Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 62
Found at i:977291 original size:63 final size:64
Alignment explanation
Indices: 977219--977374 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 64
977209 TTGAAGGTGT
* * *
977219 ATCGATGCATAGGTAGTGCATCGATGCA-CTCTTTTA-AATAAAAACATCGAATGCA-ATTAGTG
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAAT-AAAACATCGAATGCATATTA-TG
977281 C
64 C
* *
977282 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATTTTATGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* * *
977346 ACCGATGCACAAGTAGTGCATCGATGCAT
1 ATCGATGCATAGGTAGTGCATCGATGCAT
977375 ACCTTCATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
63 25 0.32
64 48 0.61
65 6 0.08
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:977863 original size:15 final size:15
Alignment explanation
Indices: 977845--977878 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
977835 GAGGGTATAA
977845 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
977860 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
977875 TAGT
1 TAGT
977879 GGTCCTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:986080 original size:15 final size:15
Alignment explanation
Indices: 986056--986089 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
986046 GTACACATTT
* *
986056 TTTTCTTTTTTTTTC
1 TTTTCATTTTTTTAC
986071 TTTTCATTTTTTTAC
1 TTTTCATTTTTTTAC
986086 TTTT
1 TTTT
986090 TTACGCTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCATTTTTTTAC
Found at i:989595 original size:61 final size:64
Alignment explanation
Indices: 989525--989678 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 64
989515 GTTATCATGT
* * *
989525 ATCGATGCATAGGTAGTGCATCGATGCA-CTCTTTTA-AAT-AAACATCGAATGC-AATTAGTGC
1 ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCTAATTA-TGC
* **
989586 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCTTTTTATGC
1 ATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCTAATTATGC
* * * *
989650 ACCGATGCACAAGTAGTGGATCGATGCAT
1 ATCGATGCATAGGTAGTGCATCGATGCAT
989679 ACCTTCATTA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
61 22 0.29
62 9 0.12
63 6 0.08
64 36 0.47
65 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCTAATTATGC
Found at i:990167 original size:15 final size:15
Alignment explanation
Indices: 990149--990182 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
990139 GAGGGTATAA
990149 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
990164 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
990179 TAGT
1 TAGT
990183 GGTCCTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:996586 original size:167 final size:167
Alignment explanation
Indices: 996310--996650 Score: 673
Period size: 167 Copynumber: 2.0 Consensus size: 167
996300 TATATCTAAA
996310 GTAAAATCACAACGCTTCATGCATCTATATGCAATGCAATCTCGGGGTATTTCTGAAAGACAACC
1 GTAAAATCACAACGCTTCATGCATCTATATGCAATGCAATCTCGGGGTATTTCTGAAAGACAACC
996375 ACTGCACTAGGTTGGAAAGTTGTGGGCTAGAAAGAGTGAATGTTCATGACATGGATGCTCCAAAG
66 ACTGCACTAGGTTGGAAAGTTGTGGGCTAGAAAGAGTGAATGTTCATGACATGGATGCTCCAAAG
996440 TGCCTGATAGTGAAATACATCTAATGTCCCAGCTACT
131 TGCCTGATAGTGAAATACATCTAATGTCCCAGCTACT
996477 GTAAAATCACAACGCTTCATGCATCTATATGCAATGCAATCTCGGGGTATTTCTGAAAGACAACC
1 GTAAAATCACAACGCTTCATGCATCTATATGCAATGCAATCTCGGGGTATTTCTGAAAGACAACC
*
996542 ACTGCACTTGGTTGGAAAGTTGTGGGCTAGAAAGAGTGAATGTTCATGACATGGATGCTCCAAAG
66 ACTGCACTAGGTTGGAAAGTTGTGGGCTAGAAAGAGTGAATGTTCATGACATGGATGCTCCAAAG
996607 TGCCTGATAGTGAAATACATCTAATGTCCCAGCTACT
131 TGCCTGATAGTGAAATACATCTAATGTCCCAGCTACT
996644 GTAAAAT
1 GTAAAAT
996651 TTGCAATCTT
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 173 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (167 bp):
GTAAAATCACAACGCTTCATGCATCTATATGCAATGCAATCTCGGGGTATTTCTGAAAGACAACC
ACTGCACTAGGTTGGAAAGTTGTGGGCTAGAAAGAGTGAATGTTCATGACATGGATGCTCCAAAG
TGCCTGATAGTGAAATACATCTAATGTCCCAGCTACT
Found at i:997982 original size:20 final size:20
Alignment explanation
Indices: 997954--998011 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
997944 TTTGGTTTAC
*
997954 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTATCAGTA
*
997974 GGAAAGTAAGATTATCAGTA
1 GGAATGTAAGATTATCAGTA
997994 GGAATGTAAGATTATCAG
1 GGAATGTAAGATTATCAG
998012 GGAATAGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (20 bp):
GGAATGTAAGATTATCAGTA
Found at i:1000857 original size:26 final size:26
Alignment explanation
Indices: 1000808--1000857 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1000798 TATATCAAAC
**
1000808 ACAATATAAAATTATAAATTATATTT
1 ACAATATAAAATTATAAAGAATATTT
* *
1000834 ACAATATTATATTATAAAGAATAT
1 ACAATATAAAATTATAAAGAATAT
1000858 ATTTTGATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
ACAATATAAAATTATAAAGAATATTT
Found at i:1010101 original size:34 final size:32
Alignment explanation
Indices: 1010007--1010107 Score: 80
Period size: 34 Copynumber: 3.0 Consensus size: 32
1009997 AATTTAAATA
* *
1010007 ATATCTATTTAAGTTTGAATAGTAAAAGGAGT-TT
1 ATATCT-TTTAAATTTGAATAATAAAA-GA-TATT
*
1010041 ATATCTTTTGAATATTTCAA-AATAAAAGATATT
1 ATATCTTTT-AA-ATTTGAATAATAAAAGATATT
* *
1010074 ATTATCTGTTTAAATTTGAATATTAAAAAATATT
1 A-TATCT-TTTAAATTTGAATAATAAAAGATATT
1010108 TAGTTGGAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
32 1 0.02
33 14 0.25
34 32 0.58
35 8 0.15
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (32 bp):
ATATCTTTTAAATTTGAATAATAAAAGATATT
Found at i:1010583 original size:14 final size:14
Alignment explanation
Indices: 1010564--1010592 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1010554 ATAAGTAAAC
1010564 TCATTCTTTATCAT
1 TCATTCTTTATCAT
1010578 TCATTCTTTATCAT
1 TCATTCTTTATCAT
1010592 T
1 T
1010593 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (14 bp):
TCATTCTTTATCAT
Found at i:1018244 original size:23 final size:23
Alignment explanation
Indices: 1018184--1018237 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
1018174 GTCGAGGGTT
*
1018184 CTATGTGGTCATTCGGGATAAAA
1 CTATGTGGTCATTCGGGACAAAA
1018207 CTATGTGGTCATTCGGGACAAAA
1 CTATGTGGTCATTCGGGACAAAA
1018230 CTATGTGG
1 CTATGTGG
1018238 CACTTCGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:1030244 original size:19 final size:19
Alignment explanation
Indices: 1030216--1030254 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1030206 GAATTATGTC
*
1030216 AAATAAAAATATAAGTATA
1 AAATAAAAATATAAATATA
* *
1030235 AAATATAAATTTAAATATA
1 AAATAAAAATATAAATATA
1030254 A
1 A
1030255 CGCAAGAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATAAAAATATAAATATA
Found at i:1033087 original size:2 final size:2
Alignment explanation
Indices: 1033075--1033114 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1033065 GATATAACTG
1033075 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1033115 CAATTAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1035451 original size:14 final size:15
Alignment explanation
Indices: 1035432--1035463 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1035422 ATTTACGTCA
1035432 AAAATTTAAATTT-T
1 AAAATTTAAATTTAT
1035446 AAAATTTAAATTTAT
1 AAAATTTAAATTTAT
1035461 AAA
1 AAA
1035464 GATTAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAAATTTAAATTTAT
Found at i:1043943 original size:2 final size:2
Alignment explanation
Indices: 1043938--1043962 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1043928 TTAAGTCTTT
1043938 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
1043963 TGAGGATGTT
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:1048418 original size:15 final size:16
Alignment explanation
Indices: 1048398--1048449 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
1048388 CCGTGTCCCG
1048398 ACCCGGATTA-CGGGT
1 ACCCGGATTATCGGGT
*
1048413 ACCCGG-TAATCGGGT
1 ACCCGGATTATCGGGT
*
1048428 ACCCGGATTTTGCGGGT
1 ACCCGGATTAT-CGGGT
1048445 ACCCG
1 ACCCG
1048450 ATACCCGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 2 0.06
17 10 0.32
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (16 bp):
ACCCGGATTATCGGGT
Found at i:1063605 original size:14 final size:14
Alignment explanation
Indices: 1063582--1063631 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1063572 GGGGGAAAAT
*
1063582 TAATATAATAATAA
1 TAATAAAATAATAA
1063596 TAATAAAATAA-AA
1 TAATAAAATAATAA
1063609 TAGAT-AAATAAATAA
1 TA-ATAAAAT-AATAA
*
1063624 AAATAAAA
1 TAATAAAA
1063632 AGGTTACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 8 0.27
14 16 0.53
15 6 0.20
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:1065008 original size:36 final size:36
Alignment explanation
Indices: 1064936--1065155 Score: 209
Period size: 36 Copynumber: 6.0 Consensus size: 36
1064926 ACTAAATAGA
*
1064936 TTTCAAAAATATTTTCAAAACTATA---TATATATAT
1 TTTC-AAAATATTTTAAAAACTATATATTATATATAT
1064970 TTTCAAAATATTTTAAAAACTATATATTATATATAT
1 TTTCAAAATATTTTAAAAACTATATATTATATATAT
* * * *
1065006 TTTTAAAATGTTTCAAAAACTATTATATATATATATGT
