2081182--2081332 Score: 239
Period size: 72 Copynumber: 2.1 Consensus size: 72
2081172 GTTAGGCATT
* * * *
2081182 TAACTTTTCATCTAACTTGTATTAGTGGCATATTTCTACCAAAATGCACTGTTAGGCATTTAACT
1 TAACTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACT
2081247 TGTCATC
66 TGTCATC
* *
2081254 TAACTTGTCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCGTTTAACT
1 TAACTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACT
*
2081319 TTTCATC
66 TGTCATC
2081326 TAACTTG
1 TAACTTG
2081333 CATTAGTGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.38
Consensus pattern (72 bp):
TAACTTGTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCACCGTTAGGCATTTAACT
TGTCATC
Found at i:2081368 original size:132 final size:131
Alignment explanation
Indices: 2081127--2081384 Score: 399
Period size: 132 Copynumber: 2.0 Consensus size: 131
2081117 AATGCACCAT
* *
2081127 TTGTCATATAACTTGTATTAATGGCACTTTTCTGCAAAATGCACCGTTAGGCATTTAACTTTTCA
1 TTGTCATATAACTTGCATTAATGGCACATTTCTGCAAAATGCACCGTTAGGCATTTAACTTTTCA
* * * *
2081192 TCTAACTTGTATTAGTGGCATATTTCTACCAAAATGCACTGTTAGGCATTTAACTTGTCATCTAA
66 TCTAACTTGCATTAGTGACACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTGTCATCTAA
2081257 C
131 C
* * *
2081258 TTGTCATCTAACTTGCATTAGTGGCACATTTCTGCCAAAATGCACCGTTAGGCGTTTAACTTTTC
1 TTGTCATATAACTTGCATTAATGGCACATTTCTG-CAAAATGCACCGTTAGGCATTTAACTTTTC
* * *
2081323 ATCTAACTTGCATTAGTGACACCTTTCTTCCAAAATGCACCGTTAGGCATTTAACTTTTCAT
65 ATCTAACTTGCATTAGTGACACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTGTCAT
2081385 TTTAGAACAG
Statistics
Matches: 114, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
131 30 0.26
132 84 0.74
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (131 bp):
TTGTCATATAACTTGCATTAATGGCACATTTCTGCAAAATGCACCGTTAGGCATTTAACTTTTCA
TCTAACTTGCATTAGTGACACATTTCTACCAAAATGCACCGTTAGGCATTTAACTTGTCATCTAA
C
Found at i:2093278 original size:25 final size:25
Alignment explanation
Indices: 2093244--2093295 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2093234 ATTATGCTGC
2093244 CTAGTAGGTTGATTAGCATTGTGGG
1 CTAGTAGGTTGATTAGCATTGTGGG
2093269 CTAGTAGGTTGATTAGCATTGTGGG
1 CTAGTAGGTTGATTAGCATTGTGGG
2093294 CT
1 CT
2093296 CCTTGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.10, G:0.35, T:0.37
Consensus pattern (25 bp):
CTAGTAGGTTGATTAGCATTGTGGG
Found at i:2102583 original size:19 final size:19
Alignment explanation
Indices: 2102561--2102599 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2102551 GTTCGAGTAA
2102561 CATCACTACGCCCGAGTCT
1 CATCACTACGCCCGAGTCT
2102580 CATCACTACGCCCGAGTCT
1 CATCACTACGCCCGAGTCT
2102599 C
1 C
2102600 TGCATCGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.21
Consensus pattern (19 bp):
CATCACTACGCCCGAGTCT
Found at i:2102790 original size:19 final size:19
Alignment explanation
Indices: 2102766--2102804 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2102756 TATCAACTTT
2102766 AATCGAAAGAACACTAACA
1 AATCGAAAGAACACTAACA
2102785 AATCGAAAGAACACTAACA
1 AATCGAAAGAACACTAACA
2102804 A
1 A
2102805 CTAAATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.21, G:0.10, T:0.10
Consensus pattern (19 bp):
AATCGAAAGAACACTAACA
Found at i:2103076 original size:23 final size:23
Alignment explanation
Indices: 2103033--2103076 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2103023 TTAATTGAGT
* *
2103033 TTAAAAATATTAATTGGTTTAGG
1 TTAAAAATATTAAATGCTTTAGG
2103056 TTAAAATATATTAAAT-CTTTA
1 TTAAAA-ATATTAAATGCTTTA
2103077 TATTTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (23 bp):
TTAAAAATATTAAATGCTTTAGG
Found at i:2103423 original size:20 final size:21
Alignment explanation
Indices: 2103364--2103425 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
2103354 TTAATTAAGT
2103364 ATATATATTTTAA-TAATCTCGA
1 ATATATA-TTTAATTAAT-TCGA
*
2103386 ATATTTAATTTCAATTAATTC-A
1 ATATAT-ATTT-AATTAATTCGA
2103408 ATATATATTTAATTAATT
1 ATATATATTTAATTAATT
2103426 TGAAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
20 8 0.23
21 4 0.11
22 14 0.40
23 5 0.14
24 4 0.11
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATATATTTAATTAATTCGA
Found at i:2103502 original size:90 final size:90
Alignment explanation