1 TTTCAAAATATTTTAAAAACTA-TATAT-TATATATAT
*
1065044 TTTC-AAATACTTT-AAAACTATATACTATATATATAT
1 TTTCAAAATATTTTAAAAACTATATA-T-TATATATAT
* * * * *
1065080 ATATTTAAAATGTTTTTCAAAAATTATACATTATATAT-G
1 -T-TTCAAAAT-ATTTT-AAAAACTATATATTATATATAT
*
1065119 TTTCAAAATATTTTCAAAACTATATATTATATATAT
1 TTTCAAAATATTTTAAAAACTATATATTATATATAT
1065155 T
1 T
1065156 ATATTTCAAA
Statistics
Matches: 151, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
33 19 0.13
34 4 0.03
35 21 0.14
36 50 0.33
37 19 0.13
38 14 0.09
39 4 0.03
40 10 0.07
41 1 0.01
42 9 0.06
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (36 bp):
TTTCAAAATATTTTAAAAACTATATATTATATATAT
Found at i:1065075 original size:114 final size:113
Alignment explanation
Indices: 1064957--1065195 Score: 294
Period size: 114 Copynumber: 2.1 Consensus size: 113
1064947 TTTTCAAAAC
* * *
1064957 TATATATATATATTTTCAAAAT-ATTTT-AAAAACTATATATTATATATATTTTTAAAAT-GTTT
1 TATATATATATATTTT-AAAATGATTTTCAAAAACTATACATTATATAT-GTTTCAAAATAGTTT
* *
1065019 CAAAAACTAT-TA-TATATATA-TATGTTTTCAAATACTTTAAAACTATATACTA
64 C-AAAACTATATATTATATATATTAT-ATTTCAAA-ACTATAAAA-TATATA-TA
* * *
1065071 TATATATATATA-TTTAAAATGTTTTTCAAAAATTATACATTATATATGTTTCAAAATATTTTCA
1 TATATATATATATTTTAAAATGATTTTCAAAAACTATACATTATATATGTTTCAAAATAGTTTCA
1065135 AAACTATATATTATATATATTATATTTCAAAACTATAAAATATATATA
66 AAACTATATATTATATATATTATATTTCAAAACTATAAAATATATATA
1065183 TATATATATATAT
1 TATATATATATAT
1065196 ATATAATATA
Statistics
Matches: 110, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
112 19 0.17
113 29 0.26
114 44 0.40
115 15 0.14
116 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (113 bp):
TATATATATATATTTTAAAATGATTTTCAAAAACTATACATTATATATGTTTCAAAATAGTTTCA
AAACTATATATTATATATATTATATTTCAAAACTATAAAATATATATA
Found at i:1065091 original size:76 final size:77
Alignment explanation
Indices: 1064957--1065166 Score: 267
Period size: 76 Copynumber: 2.8 Consensus size: 77
1064947 TTTTCAAAAC
*
1064957 TATATATATATATTTTCAAAATATTTTAAAAACTATATAT-TATATATAT-T-TTTAAAATG-TT
1 TATATATATATGTTTTCAAAATATTTTAAAAACTATATATATATATATATATATTTAAAATGTTT
1065018 TCAAAAACTATTA
66 TCAAAAACTA-TA
*
1065031 TATATATATATGTTTTC-AAATACTTT-AAAACTATATACTATATATATATATATTTAAAATGTT
1 TATATATATATGTTTTCAAAATATTTTAAAAACTATATA-TATATATATATATATTTAAAATG-T
*
1065094 TTTCAAAAATTATA
64 TTTCAAAAACTATA
* *
1065108 CAT-TATATATG-TTTCAAAATATTTTCAAAACTATATAT-TATATATATTATATTTCAAAA
1 TATATATATATGTTTTCAAAATATTTTAAAAACTATATATATATATATA-TATATTT-AAAA
1065167 CTATAAAATA
Statistics
Matches: 121, Mismatches: 5, Indels: 17
0.85 0.03 0.12
Matches are distributed among these distances:
72 11 0.09
73 9 0.07
74 25 0.21
75 13 0.11
76 33 0.27
77 19 0.16
78 11 0.09
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (77 bp):
TATATATATATGTTTTCAAAATATTTTAAAAACTATATATATATATATATATATTTAAAATGTTT
TCAAAAACTATA
Found at i:1065169 original size:29 final size:27
Alignment explanation
Indices: 1065126--1065249 Score: 110
Period size: 27 Copynumber: 4.5 Consensus size: 27
1065116 ATGTTTCAAA
*
1065126 ATAT-TTTCAAAACTATATATTATATAT
1 ATATATTTCAAAA-TATATAATATATAT
*
1065153 ATTATATTTCAAAACTATAAAATATATAT
1 A-TATATTTCAAAA-TATATAATATATAT
* *
1065182 ATATATAT-ATATATATATAATATATAT
1 ATATATTTCA-AAATATATAATATATAT
* **
1065209 ATATATAT-ATTATATATATATATATAT
1 ATATATTTCAAAATATATA-ATATATAT
1065236 ATATATTTTCAAAA
1 ATATA-TTTCAAAA
1065250 ATTATTTTCA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.10
27 37 0.45
28 13 0.16
29 24 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATATTTCAAAATATATAATATATAT
Found at i:1065181 original size:2 final size:2
Alignment explanation
Indices: 1065174--1065241 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
1065164 AAACTATAAA
1065174 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1065215 AT AT -T 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
1065242 TTTCAAAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 62 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1065195 original size:36 final size:35
Alignment explanation
Indices: 1064957--1065231 Score: 133
Period size: 36 Copynumber: 7.4 Consensus size: 35
1064947 TTTTCAAAAC
1064957 TATATATATATAT-TTTCAAAATATTTTAAAA-ACTATA
1 TATATATATATATATTTCAAAATA---TAAAATA-TATA
* *
1064994 TAT-TATATATAT-TTTTAAAATGTTTCAAAA-ACTAT-
1 TATATATATATATATTTCAAAA--TAT-AAAATA-TATA
* *
1065029 TATATATATATATGTTTTCAAATACTTTAAAACTATATA
1 TATATATATATAT-ATTTCAAA-A-TATAAAA-TATATA
*
1065068 CTATATATATATATATTT-AAAATGTTTTTCAAAA-AT-TA
1 -TATATATATATATATTTCAAAA----TAT-AAAATATATA
* *
1065106 TACAT-TATATATGTTTCAAAATATTTTCAAAACTATATA
1 TATATATATATATATTTCAAAATA---T-AAAA-TATATA
1065145 T-TATATATATTATATTTCAAAACTATAAAATATATA
1 TATATATATA-TATATTTCAAAA-TATAAAATATATA
* * *
1065181 TATATATATATATATAT-ATAATATATATATATATA
1 TATATATATATATATTTCAAAATATA-AAATATATA
1065216 TATTATATATATATAT
1 TA-TATATATATATAT
1065232 ATATATATAT
Statistics
Matches: 196, Mismatches: 14, Indels: 57
0.73 0.05 0.21
Matches are distributed among these distances:
33 1 0.01
34 4 0.02
35 17 0.09
36 76 0.39
37 28 0.14
38 23 0.12
39 14 0.07
40 27 0.14
41 6 0.03
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (35 bp):
TATATATATATATATTTCAAAATATAAAATATATA
Found at i:1072471 original size:29 final size:28
Alignment explanation
Indices: 1072439--1072523 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
1072429 TAAAAGTTCA
1072439 ATAAATTTAATGATTATTTTGTAATTTCG
1 ATAAATTTAATGATTATTTTGTAATTT-G
* ** * *
1072468 ATAAAATTAACAATTATTTAGTAATAATTT
1 ATAAATTTAATGATTATTTTGTAAT--TTG
* *
1072498 ATAAATTTAGTGATCATTTTGTAATT
1 ATAAATTTAATGATTATTTTGTAATT
1072524 GTCTTAAATT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
28 1 0.02
29 21 0.49
30 19 0.44
31 2 0.05
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (28 bp):
ATAAATTTAATGATTATTTTGTAATTTG
Found at i:1076036 original size:17 final size:18
Alignment explanation
Indices: 1076006--1076039 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1075996 CACTGGAAAA
1076006 AAGAAAGAAAAAACAAAC
1 AAGAAAGAAAAAACAAAC
1076024 AAGAAAG-AAAAACAAA
1 AAGAAAGAAAAAACAAA
1076040 GAGTTCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (18 bp):
AAGAAAGAAAAAACAAAC
Found at i:1076139 original size:2 final size:2
Alignment explanation
Indices: 1076132--1076157 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1076122 GATCCTAACC
1076132 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
1076158 CCATAAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1076869 original size:77 final size:78
Alignment explanation
Indices: 1076769--1076916 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 78
1076759 TGGGGCTGAC
1076769 ATTCAAATCTACCATTTCCCAATC-AATCAAATTTTAAC-AATCAAATAGATATGAAAGTAAAGG
1 ATTCAAATCTACCATTTCCCAATCAAATCAAATTTTAACAAATC-AATAGATATGAAAGTAAAGG
1076832 TGCCATTCGAGAAA
65 TGCCATTCGAGAAA
*
1076846 ATTCAAATCTACCATTTCCCAATCAATAATCAAATTTTAACAAATCAATAGATATGAAAGTAGAG
1 ATTCAAATCTACCATTTCCCAATC-A-AATCAAATTTTAACAAATCAATAGATATGAAAGTAAAG
1076911 GTGCCA
64 GTGCCA
1076917 AAAATCAATG
Statistics
Matches: 66, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
77 24 0.36
80 38 0.58
81 4 0.06
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (78 bp):
ATTCAAATCTACCATTTCCCAATCAAATCAAATTTTAACAAATCAATAGATATGAAAGTAAAGGT
GCCATTCGAGAAA
Found at i:1089651 original size:25 final size:25
Alignment explanation
Indices: 1089612--1089660 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1089602 GACATATATT
* * *
1089612 TTTTAATTTTTTTAAAAATCTAAAG
1 TTTTAAATTTATTAAAAACCTAAAG
1089637 TTTTAAATTTATTAAAAACCTAAA
1 TTTTAAATTTATTAAAAACCTAAA
1089661 AAAATTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (25 bp):
TTTTAAATTTATTAAAAACCTAAAG
Found at i:1091684 original size:25 final size:24
Alignment explanation
Indices: 1091656--1091702 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1091646 ATAACCATTT
* *
1091656 TGGTCATTAATTTTAAAATTTTAAA
1 TGGTCACTAAATTT-AAATTTTAAA
1091681 TGGTCACTAAATTTAAATTTTA
1 TGGTCACTAAATTTAAATTTTA
1091703 CAAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
TGGTCACTAAATTTAAATTTTAAA
Found at i:1106599 original size:298 final size:301
Alignment explanation
Indices: 1106058--1106600 Score: 758
Period size: 298 Copynumber: 1.8 Consensus size: 301
1106048 TTAATGCTAC
*
1106058 GGACTATGGTTTTGAACCAACTGATACGCCAAGAACTGATAGATCGGTAAACTTTTGAAATTCCT
1 GGACTATGGTTTTGAACCAACTGATACGCCAAGAACTGATAGACCGGTAAACTTTTGAAATTCCT
* * *
1106123 TTGCTATATAAGATTCTTGATCATTATCTGCTTTCCATTTGTTCCTTGCCTATGGAATGACGTAA
66 TTACTATATAAGATTCTTGATCATAATCTGCTTTCCATTTGTTCCTTGCCTATAGAATGACGTAA
* * ** *
1106188 TAATTATAGGATGAGCCTGAATTGATTCCTATTAGCTTGTTGCTTTATGCAGCATTAAAGTTGCA
131 TAATTATAGGATGAGCCCGAATTGATTCCTATTAGCTTGTAGCAGTATACAGCATTAAAGTTGCA
* ** * *
1106253 AGTGAATAATTGGATATATTCTTTAAACTTCCAAACTAGCATCCTAAACCATTAATTTATGTATT
196 AGTGAATAATTGCATATATTCTGCAAACTTCCAAACTAACACCCTAAACCATTAATTTATGTATT
1106318 CAAACTTTATTTTCCTAAAGTCCTTATGGCTGGCATGTTTT
261 CAAACTTTATTTTCCTAAAGTCCTTATGGCTGGCATGTTTT
* *
1106359 GGACTATGGTTTTGAACCGACTGATACGCCAAGAACTGATAGACCGTTAAAC-TTTGAAATTCCT
1 GGACTATGGTTTTGAACCAACTGATACGCCAAGAACTGATAGACCGGTAAACTTTTGAAATTCCT
* * * *
1106423 TTACTATATGA-ATTCTTGATCATAATCTGCCTTTTCATTTGTTCCTTTCCTATAGAATGATG-A
66 TTACTATATAAGATTCTTGATCATAATCTG-CTTTCCATTTGTTCCTTGCCTATAGAATGACGTA
* ** * *
1106486 A-AA-TATGGGATGCTCCCGAATATGGTTCGC-ATTAGCTTGTAGCAGTATACAGTATTAAAGTT
130 ATAATTATAGGATGAGCCCGAAT-TGATTC-CTATTAGCTTGTAGCAGTATACAGCATTAAAGTT
* *
1106548 GCTAGTGAATAATTGCAT-TATATCTGCATACTTCCAAACTAACACCCTAAACC
193 GCAAGTGAATAATTGCATATAT-TCTGCAAACTTCCAAACTAACACCCTAAACC
1106601 GTTGTCATTC
Statistics
Matches: 211, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
297 17 0.08
298 76 0.36
299 20 0.09
300 49 0.23
301 49 0.23
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (301 bp):
GGACTATGGTTTTGAACCAACTGATACGCCAAGAACTGATAGACCGGTAAACTTTTGAAATTCCT
TTACTATATAAGATTCTTGATCATAATCTGCTTTCCATTTGTTCCTTGCCTATAGAATGACGTAA
TAATTATAGGATGAGCCCGAATTGATTCCTATTAGCTTGTAGCAGTATACAGCATTAAAGTTGCA
AGTGAATAATTGCATATATTCTGCAAACTTCCAAACTAACACCCTAAACCATTAATTTATGTATT
CAAACTTTATTTTCCTAAAGTCCTTATGGCTGGCATGTTTT
Found at i:1108282 original size:53 final size:52
Alignment explanation
Indices: 1108220--1108321 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 52
1108210 GCATAAAAAA
*
1108220 TAAATTTAAATTTTCTGTTTATCCCATTTCCCCTCTTCTGAAAA-TGTCTAAAT
1 TAAATTTAAATTTTCTATTTATCCCATTT-CCCTCTTCT-AAAATTGTCTAAAT
1108273 TAAATTTAAATTTTCTATTTATCCCATTTCCCTCTTCTAAAATTGTCTA
1 TAAATTTAAATTTTCTATTTATCCCATTTCCCTCTTCTAAAATTGTCTA
1108322 TCAAGTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
51 4 0.09
52 15 0.32
53 28 0.60
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (52 bp):
TAAATTTAAATTTTCTATTTATCCCATTTCCCTCTTCTAAAATTGTCTAAAT
Found at i:1113392 original size:31 final size:31
Alignment explanation
Indices: 1113343--1113458 Score: 153
Period size: 31 Copynumber: 3.7 Consensus size: 31
1113333 TCGAGGGTTA
* * *
1113343 CTATGTCCTTTGGGACATATGGACAGGATTAC
1 CTATGTTCTTCGGGACATATGGACA-GTTTAC
1113375 CTAT-TTCTTCGGGACATATGGACAGTTTAC
1 CTATGTTCTTCGGGACATATGGACAGTTTAC
*
1113405 CTATGTTCTTCGGGACATATGAACAGTTTAC
1 CTATGTTCTTCGGGACATATGGACAGTTTAC
* * *
1113436 ATATGTTCTTTGGAACATATGGA
1 CTATGTTCTTCGGGACATATGGA
1113459 TAGGTCCTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
30 9 0.12
31 62 0.83
32 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (31 bp):
CTATGTTCTTCGGGACATATGGACAGTTTAC
Found at i:1116218 original size:31 final size:31
Alignment explanation
Indices: 1116180--1116244 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
1116170 ATATTTTCTA
1116180 GAATTAAATTAATATTTCTAACTTTATAAAT
1 GAATTAAATTAATATTTCTAACTTTATAAAT
1116211 GAATTAAATTAATATTTCTAACTTTATAAAT
1 GAATTAAATTAATATTTCTAACTTTATAAAT
1116242 GAA
1 GAA
1116245 CATTCGTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (31 bp):
GAATTAAATTAATATTTCTAACTTTATAAAT
Found at i:1124221 original size:13 final size:13
Alignment explanation
Indices: 1124203--1124235 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1124193 TAAACTTTTA
1124203 AGCTATAGGTAGT
1 AGCTATAGGTAGT
1124216 AGCTATAGGTAGT
1 AGCTATAGGTAGT
1124229 AGCTATA
1 AGCTATA
1124236 AGTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (13 bp):
AGCTATAGGTAGT
Found at i:1127011 original size:13 final size:13
Alignment explanation
Indices: 1126993--1127040 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
1126983 ACCAATGTGC
1126993 GTCATAAATACGT
1 GTCATAAATACGT
*
1127006 GTCATAAATGTC-T
1 GTCATAAAT-ACGT
* *
1127019 GTCATAAATGCGC
1 GTCATAAATACGT
1127032 GTCATAAAT
1 GTCATAAAT
1127041 TTATGACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 1 0.03
13 28 0.93
14 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (13 bp):
GTCATAAATACGT
Found at i:1127172 original size:17 final size:17
Alignment explanation
Indices: 1127146--1127180 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1127136 CGCGTTATTA
1127146 AAGGGGTTTTTTCTAGT
1 AAGGGGTTTTTTCTAGT
*
1127163 AAGGGTTTTTTTCTAGT
1 AAGGGGTTTTTTCTAGT
1127180 A
1 A
1127181 GTGATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.06, G:0.26, T:0.49
Consensus pattern (17 bp):
AAGGGGTTTTTTCTAGT
Found at i:1134451 original size:106 final size:106
Alignment explanation
Indices: 1134042--1135144 Score: 1754
Period size: 106 Copynumber: 10.5 Consensus size: 106
1134032 CCTCAAACAT
*
1134042 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* * *
1134107 CAACTTCACGGCGAAGGGACCGCTGGTTGTCAACGAAC-AT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
1134147 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATA-T--ACTCTAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1134209 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * *
1134250 TTCCCAATTTCAGAGCCAATTTCAACTTCTCAACGAAGGATCTT-GACTCTAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
1134314 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
1134355 TTCCCAATTTCAGATCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* * *
1134420 CAACTTCATGACGAAGGGACCGCTGGTTGTCAACGAAC-AT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
1134460 TTCTCGATTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
1134525 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACGAAC-AT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * *
1134565 TTCTCGATTTTAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1134630 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
1134671 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGTAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
1134736 CAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
1134777 TTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
1134842 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAACCAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
1134883 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCATGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
1134948 CAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
1134989 TTCTCAATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1135054 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * *
1135095 TTCTCAGTTCCAGAACCAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
1135145 GGAACAGTAC
Statistics
Matches: 930, Mismatches: 62, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
102 54 0.06
103 38 0.04
104 2 0.00
105 340 0.37
106 496 0.53
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
Found at i:1140444 original size:87 final size:82
Alignment explanation
Indices: 1140347--1140532 Score: 255
Period size: 86 Copynumber: 2.2 Consensus size: 82
1140337 AGATAATTCC
**
1140347 TAAAATAATATCTTAAATTTTAATTAAAACACTTAAAACCTATTTAAACTAAAATACTTAAAACA
1 TAAAATAATATCTTAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACTTAAAACA
*
1140412 AAGATAGAATAAAATAATATTT
65 AAGAT--AA-AAAATAAT-GTT
* * *
1140434 TAAAATAATATCCTAAATCCTAATTGAAATACTAAAACCTATTTAAACTAAAATACTTAAAACAA
1 TAAAATAATATCTTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACTTAAAACAA
*
1140499 AGATAAAATATAATGTT
66 AGATAAAAAATAATGTT
*
1140516 TAAAATATTATCTTAAA
1 TAAAATAATATCTTAAA
1140533 ACTTGAGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
82 17 0.19
83 7 0.08
84 2 0.02
86 37 0.41
87 27 0.30
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (82 bp):
TAAAATAATATCTTAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACTTAAAACAA
AGATAAAAAATAATGTT
Found at i:1140484 original size:86 final size:87
Alignment explanation
Indices: 1140347--1140508 Score: 263
Period size: 86 Copynumber: 1.9 Consensus size: 87
1140337 AGATAATTCC
* **
1140347 TAAAATAATATCTTAAATTTTAATTAAAACACTTAAAACCTATTTAAACTAAAATACTTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACCTATTTAAACTAAAATACTTAAAACA
*
1140412 AAGATAGAATAAAATAATATTT
66 AAGATAAAATAAAATAATATTT
* *
1140434 TAAAATAATATCCTAAATCCTAATTGAAATAC-TAAAACCTATTTAAACTAAAATACTTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACCTATTTAAACTAAAATACTTAAAACA
1140498 AAGATAAAATA
66 AAGATAAAATA
1140509 TAATGTTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 42 0.61
87 27 0.39
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (87 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACCTATTTAAACTAAAATACTTAAAACA
AAGATAAAATAAAATAATATTT
Found at i:1144089 original size:20 final size:20
Alignment explanation
Indices: 1144064--1144101 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1144054 GAATGCTAGA
*
1144064 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
1144084 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1144102 TAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:1144990 original size:32 final size:32
Alignment explanation
Indices: 1144949--1145045 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
1144939 GAGTCGAGGG