Indices: 2103387--2103564 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
2103377 TAATCTCGAA
* * * * * *
2103387 TATTTAATTTCAATTAATTCAATATATATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
2103452 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
2103477 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
2103542 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
2103565 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:2106094 original size:545 final size:542
Alignment explanation
Indices: 2104598--2106228 Score: 2625
Period size: 543 Copynumber: 3.0 Consensus size: 542
2104588 AATTATTAAA
* * *
2104598 ATTTCTTTTATATGGAAGGGAAATCAAACTTGGGTAAATGGCATAGAATGAGGTGTCTCATACCA
1 ATTTCTTTTACATGGAAGGGAAATCAAACTTGGGTAAAAGACAT--AATGAGGTGTCTCATACCA
* *
2104663 CCACACCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTTTATTTGA
64 CCACACCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTATATTTAA
* *
2104728 ATTTAATAAAAAAATAATTAAACACGTGTAG--ATCTTATGTAAAATTCTCAAATAGGAGATACC
129 ATTTAAT--AAAAATAATTAAACACATGTAGTAATCTTATGTAAAATGCTCAAATAGGAGATACC
*
2104791 TGATTATTCCCAAATATTAAGGTTTTTAAACCCTAATATATCAAATCTTTCCCCTCTCAATTTCT
192 TGATTATTCCCAAATATTAAGGTTTTTAAACCCTAATATATCAAATTTTTCCCCTCTCAATTTCT
2104856 TCAATTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTG-GATTTGT
257 TCAATTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTGAG-TTTGT
2104920 TTTTTTAAATCGAATCATCCAATATTT-TTTATTTTCGAATGGGTTTTCTGAAATATTTGGGTTT
321 TTTTTTAAATCGAATCATCCAATATTTCTTTATTTTCGAATGGGTTTTCTGAAATATTTGGGTTT
*
2104984 GTGTGAGTTTCAAATGAATTCAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTGTT
386 GTGTGAGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTGTT
* *
2105049 GTACAGTTTAGTTCGAATTGAATTTTTCGTTGAGATTCTATTAGAGTAATTTTTTTATTTGGATT
451 GTATAGTTTAGTTCGAATTGAATTTTTCGTTGAGTTTCTATTAGAGTAATTTTTTTATTTGGATT
*
2105114 TGTCTTTGAGTTTCATAACCCTTGAAC
516 TTTCTTTGAGTTTCATAACCCTTGAAC
* *
2105141 ATTTCTTTTACATGGAAGGGAAATCAAACTTGGGTAAAAGGTATAGAATGAGGTGTCTCATACCA
1 ATTTCTTTTACATGGAAGGGAAATCAAACTTGGGTAAAA-G-ACATAATGAGGTGTCTCATACCA
*
2105206 CCACAGCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTATATTTAA
64 CCACACCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTATATTTAA
*
2105271 ATTTAATAAAAATAATTAAACACATGTAG--ATCTTATGTAAAATGCTCAAATAGGAGATACCAG
129 ATTTAATAAAAATAATTAAACACATGTAGTAATCTTATGTAAAATGCTCAAATAGGAGATACCTG
*
2105334 ATTATTCCC-AATATTAAGGTTTTTAAACCCTAATATATCAAATCTTTTCCCCCTATCAATTTCT
194 ATTATTCCCAAATATTAAGGTTTTTAAACCCTAATATATCAAAT-TTTT-CCCCTCTCAATTTCT
2105398 TCAATTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTGAGTTTGTT
257 TCAATTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTGAGTTTGTT
* *
2105463 TTTTTTAATCGAATCATCCAATATTTCTTTATTTTGGAATGGGTTTTCTGAAATATTTGGGTTTG
322 TTTTTAAATCGAATCATCCAATATTTCTTTATTTTCGAATGGGTTTTCTGAAATATTTGGGTTTG
*
2105528 TGTGAGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTATTG
387 TGTGAGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTGTTG
*
2105593 TATAGTTTAGCTCGAATT-AATTTTTCGTTGAGTTTCTATTAGAGTAATTTTTTTATTTGGATTT
452 TATAGTTTAGTTCGAATTGAATTTTTCGTTGAGTTTCTATTAGAGTAATTTTTTTATTTGGATTT
*
2105657 TTCTTTGAGTTTCATAACCCTAGAAC
517 TTCTTTGAGTTTCATAACCCTTGAAC
**
2105683 ATTTCTTTTACATGGAAGGGAAATCAAACTAAGGTAAAAGACATAATGAGGTGTCTCATACCACC
1 ATTTCTTTTACATGGAAGGGAAATCAAACTTGGGTAAAAGACATAATGAGGTGTCTCATACCACC
* *
2105748 ACACCAAGTTGCTTACTTTGTTATATAATGAAA-AATCTTTATTTAATATACATTATATTTAAAT
66 ACACCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTATATTTAAAT
* *
2105812 TTAATAAAATTAATTAAACACATGTAGTATATATCTTATGTAAAATGCTCAAATAAGAGATACCT
131 TTAATAAAAATAATTAAACACATGTAG--TA-ATCTTATGTAAAATGCTCAAATAGGAGATACCT
* * *
2105877 GGTTATTCCCAAAATATTAGGGTTTTTAAACCCTAATATATCAAATATTTTCCCCTCTCATTTTC
193 GATTATTCCC-AAATATTAAGGTTTTTAAACCCTAATATATCAAAT-TTTTCCCCTCTCAATTTC
* * * * * * * * * *
2105942 TTCAATTTCATTGAACCATGATCTTACATCGATAATGTAATCGCATATTTTGAAGGTGAGTTTGG
256 TTCAATTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTGAGTTTGT
* * *
2106007 TTTTTTGAATCAAATCATCCAATATTTCTTTATTTTCGAATGGATTTTCTGAAATATTTGGGTTT
321 TTTTTTAAATCGAATCATCCAATATTTCTTTATTTTCGAATGGGTTTTCTGAAATATTTGGGTTT
* *
2106072 TTGTGAGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTGAACATTGTT
386 GTGTGAGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTGTT
* *
2106137 GTATAGTTTAGTTCAAATTGGAA-TTTTCATTGAGTTTCTATTAGAGTAATTTTTTTATTTGGAT
451 GTATAGTTTAGTTCGAATT-GAATTTTTCGTTGAGTTTCTATTAGAGTAATTTTTTTATTTGGAT
2106201 TTTTCTTTGAGTTTCATAACCCTTGAAC
515 TTTTCTTTGAGTTTCATAACCCTTGAAC
2106229 TCACCTGTAT
Statistics
Matches: 1015, Mismatches: 58, Indels: 27
0.92 0.05 0.02
Matches are distributed among these distances:
539 55 0.05
540 89 0.09
541 66 0.07
542 208 0.20
543 242 0.24
544 41 0.04
545 208 0.20
546 104 0.10
547 2 0.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (542 bp):
ATTTCTTTTACATGGAAGGGAAATCAAACTTGGGTAAAAGACATAATGAGGTGTCTCATACCACC
ACACCAAGTTGCTTACTTTGTTATATAATGAAACAAACTTTATTTAATATATATTATATTTAAAT
TTAATAAAAATAATTAAACACATGTAGTAATCTTATGTAAAATGCTCAAATAGGAGATACCTGAT
TATTCCCAAATATTAAGGTTTTTAAACCCTAATATATCAAATTTTTCCCCTCTCAATTTCTTCAA
TTTCATTGAAGCAGGATATTCCATAGATCACGTAATTGCATATTTCGAAGGTGAGTTTGTTTTTT
TAAATCGAATCATCCAATATTTCTTTATTTTCGAATGGGTTTTCTGAAATATTTGGGTTTGTGTG
AGTTTCAAATGAATTTAATAGATTTTATGAATGAGTTGTTCATAACCCTTAAACATTGTTGTATA
GTTTAGTTCGAATTGAATTTTTCGTTGAGTTTCTATTAGAGTAATTTTTTTATTTGGATTTTTCT
TTGAGTTTCATAACCCTTGAAC
Found at i:2110135 original size:19 final size:20
Alignment explanation
Indices: 2110111--2110161 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
2110101 AATGACCAAT
2110111 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
2110130 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
2110150 AAAATCGCAACG
1 AAAATCGCAACG
2110162 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:2110155 original size:20 final size:20
Alignment explanation
Indices: 2110111--2110428 Score: 174
Period size: 20 Copynumber: 15.6 Consensus size: 20
2110101 AATGACCAAT
* *
2110111 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
2110130 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
2110150 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
2110170 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
2110190 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
2110211 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
2110234 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
2110254 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
2110274 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
2110294 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T--TAG
* * *
2110317 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
2110337 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
2110357 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
2110377 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
2110397 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
2110417 AAAATCGCAACG
1 AAAATCGCAACG
2110429 TTAAAAAGAA
Statistics
Matches: 242, Mismatches: 45, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
19 17 0.07
20 181 0.75
21 15 0.06
22 1 0.00
23 28 0.12
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:2110289 original size:40 final size:40
Alignment explanation
Indices: 2110236--2110426 Score: 238
Period size: 40 Copynumber: 4.7 Consensus size: 40
2110226 TTTAGAAGAA
* * *
2110236 AATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
2110276 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATCTAGAAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGAT-T-G-AGAG
* *
2110319 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* *
2110359 AATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
2110399 AATCGCAACGCGATTTAGAAAATCGCAA
1 AATCGCAATGCGATTGAGAGAATCGCAA
2110427 CGTTAAAAAG
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 95 0.73
41 2 0.02
42 1 0.01
43 32 0.25
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
Found at i:2110326 original size:83 final size:82
Alignment explanation
Indices: 2110215--2110426 Score: 275
Period size: 83 Copynumber: 2.6 Consensus size: 82
2110205 GCTTCCAAGT
* * * *
2110215 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGA-TTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATC
*
2110280 GCAATGCGATTGAGAGAG
65 GCAATGCGATTGAGAGAA
*
2110298 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGAT-TAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATC
* *
2110363 GCAATGCGATTTATAGAA
65 GCAATGCGATTGAGAGAA
* * * * *
2110381 TCGCAATGCGATT-G-AGAGAATCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAA
2110427 CGTTAAAAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
80 27 0.24
81 1 0.01
82 2 0.02
83 84 0.74
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (82 bp):
TCGCAACGCGATTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCG
CAATGCGATTGAGAGAA
Found at i:2110438 original size:20 final size:20
Alignment explanation
Indices: 2110415--2110458 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2110405 AACGCGATTT
*
2110415 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
2110435 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
2110455 AGAA
1 AGAA
2110459 TAGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:2110547 original size:6 final size:6
Alignment explanation
Indices: 2110536--2110608 Score: 132
Period size: 6 Copynumber: 12.5 Consensus size: 6
2110526 GACACGTATT
2110536 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2110584 ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
2110609 CGAGACGAGA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 10 0.15
6 57 0.85
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:2111321 original size:6 final size:6
Alignment explanation
Indices: 2111300--2111456 Score: 300
Period size: 6 Copynumber: 26.5 Consensus size: 6
2111290 TCTCGTCTCG
2111300 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2111346 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2111394 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
2111442 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
2111457 AATACGTGTC
Statistics
Matches: 151, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 10 0.07
6 141 0.93
ACGTcount: A:0.00, C:0.17, G:0.51, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:2111569 original size:20 final size:20
Alignment explanation
Indices: 2111546--2111716 Score: 207
Period size: 20 Copynumber: 8.4 Consensus size: 20
2111536 CTTTTGACCG
* *
2111546 TTGCGATTCTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCA
*
2111566 TTGCGATTCTCTCAATCGCG
1 TTGCGATTCTCTCAATCGCA
* *
2111586 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
2111606 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
2111626 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
* *
2111646 TTGCGATTTTCTTCTAGATCGCG
1 TTGCGATTCTC-TC-A-ATCGCA
* *
2111669 TTGCGACTCTCTCAATGGCA
1 TTGCGATTCTCTCAATCGCA
*
2111689 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
2111709 TTGCGATT
1 TTGCGATT
2111717 TTCTTCTAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
20 112 0.85
21 3 0.02
22 3 0.02
23 13 0.10
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:2111588 original size:40 final size:40
Alignment explanation
Indices: 2111544--2111737 Score: 217
Period size: 40 Copynumber: 4.7 Consensus size: 40
2111534 TTCTTTTGAC
*
2111544 CGTTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCG
* *
2111584 CGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCG
* * * *
2111624 CATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAGATCG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTC-TC-A-ATCG
* * * *
2111667 CGTTGCGACTCTCTCAATGGCATTGCGATTCTATCAATCG
1 CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCG
* *
2111707 CATTGCGATTTTCTTCTAAATCGCGTTGCGA
1 CGTTGCGA--TTC-TCTAAATCGCATTGCGA
2111738 ACTTGGAAGC
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
40 76 0.59
41 3 0.02
42 5 0.04
43 44 0.34
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (40 bp):
CGTTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCG
Found at i:2111690 original size:63 final size:63
Alignment explanation
Indices: 2111544--2111737 Score: 268
Period size: 63 Copynumber: 3.1 Consensus size: 63
2111534 TTCTTTTGAC
* * * *
2111544 CGTTGCGATTCTCTAAATCGCGTTGCGATTCTCTCAATCGCGTTGCGA--TTC-TATAAATCG
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
* * * *
2111604 CATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAGATCG
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
* * *