1144949 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
1144981 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
1145012 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
1145044 TT
1 TT
1145046 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:1145021 original size:31 final size:31
Alignment explanation
Indices: 1144948--1145048 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
1144938 AGAGTCGAGG
1144948 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
1144979 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
1145011 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
1145042 GTTTACC
1 GTTTACC
1145049 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:1145080 original size:30 final size:30
Alignment explanation
Indices: 1145036--1145129 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
1145026 AAGGAACATA
1145036 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
1145067 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
1145097 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
1145126 TGGA
1 TGGA
1145130 TAGGTCATTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:1152995 original size:6 final size:6
Alignment explanation
Indices: 1152973--1153007 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1152963 GGGGTGCAGG
* *
1152973 GGATGA GGCTTA GGATGA GGATGA GGATGA GGATG
1 GGATGA GGATGA GGATGA GGATGA GGATGA GGATG
1153008 TGGTTTAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.03, G:0.49, T:0.20
Consensus pattern (6 bp):
GGATGA
Found at i:1153195 original size:24 final size:24
Alignment explanation
Indices: 1153116--1153197 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
1153106 GGGAGTGTAT
* *
1153116 TGGTGGTGGAGACTTGTAGACATA
1 TGGTGGAGGTGACTTGTAGACATA
* * **
1153140 TGGTGGAGGTG--GTGAATGA-ACGG
1 TGGTGGAGGTGACTTGTA-GACA-TA
1153163 TGGTGGAGGTGACTTGTAGACATA
1 TGGTGGAGGTGACTTGTAGACATA
1153187 TGGTGGAGGTG
1 TGGTGGAGGTG
1153198 GGGAGTGAAC
Statistics
Matches: 43, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
22 4 0.09
23 13 0.30
24 22 0.51
25 4 0.09
ACGTcount: A:0.22, C:0.06, G:0.45, T:0.27
Consensus pattern (24 bp):
TGGTGGAGGTGACTTGTAGACATA
Found at i:1153198 original size:140 final size:142
Alignment explanation
Indices: 1153023--1153416 Score: 479
Period size: 140 Copynumber: 2.8 Consensus size: 142
1153013 TAGGATGTGA
* *
1153023 TGGTGGAGGTGACTTGTAGATATAAGGAGGAGGTGGAGAGTGTACTGGTGGTGGAGGTGACTTAT
1 TGGTGGAGGTGACTTGTAGATATAAGGTGGAGGTGGAGAGTGAACTGGTGGTGGAGGTGACTTAT
* * *
1153088 AGATATAGGGAGGAGGTGGGGAGTGTA-TTGGTGGTGGAGACTTGT-AGACATATGGTGGAGGTG
66 AGATATATGGAGGAGGTGGGGAGTGGACGTGGTGGTGGAGACTTGTAAG-CATATGGTGGAGGTG
*
1153151 GTGAATGAA-CGG
130 GGGAATGAATCGG
* * * * * *
1153163 TGGTGGAGGTGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTGT
1 TGGTGGAGGTGACTTGTAGATATAAGGTGGAGGTGGAGAGTGAACTGGTGGTGGAGGTGACTTAT
* * *
1153228 AAACATATGGTGGAGGTGGGGAGTGGACGGTGGTGGTGGAGACTTGTAAGCATATGGTGGAGGTG
66 AGATATATGGAGGAGGTGGGGAGTGGAC-GTGGTGGTGGAGACTTGTAAGCATATGGTGGAGGTG
*
1153293 GGGAGTGAATCGG
130 GGGAATGAATCGG
* * * * * * * * *
1153306 TGGTGGTGGAGACTTGTAAATGTAAGGTGGGGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
1 TGGTGGAGGTGACTTGTAGATATAAGGTGGAGGTGGAGAGTGAACTGGTGGTGGAGGTGACTTAT
* * *
1153371 AGATATATGGAGAAGGTGGGGAGTGAACTGGCGGTGGTGGAGACTT
66 AGATATATGGAGGAGGTGGGGAGTGGAC--GTGGTGGTGGAGACTT
1153417 ATAAATGTAA
Statistics
Matches: 213, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
140 79 0.37
142 39 0.18
143 79 0.37
144 16 0.08
ACGTcount: A:0.23, C:0.05, G:0.47, T:0.25
Consensus pattern (142 bp):
TGGTGGAGGTGACTTGTAGATATAAGGTGGAGGTGGAGAGTGAACTGGTGGTGGAGGTGACTTAT
AGATATATGGAGGAGGTGGGGAGTGGACGTGGTGGTGGAGACTTGTAAGCATATGGTGGAGGTGG
GGAATGAATCGG
Found at i:1153236 original size:95 final size:95
Alignment explanation
Indices: 1153023--1153421 Score: 448
Period size: 95 Copynumber: 4.2 Consensus size: 95
1153013 TAGGATGTGA
* * * * * * * * *
1153023 TGGTGGAGGTGACTTGTAGATATAAGGAGGAGGTGGAGAGTGTACTGGTGGTGGAGGTGACTTAT
1 TGGTGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
* * *
1153088 AGATATAGGGAGGAGGTGGGGAGTGTAT--
66 AGACATATGGAGGAGGTGGGGAGTGAATGG
* * * *
1153116 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATGAAC-GGTGGTGGAGGTGACTTGT
1 TGGTGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
*
1153180 AGACATATGGTGGAGGTGGGGAGTGAACTGG
66 AGACATATGGAGGAGGTGGGGAGTGAA-TGG
* * * * * *
1153211 TGGTGGTGGAGACTTGTAAACATATGGTGGAGGTGGGGAGTGGAC-GGTGGTGGTGGAGACTTGT
1 TGGTGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
*
1153275 A-AGCATATGGTGGAGGTGGGGAGTGAATCGG
66 AGA-CATATGGAGGAGGTGGGGAGTGAAT-GG
** *
1153306 TGGTGGTGGAGACTTGTAAATGTAAGGTGGGGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
1 TGGTGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
* *
1153371 AGATATATGGAGAAGGTGGGGAGTGAACTGG
66 AGACATATGGAGGAGGTGGGGAGTGAA-TGG
* *
1153402 CGGTGGTGGAGACTTATAAA
1 TGGTGGTGGAGACTTGTAAA
1153422 TGTAAGGAGG
Statistics
Matches: 265, Mismatches: 33, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
92 41 0.15
93 38 0.14
94 2 0.01
95 124 0.47
96 58 0.22
97 2 0.01
ACGTcount: A:0.23, C:0.05, G:0.46, T:0.25
Consensus pattern (95 bp):
TGGTGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAATGGACGGGTGGTGGAGGTGACTTAT
AGACATATGGAGGAGGTGGGGAGTGAATGG
Found at i:1153419 original size:48 final size:48
Alignment explanation
Indices: 1153023--1153416 Score: 397
Period size: 48 Copynumber: 8.3 Consensus size: 48
1153013 TAGGATGTGA
* * * * * * *
1153023 TGGTGGAGGTGACTTGTAGATATAAGGAGGAGGTGGAGAGTGTACTGG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
* * * * * * *
1153071 TGGTGGAGGTGACTTATAGATATAGGGAGGAGGTGGGGAGTGTA-T--
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
* *
1153116 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATGAAC-GG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
* *
1153163 TGGTGGAGGTGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
* *
1153211 TGGTGGTGGAGACTTGTAAACATATGGTGGAGGTGGGGAGTGGAC-GG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
1153258 TGGTGGTGGAGACTTGTA-AGCATATGGTGGAGGTGGGGAGTGAA-TCGG
1 TGGTGGTGGAGACTTGTAGA-CATATGGTGGAGGTGGGGAGTGAACT-GG
* ** * * * * * *
1153306 TGGTGGTGGAGACTTGTAAATGTAAGGTGGGGGTGGTGAATGGACGGG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
* * * * * *
1153354 TGGTGGAGGTGACTTATAGATATATGGAGAAGGTGGGGAGTGAACTGG
1 TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
*
1153402 CGGTGGTGGAGACTT
1 TGGTGGTGGAGACTT
1153417 ATAAATGTAA
Statistics
Matches: 292, Mismatches: 45, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
45 35 0.12
46 1 0.00
47 85 0.29
48 170 0.58
49 1 0.00
ACGTcount: A:0.23, C:0.05, G:0.47, T:0.25
Consensus pattern (48 bp):
TGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGG
Found at i:1153510 original size:48 final size:48
Alignment explanation
Indices: 1153451--1153960 Score: 432
Period size: 48 Copynumber: 10.7 Consensus size: 48
1153441 ATGCTTTGGT
* * *
1153451 GGAGGAGGTGGGGAATGGACTGGCGGTGGTGGAGACTTGTAGACATAT
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* ** * **
1153499 GGTGGAGGTGG-GAATAAACTGGTGGTGGTGGAGACTTATAGATGTAA
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * * * * *
1153546 GGAGGTGGTGGTGAAT-G-CTTGGTGGAGGAGGTGACTTGTAAACATAA
1 GGAGGAGGTGGAGAATGGAC-TGGTGGTGGTGGAGACTTGTAGACATAA
* * *
1153593 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATAT
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * * * * **
1153641 GGTGGAGGTGGGGAATGAACTGGTGGTGGTGGAGACTTATAAATGTAA
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * * *** * * * *
1153689 GGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAA
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * *
1153737 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATAT
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * * **
1153785 GGTGGAGGTGGAGAATGAACTGGTGGTGGTGGAGACTTATAGATGTAA
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * * *** * * * * *
1153833 GGAGGTGGCGGTGAATGCTTTGGTAGAGGAGGTGACTTGTAAACATAA
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * *
1153881 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATAT
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
* * ***
1153929 GGTGGAGGTGGGGAAAAAACTGGTGGTGGTGG
1 GGAGGAGGTGGAGAATGGACTGGTGGTGGTGG
1153961 TGAATGCTTT
Statistics
Matches: 351, Mismatches: 107, Indels: 8
0.75 0.23 0.02
Matches are distributed among these distances:
46 1 0.00
47 72 0.21
48 277 0.79
49 1 0.00
ACGTcount: A:0.25, C:0.07, G:0.45, T:0.23
Consensus pattern (48 bp):
GGAGGAGGTGGAGAATGGACTGGTGGTGGTGGAGACTTGTAGACATAA
Found at i:1153559 original size:119 final size:119
Alignment explanation
Indices: 1153337--1153578 Score: 342
Period size: 119 Copynumber: 2.0 Consensus size: 119
1153327 GTAAGGTGGG
* * * * * *
1153337 GGTGGTGAATGGACGGGTGGTGGAGGTGACTTATAGATATATGGAGAAGGTGGGGAGTGAACTGG
1 GGTGGGGAATGGACGGGCGGTGGAGGAGACTTATAGACATATGGAGAAGGTGGGGAATAAACTGG
1153402 CGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGA
66 CGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGC-TTGGTGGAGGA
* * * * *
1153457 GGTGGGGAATGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGT-GGGAATAAACTGG
1 GGTGGGGAATGGACGGGCGGTGGAGGAGACTTATAGACATATGGAGAAGGTGGGGAATAAACTGG
* * *
1153521 TGGTGGTGGAGACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTGGTGGAGGA
66 CGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGCTTGGTGGAGGA
1153575 GGTG
1 GGTG
1153579 ACTTGTAAAC
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 15 0.14
119 51 0.47
120 42 0.39
ACGTcount: A:0.23, C:0.06, G:0.47, T:0.24
Consensus pattern (119 bp):
GGTGGGGAATGGACGGGCGGTGGAGGAGACTTATAGACATATGGAGAAGGTGGGGAATAAACTGG
CGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGCTTGGTGGAGGA
Found at i:1153623 original size:358 final size:357
Alignment explanation
Indices: 1153117--1154178 Score: 921
Period size: 358 Copynumber: 2.8 Consensus size: 357
1153107 GGAGTGTATT
* * *
1153117 GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATGAACGGTGGTGGAGGTGACTTGTAG
1 GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATAAACGGTGGTGGAGGAGACTTATAG
* * * * * * *
1153182 ACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACTTGTAAACATATGGTGGAGGTGG
66 ACATAAGGAGGAGGTGGGGAATG-ACTGGTGGAGGAGGAGACTTGTAAACATAAGGAGGAGGTGG
* * *
1153247 GGAGTGGACGGTGGTGGTGGAGACTTGTA-AGCATATGGTGGAGGTGGGGAGTGAA-TCGGTGGT
130 AGAGTGGACGGCGGTGGTGGAGACTTGTAGA-CATATGGTGGAGGTGGGGAATGAACT-GGTGGT
* * * * * * *
1153310 GGTGGAGACTTGTAAATGTAAGGTGGGGGTGGTGAATGGACGGGTGGTGGAGGTGACTTATAGAT
193 GGTGGAGACTTATAAATGTAAGGAGGGGGCGGTGAATGCACGGGTGGAGGAGGTGACTTATAAAC
* *
1153375 ATATGGAGAAGGTGGGGAGTGAACTGGCGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTG
258 ATAAGGAGAAGGTGGAGAGTGAACTGGCGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTG
1153440 AATGCTTTGGTGGAGGAGGTGGGGAATGGACTGGC
323 AATGCTTTGGTGGAGGAGGTGGGGAATGGACTGGC
*
1153475 GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGG-GAATAAACTGGTGGTGGTGGAGACTTATA
1 GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATAAAC-GGTGGTGGAGGAGACTTATA
** * * *
1153539 GATGTAAGGAGGTGGTGGTGAATG-CTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTG
65 GACATAAGGAGGAGGTGGGGAATGAC-TGGTGGAGGAGGAGACTTGTAAACATAAGGAGGAGGTG
1153603 GAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATGAACTGGTGGT
129 GAGAGTGGAC-GGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATGAACTGGTGGT
* *** *
1153668 GGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAAC
193 GGTGGAGACTTATAAATGTAAGGAGGGGGCGGTGAATGCACGGGTGGAGGAGGTGACTTATAAAC
* * *
1153733 ATAAGGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGAG
258 ATAAGGAGAAGGTGGAGAGTGAACTGGCGGTGGTGGAGAC-T-TATA-A-AT-GT--A-----AG
* * * * *** *
1153798 AATGAACTGGTGGTGGTGGA-GACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGT
311 ---G-A--GGTGGCGGTGAATG-CTT-T-GGTG-GAGGAGGT-G-GG-GAATGGACTGGC
* * * * * * * * * ** * * *
1153857 AGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTA
1 GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATAAAC-GGTGGTGGAGGAGACTTATA
* * *
1153922 GACATATGGTGGAGGTGGGGAAAAAACTGGTGGTGGTGGTGAATGCTTTGGTGGAGGAGGTGACT
65 GACATAAGGAGGAGGTGGGG----AA-------------TG-A--C--TGGTGGAGGAGGAGACT
*
1153987 TGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGT-GTGGAGACTTGTAGACATATGGTGGA
108 TGTAAACATAAGGAGGAGGTGGAGAGTGGAC-GGCGGTGGTGGAGACTTGTAGACATATGGTGGA
* * * * ***
1154051 GGTGGGGAGTGGACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGAGGCGGTGAATGCTTTGG
172 GGTGGGGAATGAACTGGTGGTGGTGGAGACTTATAAATGTAAGGAGGGGGCGGTGAATGCACGGG
* * * * *
1154116 TGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGATTGGCGGTGGTGGAGACTT
237 TGGAGGAGGTGACTTATAAACATAAGGAGAAGGTGGAGAGTGAACTGGCGGTGGTGGAGACTT
1154179 GTAGACATAT
Statistics
Matches: 582, Mismatches: 69, Indels: 62
0.82 0.10 0.09
Matches are distributed among these distances:
356 1 0.00
357 49 0.08
358 206 0.35
359 3 0.01
360 3 0.01
361 1 0.00
362 2 0.00
363 2 0.00
365 1 0.00
370 2 0.00
373 1 0.00
374 1 0.00
375 1 0.00
376 13 0.02
377 1 0.00
378 3 0.01
379 7 0.01
380 1 0.00
381 2 0.00
382 36 0.06
383 38 0.07
387 2 0.00
400 2 0.00
402 1 0.00
403 1 0.00
404 147 0.25
405 55 0.09
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.24
Consensus pattern (357 bp):
GGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAATAAACGGTGGTGGAGGAGACTTATAG
ACATAAGGAGGAGGTGGGGAATGACTGGTGGAGGAGGAGACTTGTAAACATAAGGAGGAGGTGGA
GAGTGGACGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATGAACTGGTGGTGGT
GGAGACTTATAAATGTAAGGAGGGGGCGGTGAATGCACGGGTGGAGGAGGTGACTTATAAACATA
AGGAGAAGGTGGAGAGTGAACTGGCGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAAT
GCTTTGGTGGAGGAGGTGGGGAATGGACTGGC
Found at i:1153970 original size:117 final size:116
Alignment explanation
Indices: 1153836--1154076 Score: 410
Period size: 117 Copynumber: 2.1 Consensus size: 116
1153826 GATGTAAGGA
* *
1153836 GGTGGCGGTGAATGCTTTGGTAGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGAGAGTGGAC
1 GGTGGTGGTGAATGCTTTGGTAGAGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGAC
1153901 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAAAAAACTGGT
66 TGGCGGT-GTGGAGACTTGTAGACATATGGTGGAGGTGGGGAAAAAACTGGT
*
1153953 GGTGGTGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGAC
1 GGTGGTGGTGAATGCTTTGGTAGAGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGAC
****
1154018 TGGCGGTGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGT
66 TGGCGGTGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAAAAAACTGGT
1154069 GGTGGTGG
1 GGTGGTGG
1154077 AGACTTATAG
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
116 48 0.41
117 69 0.59
ACGTcount: A:0.23, C:0.07, G:0.46, T:0.23
Consensus pattern (116 bp):
GGTGGTGGTGAATGCTTTGGTAGAGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGAC
TGGCGGTGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAAAAAACTGGT
Found at i:1153983 original size:144 final size:144
Alignment explanation
Indices: 1153451--1153960 Score: 925
Period size: 144 Copynumber: 3.6 Consensus size: 144
1153441 ATGCTTTGGT
* *
1153451 GGAGGAGGTGGGGAATGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGT-GGGAATA
1 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATA
*
1153515 AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGTGGTGAATGC-TTGGTGGAGGAGGTG
66 AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTG
1153579 ACTTGTAAACATAA
131 ACTTGTAAACATAA
*
1153593 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATG
1 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATA
*
1153658 AACTGGTGGTGGTGGAGACTTATAAATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTG
66 AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTG
1153723 ACTTGTAAACATAA
131 ACTTGTAAACATAA
* *
1153737 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGAGAATG
1 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATA
*
1153802 AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTAGAGGAGGTG
66 AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTG
1153867 ACTTGTAAACATAA
131 ACTTGTAAACATAA
*
1153881 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAAAA
1 GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATA
1153946 AACTGGTGGTGGTGG
66 AACTGGTGGTGGTGG
1153961 TGAATGCTTT
Statistics
Matches: 355, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
142 55 0.15
143 53 0.15
144 247 0.70
ACGTcount: A:0.25, C:0.07, G:0.45, T:0.23
Consensus pattern (144 bp):
GGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATA
AACTGGTGGTGGTGGAGACTTATAGATGTAAGGAGGTGGCGGTGAATGCTTTGGTGGAGGAGGTG
ACTTGTAAACATAA
Found at i:1154100 original size:48 final size:48
Alignment explanation
Indices: 1153983--1154940 Score: 740
Period size: 48 Copynumber: 20.0 Consensus size: 48
1153973 TGGAGGAGGT
* * * *
1153983 GACTTGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGT-GTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* *
1154030 GACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* ** * * * *** * * *
1154078 GACTTATAGATGTAAGGAGGAGGCGGTGAATGCTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154126 GACTTGTAAACATAAGGAGGAGGTGGGGAGTGGATTGGCGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * * **
1154174 GACTTGTAGACATATGGTGGAGGTGGGGAATAAACTGGTGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* ** * * * *** * * *
1154222 GACTTATAGATGTAAGGAGGTGGTGGTGAATGCTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154270 GACTTGTAAACATAAGGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* *
1154318 GACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* ** ** * * *** * * *