2111667 CGTTGCGACTCTCTCAATGGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
2111730 CGTTGCGA
1 CGTTGCGA
2111738 ACTTGGAAGC
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
60 42 0.36
62 3 0.03
63 71 0.61
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (63 bp):
CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCG
Found at i:2111831 original size:19 final size:20
Alignment explanation
Indices: 2111544--2111841 Score: 161
Period size: 20 Copynumber: 14.6 Consensus size: 20
2111534 TTCTTTTGAC
*
2111544 CGTTGCGATTCTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
2111564 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *
2111584 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
2111604 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
2111624 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* *
2111644 CATTGCGATTTTCTTCTAGATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * * *
2111667 CGTTGCGACTCTCTCAATGG
1 CGTTGCGATTTTCTAAATCG
* * * *
2111687 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
2111707 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
2111730 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
2111751 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
2111769 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
2111791 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
*
2111811 CGTTGCGATTTT-TATATCG
1 CGTTGCGATTTTCTAAATCG
2111830 CGTTGCGATTTT
1 CGTTGCGATTTT
2111842 ATTGGTCATT
Statistics
Matches: 223, Mismatches: 44, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 18 0.08
20 156 0.70
21 14 0.06
22 6 0.03
23 27 0.12
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:2112219 original size:12 final size:12
Alignment explanation
Indices: 2112204--2112229 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2112194 TACATTGTCC
2112204 TATAATACAACT
1 TATAATACAACT
2112216 TATAATACAACT
1 TATAATACAACT
2112228 TA
1 TA
2112230 GAGTCCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
TATAATACAACT
Found at i:2120067 original size:2 final size:2
Alignment explanation
Indices: 2120060--2120095 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2120050 AGTTATTCTC
2120060 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2120096 TGTAAACTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2123897 original size:30 final size:30
Alignment explanation
Indices: 2123826--2123885 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2123816 ACAATTTAAG
2123826 GCAAAATGTTTTTGGACTTGAATTAAATTT
1 GCAAAATGTTTTTGGACTTGAATTAAATTT
* *
2123856 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTAAATTT
2123886 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTAAATTT
Found at i:2123983 original size:8 final size:8
Alignment explanation
Indices: 2123970--2124150 Score: 54
Period size: 8 Copynumber: 23.8 Consensus size: 8
2123960 GGTGTCAAAG
2123970 TGCATCCA
1 TGCATCCA
*
2123978 TGCATCCC
1 TGCATCCA
*
2123986 TGCA---G
1 TGCATCCA
2123991 TGCATCCA
1 TGCATCCA
*
2123999 TGCATCCC
1 TGCATCCA
*
2124007 TGCA---G
1 TGCATCCA
2124012 TGCATCCA
1 TGCATCCA
2124020 TGCAT-C-
1 TGCATCCA
*
2124026 TGCA-CTAA
1 TGCATC-CA
*
2124034 TGCATCGA
1 TGCATCCA
2124042 TGCATCAGGCAA
1 TGCATC---C-A
2124054 TGCATCCA
1 TGCATCCA
2124062 TGCATCCA
1 TGCATCCA
** *
2124070 AACATCGAA
1 TGCATC-CA
*
2124079 TGCAAT-TA
1 TGC-ATCCA
*
2124087 GTGCATCGA
1 -TGCATCCA
*
2124096 TGCATCCT
1 TGCATCCA
2124104 TG---CCA
1 TGCATCCA
2124109 TGCATCCA
1 TGCATCCA
*
2124117 TGCATCGA
1 TGCATCCA
2124125 TGCATCC-
1 TGCATCCA
2124132 TG---CCA
1 TGCATCCA
2124137 TGCATCCA
1 TGCATCCA
2124145 TGCATC
1 TGCATC
2124151 AAGGCTGCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 50
0.64 0.11 0.25
Matches are distributed among these distances:
4 2 0.02
5 14 0.11
6 4 0.03
7 3 0.02
8 87 0.69
9 8 0.06
10 2 0.02
12 7 0.06
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (8 bp):
TGCATCCA
Found at i:2123994 original size:21 final size:21
Alignment explanation
Indices: 2123968--2124025 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
2123958 AGGGTGTCAA
2123968 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
2123989 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