1154366 GACTTATAGATGTAAGGAGGAGGCAGTGAATGCTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154414 GACTTGTAAACATAAGGAGGAGGTGGGGAGTGGATTGGCGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154462 GACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * ** * * ** * **** * * *
1154510 GACTTATAAATGTAAGGAGGTGGCGATGAATATTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * * * *
1154558 GACTTATAAACATAAGGAGGAGGCGGGGAGTGGACTGGTGGTGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * * *
1154606 GACTTGTAAACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* ** * * * * *** * * *
1154654 GACTTATAGATGTAAGGAGGTGGCGGTGAATGTTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* *
1154702 GACTTGTAAACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGAGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154750 GACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * *
1154798 GACTTGTAGACATATGGTGGAGGTGGGGAGTGAAC---TGGTGGTGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
* * ** * * * * * *
1154843 GACTTATAAATGTAAGGAGGTGGTGGTGAAT--ACTTTGGTGGAGGAGGT
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGAC--TGGTGGTGGTGGA
* * * ** *
1154891 GACATGTAAACATAAGGAGGAGGTGGGGAATAAACTGGTGGTGGAGGA
1 GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
1154939 GA
1 GA
1154941 TTTATATATG
Statistics
Matches: 702, Mismatches: 201, Indels: 15
0.76 0.22 0.02
Matches are distributed among these distances:
43 2 0.00
45 31 0.04
47 36 0.05
48 631 0.90
50 2 0.00
ACGTcount: A:0.25, C:0.06, G:0.45, T:0.24
Consensus pattern (48 bp):
GACTTGTAGACATAAGGAGGAGGTGGGGAGTGGACTGGTGGTGGTGGA
Found at i:1154121 original size:116 final size:116
Alignment explanation
Indices: 1153859--1154079 Score: 318
Period size: 116 Copynumber: 1.9 Consensus size: 116
1153849 GCTTTGGTAG
* * *
1153859 AGGAGGTGACTTGTAAACATAAGGAGGAGGTGGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGA
1 AGGAGGAGACGTGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGA
* * *
1153924 CATATGGTGGAGGTGGGGAAAAAACTGGTGGTGGTGGTGAATGCTTTGGTGG
66 CATATGGTGGAGGTGGGGAAAAAACTGGTGGTGGTGGAGAA-GCTTTGATGA
* *
1153976 AGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGT-GTGGAGACTTGTAGA
1 AGGAGGAGACGTGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGA
****
1154040 CATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGA
66 CATATGGTGGAGGTGGGGAAAAAACTGGTGGTGGTGGAGA
1154080 CTTATAGATG
Statistics
Matches: 98, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 50 0.51
117 48 0.49
ACGTcount: A:0.25, C:0.07, G:0.46, T:0.22
Consensus pattern (116 bp):
AGGAGGAGACGTGTAAACATAAGGAGGAGGTAGAGAGTGGACTGGCGGTGGTGGAGACTTGTAGA
CATATGGTGGAGGTGGGGAAAAAACTGGTGGTGGTGGAGAAGCTTTGATGA
Found at i:1154235 original size:144 final size:144
Alignment explanation
Indices: 1153953--1154807 Score: 1433
Period size: 144 Copynumber: 5.9 Consensus size: 144
1153943 AAAAACTGGT
* * *
1153953 GGTGGTGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTAGAGAGTGGAC
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
*
1154018 TGGCGGT-GTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
1154082 TATAGATGTAAGGA
131 TATAGATGTAAGGA
* *
1154096 GGAGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAT
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
* *
1154161 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAATAAACTGGTGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
1154226 TATAGATGTAAGGA
131 TATAGATGTAAGGA
* *
1154240 GGTGGTGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGAGAGTGGAC
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
*
1154305 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGTGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
1154370 TATAGATGTAAGGA
131 TATAGATGTAAGGA
* * *
1154384 GGAGGCAGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAT
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
1154449 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
*
1154514 TATAAATGTAAGGA
131 TATAGATGTAAGGA
* ** * *
1154528 GGTGGCGATGAATATTTTGGTGGAGGAGGTGACTTATAAACATAAGGAGGAGGCGGGGAGTGGAC
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
* * * *
1154593 TGGTGGTGGAGGTGACTTGTAAACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
1154658 TATAGATGTAAGGA
131 TATAGATGTAAGGA
*
1154672 GGTGGCGGTGAATGTTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
1 GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
* * * *
1154737 TGGTGGTGGAGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGGACTGGCGGTGGTGGAGACT
66 TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
*
1154802 TGTAGA
131 TATAGA
1154808 CATATGGTGG
Statistics
Matches: 667, Mismatches: 44, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
143 67 0.10
144 600 0.90
ACGTcount: A:0.24, C:0.06, G:0.46, T:0.24
Consensus pattern (144 bp):
GGTGGCGGTGAATGCTTTGGTGGAGGAGGTGACTTGTAAACATAAGGAGGAGGTGGGGAGTGGAC
TGGCGGTGGTGGAGACTTGTAGACATATGGTGGAGGTGGGGAGTGAACTGGTGGTGGTGGAGACT
TATAGATGTAAGGA
Found at i:1154647 original size:24 final size:24
Alignment explanation
Indices: 1154576--1154649 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 24
1154566 AACATAAGGA
* *
1154576 GGAGGCGGGGAGTGGACTGGTGGT
1 GGAGGTGGGGAGTGAACTGGTGGT
**** * *
1154600 GGAGGTGACTTGTAAACAT-ATGGT
1 GGAGGTGGGGAGTGAAC-TGGTGGT
1154624 GGAGGTGGGGAGTGAACTGGTGGT
1 GGAGGTGGGGAGTGAACTGGTGGT
1154648 GG
1 GG
1154650 TGGAGACTTA
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.19, C:0.07, G:0.53, T:0.22
Consensus pattern (24 bp):
GGAGGTGGGGAGTGAACTGGTGGT
Found at i:1154747 original size:24 final size:24
Alignment explanation
Indices: 1154720--1154843 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 24
1154710 AACATAAGGA
1154720 GGAGGTGGGGAGTGGACTGGTGGT
1 GGAGGTGGGGAGTGGACTGGTGGT
* **** * *
1154744 GGAGGAGACTTGTAGACAT-ATGGT
1 GGAGGTGGGGAGTGGAC-TGGTGGT
*
1154768 GGAGGTGGGGAGTGGACTGGCGGT
1 GGAGGTGGGGAGTGGACTGGTGGT
* * **** * *
1154792 GGTGGAGACTTGTAGACAT-ATGGT
1 GGAGGTGGGGAGTGGAC-TGGTGGT
*
1154816 GGAGGTGGGGAGTGAACTGGTGGT
1 GGAGGTGGGGAGTGGACTGGTGGT
1154840 GGAG
1 GGAG
1154844 ACTTATAAAT
Statistics
Matches: 63, Mismatches: 33, Indels: 8
0.61 0.32 0.08
Matches are distributed among these distances:
23 2 0.03
24 59 0.94
25 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.52, T:0.22
Consensus pattern (24 bp):
GGAGGTGGGGAGTGGACTGGTGGT
Found at i:1154767 original size:27 final size:27
Alignment explanation
Indices: 1154737--1154823 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
1154727 GGGAGTGGAC
*
1154737 TGGTGGTGGAGGAGACTTGTAGACATA
1 TGGTGGTGGTGGAGACTTGTAGACATA
* * *
1154764 TGGTGGAGGTGGGGA---GTGGAC---
1 TGGTGGTGGTGGAGACTTGTAGACATA
*
1154785 TGGCGGTGGTGGAGACTTGTAGACATA
1 TGGTGGTGGTGGAGACTTGTAGACATA
*
1154812 TGGTGGAGGTGG
1 TGGTGGTGGTGG
1154824 GGAGTGAACT
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
21 12 0.27
24 10 0.23
27 22 0.50
ACGTcount: A:0.20, C:0.07, G:0.49, T:0.24
Consensus pattern (27 bp):
TGGTGGTGGTGGAGACTTGTAGACATA
Found at i:1161792 original size:18 final size:17
Alignment explanation
Indices: 1161738--1161786 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1161728 TTGGACTCCT
* *
1161738 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
1161756 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
1161774 AGTGCATTCGATG
1 AGTGCA-TCGATG
1161787 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1161871 original size:64 final size:64
Alignment explanation
Indices: 1161737--1161946 Score: 210
Period size: 64 Copynumber: 3.3 Consensus size: 64
1161727 GTTGGACTCC
* * *
1161737 TAGTGCATCGGTGCACT-AAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA--AAATAG
1 TAGTGCATCGATGCA-TGAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAAT--
*
1161799 CC
63 CA
* ** * *
1161801 TGGTGCATCGATGCATGAATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA
1 TAGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCA
* * * * * * *
1161865 AAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCAGTCGATGTTTCAATTTATTCA
1 TAGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCA
*
1161929 TTGATGCATCGATGCATG
1 TAG-TGCATCGATGCATG
1161947 GTATTGATGC
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 101 0.84
65 14 0.12
66 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
TAGTGCATCGATGCATGAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATCA
Found at i:1161890 original size:19 final size:18
Alignment explanation
Indices: 1161865--1161914 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
1161855 AATTAAATCA
1161865 AAGTGCATCGATGCATGG
1 AAGTGCATCGATGCATGG
*
1161883 AGAGTGCATCGGTGCATGG
1 A-AGTGCATCGATGCATGG
1161902 AA-TGCAGTCGATG
1 AAGTGCA-TCGATG
1161915 TTTCAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 17 0.61
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (18 bp):
AAGTGCATCGATGCATGG
Found at i:1164527 original size:24 final size:23
Alignment explanation
Indices: 1164456--1164533 Score: 81
Period size: 24 Copynumber: 3.4 Consensus size: 23