2124010 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
2124026 TGCACTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:2124141 original size:12 final size:13
Alignment explanation
Indices: 2124095--2124147 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 13
2124085 TAGTGCATCG
*
2124095 ATGCATCCTTGCC
1 ATGCATCCATGCC
2124108 ATGCATCCATGCATC
1 ATGCATCCATGC--C
2124123 GATGCATCC-TGCC
1 -ATGCATCCATGCC
2124136 ATGCATCCATGC
1 ATGCATCCATGC
2124148 ATCAAGGCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 8 0.23
13 15 0.43
15 4 0.11
16 8 0.23
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (13 bp):
ATGCATCCATGCC
Found at i:2124582 original size:32 final size:34
Alignment explanation
Indices: 2124513--2124583 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
2124503 CCTTTTGTAA
*
2124513 AGGGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCT
1 AGGGGAAAGGTTCTAGCTTAGCCCG-GTAAAAACT
*
2124548 AGGGG-AAGGTTCTAGTTTAGCCC-GTAAAAACT
1 AGGGGAAAGGTTCTAGCTTAGCCCGGTAAAAACT
2124580 AGGG
1 AGGG
2124584 AGTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 12 0.35
34 17 0.50
35 5 0.15
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (34 bp):
AGGGGAAAGGTTCTAGCTTAGCCCGGTAAAAACT
Found at i:2125468 original size:19 final size:20
Alignment explanation
Indices: 2125444--2125491 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2125434 AACGATTTTC
*
2125444 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
2125463 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
2125483 TTTTGAAAA
1 TTTTGAAAA
2125492 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:2126761 original size:30 final size:30
Alignment explanation
Indices: 2126690--2126749 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
2126680 ACAATTTAAG
2126690 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
2126720 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
2126750 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:2126848 original size:8 final size:8
Alignment explanation
Indices: 2126835--2126994 Score: 51
Period size: 8 Copynumber: 20.8 Consensus size: 8
2126825 GGTGTCAAAG
2126835 TGCATCCA
1 TGCATCCA
*
2126843 TGCATCCC
1 TGCATCCA
*
2126851 TGCA---G
1 TGCATCCA
2126856 TGCATCCA
1 TGCATCCA
2126864 TGCAT-C-
1 TGCATCCA
*
2126870 TGCA-CTAA
1 TGCATC-CA
*
2126878 TGCATCGA
1 TGCATCCA
2126886 TGCATCAGGCAA
1 TGCATC---C-A
2126898 TGCATCCA
1 TGCATCCA
2126906 TGCATCCA
1 TGCATCCA
** *
2126914 AACATCGAA
1 TGCATC-CA
*
2126923 TGCAAT-TA
1 TGC-ATCCA
*
2126931 GTGCATCGA
1 -TGCATCCA
*
2126940 TGCATCCT
1 TGCATCCA
2126948 TGC--C-A
1 TGCATCCA
2126953 TGCATCCA
1 TGCATCCA
*
2126961 TGCATCGA
1 TGCATCCA
2126969 TGCATCC-
1 TGCATCCA
2126976 TG---CCA
1 TGCATCCA
2126981 TGCATCCA
1 TGCATCCA
2126989 TGCATC
1 TGCATC
2126995 AAGGCTGCAA
Statistics
Matches: 112, Mismatches: 18, Indels: 44
0.64 0.10 0.25
Matches are distributed among these distances:
4 2 0.02
5 9 0.08
6 5 0.04
7 4 0.04
8 75 0.67
9 8 0.07
10 2 0.02
12 7 0.06
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (8 bp):
TGCATCCA
Found at i:2126985 original size:12 final size:13
Alignment explanation
Indices: 2126939--2126991 Score: 63
Period size: 13 Copynumber: 3.9 Consensus size: 13
2126929 TAGTGCATCG
*
2126939 ATGCATCCTTGCC
1 ATGCATCCATGCC
2126952 ATGCATCCATGCATC
1 ATGCATCCATGC--C
2126967 GATGCATCC-TGCC
1 -ATGCATCCATGCC
2126980 ATGCATCCATGC
1 ATGCATCCATGC
2126992 ATCAAGGCTG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 8 0.23
13 15 0.43
15 4 0.11
16 8 0.23
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (13 bp):
ATGCATCCATGCC
Found at i:2127426 original size:32 final size:34
Alignment explanation
Indices: 2127357--2127427 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
2127347 CCTTTTGTAA
*
2127357 AGGGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCT
1 AGGGGAAAGGTTCTAGCTTAGCCCG-GTAAAAACT
*
2127392 AGGGG-AAGGTTCTAGTTTAGCCC-GTAAAAACT
1 AGGGGAAAGGTTCTAGCTTAGCCCGGTAAAAACT
2127424 AGGG
1 AGGG
2127428 AGTTGTAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 12 0.35
34 17 0.50
35 5 0.15
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (34 bp):