1164446 CATGATCTTG
* *
1164456 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGTACATTCAAGGGA
* *
1164479 TGCATCG--GTGCA-TCATGCGGA
1 TGCATCGATGTACATTCAAG-GGA
1164500 TGCATCGATGTACATTCAAAGGGA
1 TGCATCGATGTACATTC-AAGGGA
1164524 TGCATCGATG
1 TGCATCGATG
1164534 CATTGTTAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.27
23 11 0.25
24 15 0.34
25 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (23 bp):
TGCATCGATGTACATTCAAGGGA
Found at i:1164548 original size:44 final size:42
Alignment explanation
Indices: 1164434--1164555 Score: 104
Period size: 44 Copynumber: 2.8 Consensus size: 42
1164424 AAACCCGACC
*
1164434 GATGCATCGATGCA-TGATCTTGTGCATCGATGCACATTCAAGG
1 GATGCATCGATGCATTG-T-TAGTGCATCGATGCACATTCAAGG
* * ** *
1164477 CATGCATCGGTGCATCATG-CGGATGCATCGATGTACATTCAAAGG
1 GATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAGG
*
1164522 GATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GATGCATCGATGCATTGTT-AGTGCATCGATGCA
1164556 TTAAGCACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
43 15 0.25
44 26 0.43
45 18 0.30
46 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
GATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAGG
Found at i:1170313 original size:18 final size:17
Alignment explanation
Indices: 1170261--1170307 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
1170251 GTGGACTCCT
*
1170261 AGTGCATCGGTGCACT-A
1 AGTGCATCGATGCA-TGA
1170278 AGTGCATCGATGCATGA
1 AGTGCATCGATGCATGA
1170295 AGTGCATTCGATG
1 AGTGCA-TCGATG
1170308 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 20 0.74
18 6 0.22
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:1170392 original size:64 final size:65
Alignment explanation
Indices: 1170324--1170467 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 65
1170314 AAATAGCCTG
** * *
1170324 GTGCATCGATGCATGAATTGTGCATCGATGCATCAAATTCATTCGATGTTTTAATTAAATCA-GA
1 GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATACAGTCGATGTTTTAATTAAATCATGA
* * ** * *
1170388 GTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATACAGTCGATGTTTTAATTTATTCATTG
1 GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATACAGTCGATGTTTTAATTAAATCA-TG
1170453 A
65 A
1170454 -TGCATCGATGCATG
1 GTGCATCGATGCATG
1170468 GTATTGATGC
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 52 0.76
65 14 0.21
66 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATACAGTCGATGTTTTAATTAAATCATGA
Found at i:1170409 original size:19 final size:19
Alignment explanation
Indices: 1170385--1170423 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1170375 TAATTAAATC
1170385 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1170404 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1170423 A
1 A
1170424 ATACAGTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1184508 original size:37 final size:36
Alignment explanation
Indices: 1184466--1184539 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
1184456 GTTAGAAAAT
*
1184466 ATTTATAT-ATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATAATTTT-TTTAAAAAATTTAAAAT-ATAAA
*
1184503 ATTTATATAATTTTTTTACAAAATTTAAAATATAAA
1 ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
1184539 A
1 A
1184540 AAGTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 6 0.18
37 23 0.68
38 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTATATAATTTTTTTAAAAAATTTAAAATATAAA
Found at i:1186678 original size:12 final size:12
Alignment explanation
Indices: 1186661--1186698 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
1186651 AATTTTATTT
1186661 TTTAAAA-TTATA
1 TTTAAAATTTA-A
1186673 TTTAAAATTTAA
1 TTTAAAATTTAA
1186685 TTT-AAATTTAA
1 TTTAAAATTTAA
1186696 TTT
1 TTT
1186699 TAATATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 11 0.44
13 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTAAAATTTAA
Found at i:1188768 original size:10 final size:10
Alignment explanation
Indices: 1188753--1188783 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1188743 ATTAATCAAA
1188753 AATCTGACCC
1 AATCTGACCC
1188763 AATCTGACCC
1 AATCTGACCC
*
1188773 AATCCGACCC
1 AATCTGACCC
1188783 A
1 A
1188784 CGTATATCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.42, G:0.10, T:0.16
Consensus pattern (10 bp):
AATCTGACCC
Found at i:1188946 original size:15 final size:15
Alignment explanation
Indices: 1188923--1188956 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1188913 TCTATGCCTC
*
1188923 TTAATTAATATGTAA
1 TTAAATAATATGTAA
1188938 TTAAATAATATGTAA
1 TTAAATAATATGTAA
1188953 TTAA
1 TTAA
1188957 TTCCAGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
TTAAATAATATGTAA
Found at i:1194449 original size:16 final size:17
Alignment explanation
Indices: 1194420--1194452 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1194410 TATCACCGAC
*
1194420 AAAATTTTTACTATTCA
1 AAAAATTTTACTATTCA
1194437 AAAAATTTT-CTATTCA
1 AAAAATTTTACTATTCA
1194453 CGTGAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATTTTACTATTCA
Found at i:1200365 original size:15 final size:15
Alignment explanation
Indices: 1200339--1200388 Score: 64
Period size: 16 Copynumber: 3.2 Consensus size: 15
1200329 ATAGTGTGAA
1200339 AAAAATTGAAAAGATG
1 AAAAATT-AAAAGATG
*
1200355 AAAAATTAAAAGTTG
1 AAAAATTAAAAGATG
*
1200370 AAAAAATAAAAAGATG
1 -AAAAATTAAAAGATG
1200386 AAA
1 AAA
1200389 TTTTCTTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.33
16 20 0.67
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (15 bp):
AAAAATTAAAAGATG
Found at i:1200365 original size:23 final size:22
Alignment explanation
Indices: 1200339--1200381 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1200329 ATAGTGTGAA
*
1200339 AAAAATTGAAAAGATGAAAAATT
1 AAAAATTGAAAAAAT-AAAAATT
*
1200362 AAAAGTTGAAAAAATAAAAA
1 AAAAATTGAAAAAATAAAAA
1200382 GATGAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.19
Consensus pattern (22 bp):
AAAAATTGAAAAAATAAAAATT
Found at i:1203225 original size:30 final size:30
Alignment explanation
Indices: 1203190--1203263 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
1203180 GGATGATGGA
*
1203190 GTTGGTGTTGAAAAAAACGGGATGGTGGGT
1 GTTGGTGTTGAAAAAAACGGGATGGTAGGT
* *
1203220 GTTGGTGTTG-AAAAAATGGGGTGGTAGGT
1 GTTGGTGTTGAAAAAAACGGGATGGTAGGT
1203249 GTTGGTGTTGAAAAA
1 GTTGGTGTTGAAAAA
1203264 TGGTGTTTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.27, C:0.01, G:0.42, T:0.30
Consensus pattern (30 bp):
GTTGGTGTTGAAAAAAACGGGATGGTAGGT
Found at i:1203630 original size:36 final size:30
Alignment explanation
Indices: 1203548--1203629 Score: 164
Period size: 30 Copynumber: 2.7 Consensus size: 30
1203538 GTTCATGGAC
1203548 AATAAATAAACGAACACGAACATTTTCAAA
1 AATAAATAAACGAACACGAACATTTTCAAA
1203578 AATAAATAAACGAACACGAACATTTTCAAA
1 AATAAATAAACGAACACGAACATTTTCAAA
1203608 AATAAATAAACGAACACGAACA
1 AATAAATAAACGAACACGAACA
1203630 CAATATTAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (30 bp):
AATAAATAAACGAACACGAACATTTTCAAA
Found at i:1203659 original size:60 final size:59
Alignment explanation
Indices: 1203548--1203683 Score: 134
Period size: 60 Copynumber: 2.3 Consensus size: 59
1203538 GTTCATGGAC
* **
1203548 AATAAATAAACGAACACGAACATTTTCAAAAATAAATAAACGAACACGAACATTTTCAAA-
1 AATAAATAAACGAACACGAACATATTCAAAAAT-AATAAACGAACACGAACACCTT-AAAT
* * * *
1203608 AATAAATAAACGAACACGAACACAATATT-AAAAAT-TTAAATGAATATGAACACCTTAAAT
1 AATAAATAAACGAACACG-A-AC-ATATTCAAAAATAATAAACGAACACGAACACCTTAAAT
*
1203668 AATAAACAAACGAACA
1 AATAAATAAACGAACA
1203684 TAAACATAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 3 0.05
60 48 0.75
61 1 0.02
62 8 0.12
63 4 0.06
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.20
Consensus pattern (59 bp):
AATAAATAAACGAACACGAACATATTCAAAAATAATAAACGAACACGAACACCTTAAAT
Found at i:1222280 original size:17 final size:16
Alignment explanation
Indices: 1222254--1222288 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
1222244 TATTTAGACG
1222254 AAAAATCATTAATTAC
1 AAAAATCATTAATTAC
1222270 AAAACATCATTAATTAC
1 AAAA-ATCATTAATTAC
1222287 AA
1 AA
1222289 TGTTGAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATCATTAATTAC
Found at i:1223685 original size:19 final size:19
Alignment explanation
Indices: 1223663--1223699 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1223653 ATACAATAAA
1223663 ATAATTAAAATAATACAAT
1 ATAATTAAAATAATACAAT
*
1223682 ATAATTTAAATAATACAA
1 ATAATTAAAATAATACAA
1223700 AATTGTACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAATTAAAATAATACAAT
Found at i:1224592 original size:50 final size:51
Alignment explanation
Indices: 1224495--1224594 Score: 116
Period size: 50 Copynumber: 2.0 Consensus size: 51
1224485 CTCTTTGTAA
* ** *
1224495 TAAGGCGCGCCCTCTGCAACGCGCTATACGCTGATTTGGCATTACGTGGGG
1 TAAGGAGCGCCCTCTGCAACGCGCTATACGCTGACATGGCATCACGTGGGG
*
1224546 TAAGGAGCGCCC-CTGCGACGCGCCT-TACGCTGACATGG-ATACACGTGGG
1 TAAGGAGCGCCCTCTGCAACGCG-CTATACGCTGACATGGCAT-CACGTGGG