AGGGGAAAGGTTCTAGCTTAGCCCGGTAAAAACT
Found at i:2130706 original size:26 final size:27
Alignment explanation
Indices: 2130677--2130734 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
2130667 TTAATATACG
*
2130677 ATATATAGATTTTG-TAAATA-TATATA
1 ATATATA-ATTTTGCAAAATAGTATATA
*
2130703 ATATA-ATTTTTGCAAAATAGTATATA
1 ATATATAATTTTGCAAAATAGTATATA
2130729 ATATAT
1 ATATAT
2130735 GTATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 6 0.22
26 16 0.59
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (27 bp):
ATATATAATTTTGCAAAATAGTATATA
Found at i:2130774 original size:17 final size:16
Alignment explanation
Indices: 2130741--2130785 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
2130731 ATATGTATTA
2130741 TTATTTTATTTCTTTT
1 TTATTTTATTTCTTTT
2130757 TTATTTCTATTTAC-TTT
1 TTATTT-TATTT-CTTTT
2130774 TTATTTTTATTT
1 TTA-TTTTATTT
2130786 TTAGATTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTATTTTATTTCTTTT
Found at i:2144512 original size:24 final size:24
Alignment explanation
Indices: 2144480--2144534 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
2144470 GAAGTTCATC
*
2144480 GTAGAAATGGATGCTCAATGGGTG
1 GTAGAAATGGATGCTAAATGGGTG
2144504 GTAGAAATGGATGCTAAATGGGTG
1 GTAGAAATGGATGCTAAATGGGTG
2144528 GTAGAAA
1 GTAGAAA
2144535 CTCTAAACGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.36, T:0.24
Consensus pattern (24 bp):
GTAGAAATGGATGCTAAATGGGTG
Found at i:2147273 original size:54 final size:54
Alignment explanation
Indices: 2147183--2147465 Score: 352
Period size: 54 Copynumber: 5.2 Consensus size: 54
2147173 TTCGTTGAGA
* * ** * * *
2147183 TGCACACGTAGTGCCAATACGGTCATTCATAAACATACT-ATGAATTATGTGGGT
1 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTA-TGATGAATTCTGTGGGT
* * * * * * *
2147237 TACACACATAGTTCCTAAACAGTTGTTCATCAACATATAATAAATTCTGTGGGT
1 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
* * *
2147291 TTCACACATATTGCCAAAACGGTTGTTCATCAACTTATGATAAATTCTGTGGGT
1 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
* *
2147345 TGCACATATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTTTGTGGGT
1 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
** *
2147399 TGCACACATAGTGCCTGAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
1 TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
2147453 TGCACACATAGTG
1 TGCACACATAGTG
2147466 ACTAGAGTAC
Statistics
Matches: 200, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 199 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
Found at i:2147846 original size:54 final size:53
Alignment explanation
Indices: 2147787--2148069 Score: 341
Period size: 54 Copynumber: 5.2 Consensus size: 53
2147777 TTCGTTGAGA
* * ** * * * *
2147787 TGCACACGTAGTTCCAATACGGTCATTCATAAACATATTATGAATTTTGTGGGT
1 TGCACACATAGTGCCAA-ACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
* *
2147841 TGCACACATAGTGCCTAAACGGTTGCTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACATAGTGCC-AAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
* * * * * **
2147895 TTCATATATTGTGCCAAAACGGTTGTTTATCAACTTATGATGAATTCCATGGGT
1 TGCACACATAGTGCC-AAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
* * *
2147949 TGCACACGTAGTGCCAAAATGGTTGTTCATCAACTTATGATGAATTTTGTGGGT
1 TGCACACATAGTGCC-AAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
2148003 TGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
1 TGCACACATAGTGCC-AAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
2148057 TGCACACATAGTG
1 TGCACACATAGTG
2148070 ACTATAGTAC
Statistics
Matches: 196, Mismatches: 32, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
54 194 0.99
55 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (53 bp):
TGCACACATAGTGCCAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
Found at i:2148088 original size:604 final size:601
Alignment explanation
Indices: 2146937--2148146 Score: 1994
Period size: 604 Copynumber: 2.0 Consensus size: 601
2146927 CTAAGTCTAT
* *
2146937 TACATGCCAACTAATTACATCAAAAGTAGACATATATATCGTACAGTTACTGATGAGTGGACCCT
1 TACATGCCAACTAATTACATCAAAAGTAGACATATATATCGTACAGTTACTAATGAGGGGACCCT
*
2147002 TGCTTGGTGATGCCAGATTATCTCCTTACTATGCTTGTATAATAACCTACGCATGAAATAAACAC
66 TGCTAGGTGATGCCAGATTATCTCCTTACTATGCTTGTATAATAACCTACGCATGAAATAAACAC
* *
2147067 ACGTTAAGTATTTATTTAGTGAGGCAAAAATACAGTACGATGATATCAATACATCATTATTTCAT
131 ACGTTAAGTATTTACTTAGTGAGGCAAAAATACAGTACGATGATATCAATACACCATTATTTCAT
2147132 ATCGATCAAATACTAATTCATTACTTTCAAGTCATTATCTTTTCGTTGAGATGCACACGTAGTGC
196 ATCGATCAAATACTAATTCATTACTTTCAAGTCATTATCTTTTCGTTGAGATGCACACGTAGTGC
*
2147197 CAATACGGTCATTCATAAACATACTATGAATTATGTGGGTTACACACATAGTTCCTAAACAGTTG
261 CAATACGGTCATTCATAAACATACTATGAATTATGTGGGTTACACACATAGTGCCTAAACAGTTG
*
2147262 TTCATCAACATATAATAAATTCTGTGGGTTTCACACATATTGCCAAAACGGTTGTTCATCAACTT
326 CTCATCAACATATAATAAATTCTGTGGGTTTCACACATATTGCCAAAACGGTTGTTCATCAACTT
** *
2147327 ATGATAAATTCTGTGGGTTGCACATATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTT
391 ATGATAAATTCCATGGGTTGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTT
*
2147392 TGTGGGTTGCACACATAGTGCCTGAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCA
456 TGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCA
* * *
2147457 CACATAGTGACTAGAGTACACATAGTACTGATATATAATTGTAACATATAATTTTAACACACACA
521 CACATAGTGACTAGAGTACACATAGTACTAATAAACAATTGTAACATATAATTTT-A-ACACACA
*
2147522 CATTTTTAACTCTTACTG
584 CATTTATAACTCTTACTG
*
2147540 TACATGCCAACTAATTACATCAAAAGTAGACATGA-ATGTCGTACAGTTACTAATGAGGGGACCC
1 TACATGCCAACTAATTACATCAAAAGTAGACAT-ATATATCGTACAGTTACTAATGAGGGGACCC
* * *
2147604 TTGCTAGGTGATGTCAGATTATCTCCTTACTCTGCTTGTATAATAACCTACGCGTGAAATAAACA
65 TTGCTAGGTGATGCCAGATTATCTCCTTACTATGCTTGTATAATAACCTACGCATGAAATAAACA
*
2147669 CACGTTAAGTATTTACTTAGTGAGG-AAATAATACTAGTACGATGATATCAATACACCGTTATTT
130 CACGTTAAGTATTTACTTAGTGAGGCAAA-AATAC-AGTACGATGATATCAATACACCATTATTT
*
2147733 CATATCGATCAAATACTAATTTATTACTTTCAAGTCATTATCTTTTCGTTGAGATGCACACGTAG
193 CATATCGATCAAATACTAATTCATTACTTTCAAGTCATTATCTTTTCGTTGAGATGCACACGTAG
* * * * *
2147798 TTCCAATACGGTCATTCATAAACATATTATGAATTTTGTGGGTTGCACACATAGTGCCTAAACGG
258 TGCCAATACGGTCATTCATAAACATACTATGAATTATGTGGGTTACACACATAGTGCCTAAACAG
* * * * *
2147863 TTGCTCATCAACATATGATGAATTCTGTGGGTTTCATATAT-TGTGCCAAAACGGTTGTTTATCA
323 TTGCTCATCAACATATAATAAATTCTGTGGGTTTCACACATAT-TGCCAAAACGGTTGTTCATCA
* * *
2147927 ACTTATGATGAATTCCATGGGTTGCACACGTAGTGCCAAAATGGTTGTTCATCAACTTATGATGA
387 ACTTATGATAAATTCCATGGGTTGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGA
*
2147992 ATTTTGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCTGTGGGT
452 ATTTTGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGT
* * *
2148057 TGCACACATAGTGACTATAGTACATATAGTACTAATAAACAATTGTAACATATACTTTTAACACA
517 TGCACACATAGTGACTAGAGTACACATAGTACTAATAAACAATTGTAACATATAATTTTAACACA
*
2148122 TACATTTATAACTCTTACTG
582 CACATTTATAACTCTTACTG
2148142 TACAT
1 TACAT
2148147 AATAAATGCA
Statistics
Matches: 564, Mismatches: 39, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
602 31 0.05
603 151 0.27
604 382 0.68
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (601 bp):
TACATGCCAACTAATTACATCAAAAGTAGACATATATATCGTACAGTTACTAATGAGGGGACCCT
TGCTAGGTGATGCCAGATTATCTCCTTACTATGCTTGTATAATAACCTACGCATGAAATAAACAC
ACGTTAAGTATTTACTTAGTGAGGCAAAAATACAGTACGATGATATCAATACACCATTATTTCAT
ATCGATCAAATACTAATTCATTACTTTCAAGTCATTATCTTTTCGTTGAGATGCACACGTAGTGC
CAATACGGTCATTCATAAACATACTATGAATTATGTGGGTTACACACATAGTGCCTAAACAGTTG
CTCATCAACATATAATAAATTCTGTGGGTTTCACACATATTGCCAAAACGGTTGTTCATCAACTT
ATGATAAATTCCATGGGTTGCACACATAGTGCCAAAACGGTTGTTCATCAACTTATGATGAATTT
TGTGGGTTGCACACATAGTGCCTAAACGGTTGTTCATCAACTTATGATGAATTCCGTGGGTTGCA
CACATAGTGACTAGAGTACACATAGTACTAATAAACAATTGTAACATATAATTTTAACACACACA
TTTATAACTCTTACTG
Found at i:2152531 original size:13 final size:13
Alignment explanation
Indices: 2152515--2152539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2152505 ATTTCGTCAC
2152515 TAAATTTTTTCTA
1 TAAATTTTTTCTA
2152528 TAAATTTTTTCT
1 TAAATTTTTTCT
2152540 GTTACTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TAAATTTTTTCTA
Found at i:2155202 original size:13 final size:13
Alignment explanation
Indices: 2155186--2155225 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2155176 TCATTATTAA
2155186 TATTTTTATATTT
1 TATTTTTATATTT
*
2155199 TATTTTTTTATTT
1 TATTTTTATATTT
*
2155212 TATATTTTAAATTT
1 TAT-TTTTATATTT
2155226 AGAATAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTTATATTT
Done.