1224595 TATAACGCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
49 2 0.05
50 27 0.64
51 13 0.31
ACGTcount: A:0.19, C:0.29, G:0.32, T:0.20
Consensus pattern (51 bp):
TAAGGAGCGCCCTCTGCAACGCGCTATACGCTGACATGGCATCACGTGGGG
Found at i:1235758 original size:29 final size:30
Alignment explanation
Indices: 1235701--1235760 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
1235691 CGATGAATAG
1235701 CTGTTTCATACTGATAAACTATTAGAACTAA
1 CTGTTTCATACTGA-AAACTATTAGAACTAA
1235732 CTGTTTCATACTG-AAACTATTAGAACTAA
1 CTGTTTCATACTGAAAACTATTAGAACTAA
1235761 ATCTTGTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 16 0.55
31 13 0.45
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (30 bp):
CTGTTTCATACTGAAAACTATTAGAACTAA
Found at i:1241402 original size:15 final size:15
Alignment explanation
Indices: 1241364--1241399 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
1241354 TGCTGCTGCA
1241364 AAGAAAAGGAAAAAG
1 AAGAAAAGGAAAAAG
1241379 AAGAAAAGGAAAAAG
1 AAGAAAAGGAAAAAG
1241394 -AGAAAA
1 AAGAAAA
1241400 AGGCTGCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAGGAAAAAG
Found at i:1268740 original size:23 final size:22
Alignment explanation
Indices: 1268696--1268740 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1268686 AATCTCATAG
* *
1268696 GGGAACCGATTCTCCCACAGGA
1 GGGAACCGATTCCCCCAAAGGA
1268718 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATTCCCCC-AAAGGA
1268741 AAATTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.29, C:0.31, G:0.27, T:0.13
Consensus pattern (22 bp):
GGGAACCGATTCCCCCAAAGGA
Found at i:1269907 original size:24 final size:24
Alignment explanation
Indices: 1269864--1269916 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1269854 TAAGTGAACC
*
1269864 ATGTG-TTTATATGTATATGAGAT
1 ATGTGATTTATATGTAGATGAGAT
*
1269887 ATGTGATTTATATG-ACGATGAGCT
1 ATGTGATTTATATGTA-GATGAGAT
1269911 ATGTGA
1 ATGTGA
1269917 AAGAACTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
ATGTGATTTATATGTAGATGAGAT
Found at i:1270217 original size:107 final size:106
Alignment explanation
Indices: 1270047--1270267 Score: 345
Period size: 107 Copynumber: 2.1 Consensus size: 106
1270037 CATTCGGGAC
* * * *
1270047 ATATATGTATTCTTTGGAATATGTGTAAAGTCTGGTGAGACACATACTTGATCCTTGGCATATGT
1 ATATATGTATTATTTGGAACATGTGTAAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
1270112 ATATGATTCATAAGGAATGATATGTGGTCCTTCA-GGACATAT
66 ATATGATTCATAAGGAATGATATGTGGTCCTT-ATGGACAT-T
* *
1270154 ATATATGTATTATTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCCTAGTATATGT
1 ATATATGTATTATTTGGAACATGTGTAAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
*
1270219 ATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATT
66 ATATGATTCATAAGGAATGATATGTGGTCCTTATGGACATT
1270260 ATTATATG
1 A-TATATG
1270268 GCACTACGGT
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
106 3 0.03
107 102 0.97
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (106 bp):
ATATATGTATTATTTGGAACATGTGTAAAGTCTGGTGAGACACATACTTGATCCCTAGCATATGT
ATATGATTCATAAGGAATGATATGTGGTCCTTATGGACATT
Found at i:1270300 original size:23 final size:23
Alignment explanation
Indices: 1270267--1270334 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
1270257 ATTATTATAT
1270267 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1270290 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1270313 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
1270335 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1272057 original size:14 final size:15
Alignment explanation
Indices: 1272038--1272067 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1272028 AGATCCAATC
1272038 AGAACAAAAA-AAAA
1 AGAACAAAAACAAAA
1272052 AGAACAAAAACAAAA
1 AGAACAAAAACAAAA
1272067 A
1 A
1272068 CAAGTAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (15 bp):
AGAACAAAAACAAAA
Found at i:1273506 original size:64 final size:64
Alignment explanation
Indices: 1273436--1273611 Score: 343
Period size: 64 Copynumber: 2.8 Consensus size: 64
1273426 AACTTTATAA
1273436 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTCCAG
1 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTCCAG
1273500 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTCCAG
1 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTCCAG
*
1273564 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCA
1 TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCA
1273612 CAATTTGCTC
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 111 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (64 bp):
TTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGTACTCAACAAACAATTTTCCAG
Found at i:1273857 original size:43 final size:43
Alignment explanation
Indices: 1273809--1273953 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
1273799 GGAAGGGGTC
*
1273809 ATCCACGATTTCAACTCCACGATGGAGGATATCGTATCAAC-G
1 ATCCACGATTTCAACTCCACGATGGAGGATATCGTACCAACAG
*
1273851 AATCCAC-AGTTTCAACTCCACGATAGAGGATATCGTACCAACAG
1 -ATCCACGA-TTTCAACTCCACGATGGAGGATATCGTACCAACAG
* * * * * *
1273895 ATCCATGATTTCAACTCCACAATGGAGGATATCGTGCCCATAC
1 ATCCACGATTTCAACTCCACGATGGAGGATATCGTACCAACAG
*
1273938 ATCCACGGTTTCAACT
1 ATCCACGATTTCAACT
1273954 TCACAACGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.01
43 85 0.97
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACGATGGAGGATATCGTACCAACAG
Found at i:1274252 original size:43 final size:43
Alignment explanation
Indices: 1274191--1274285 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
1274181 GCCATCTATA
* *
1274191 ATTTCAACTCCACGACGGAGGATATCGTACCCACGA-ATCCATG
1 ATTTCAACTCCACGACGGAGGATATCATACCCAC-ACATCCACG
*
1274234 ATTTCAACTCCACGACGGAGGATATCATGCCCACACATCCACG
1 ATTTCAACTCCACGACGGAGGATATCATACCCACACATCCACG
*
1274277 GTTTCAACT
1 ATTTCAACT
1274286 TCATGACGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
ATTTCAACTCCACGACGGAGGATATCATACCCACACATCCACG
Found at i:1274576 original size:66 final size:66
Alignment explanation
Indices: 1274463--1274621 Score: 212
Period size: 66 Copynumber: 2.4 Consensus size: 66
1274453 ACTTAACTTG
* * * *
1274463 GATTTCAACTTCTCGATGAAGGATATCCAATTCAAGGTTCAATTTCACGACGAAGGGGACA-TCT
1 GATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGACATTC-
1274527 AC
65 AC
* * * * *
1274529 GATTTCAACTTCACGATGAATGATATCCAATTCGAGGCTCAACTTCACAATGAATGGGTCATTCA
1 GATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGACATTCA
1274594 C
66 C
*
1274595 GATTTCAACTTCACGACGAAGGATATC
1 GATTTCAACTTCACGATGAAGGATATC
1274622 ATGATCATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 79 0.98
67 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (66 bp):
GATTTCAACTTCACGATGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGACATTCA
C
Found at i:1274873 original size:84 final size:84
Alignment explanation
Indices: 1274625--1275418 Score: 813
Period size: 84 Copynumber: 9.5 Consensus size: 84
1274615 GGATATCATG
* * * * * * *
1274625 ATCATTTACAGCTTATCTTAAGGCAAGAAGGGCTATCT-TCTAACAAAAGACCTTCGAGTTCGAT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACCAAAGACCTTCGAGTTCGAT
* *
1274689 TACACTCAGCTCAAATGCAC
65 TATACTCAGCTCAAAGGCAC
* * * * * *
1274709 ATCATTTACAACATAACTCAAGGCTAGAAGGATTATTTGTCAA-CAAAGACCTTTGAGTTCAATT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
1274773 ATACTCAGCTCAAAGGCAC
66 ATACTCAGCTCAAAGGCAC
* * * * * * * * *
1274792 ATCATTTGCAGTATAGCTTAAGTCGAGAAGTGCTATATG-CAAACCAAAGACCTTCGAGTTCGAC
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACCAAAGACCTTCGAGTTCGAT
** *
1274856 TACGCTCAGCTCCAAGGCAC
65 TATACTCAGCTCAAAGGCAC
* * *
1274876 GTCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACATTCGAGTTCGATT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
1274941 ATACTCAGCTCAAAGGCAC
66 ATACTCAGCTCAAAGGCAC
* * * * * * * *
1274960 ATCATTTGCAGTATAGCTTAAGTCGAGAAGTGTTATCTGTCAACCAAAAACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
* *
1275025 ATGCTCAGCTCCAAGGCAC
66 ATACTCAGCTCAAAGGCAC
* * * *
1275044 GTCATTTGCAGCATAACTCAAGGCTAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
** * *
1275109 ACGCTTAGCTCTAAGGCAC
66 ATACTCAGCTCAAAGGCAC
* *
1275128 GTCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
* * *
1275193 ATATTCAGCTCAAAAGCAT
66 ATACTCAGCTCAAAGGCAC
* * * * * * * * * * *
1275212 ATCATTTGCAGTATAGCTTACGTCGAGAAGAGTTATTTGTC-ATCAAATACCTTCGAGATCCGAT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAG-TTCGAT
* * *
1275276 TTTATTCAGCTCCAAGGCAC
65 TATACTCAGCTCAAAGGCAC
** * * * *
1275296 GCCATTTGCAGCATAACTCAAGTCTAGAAGGGTTATCTATCAACAAAAGACCTTTTGAGTTCGAT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACC-TTCGAGTTCGAT
* * *
1275361 TATACTCAGCTTAAAGACAT
65 TATACTCAGCTCAAAGGCAC
* * *
1275381 ATCTTTTGCAACATAACTCAAGGCTAGAAGGATTATCT
1 ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCT
1275419 ACCAACATCA
Statistics
Matches: 577, Mismatches: 126, Indels: 13
0.81 0.18 0.02
Matches are distributed among these distances:
82 1 0.00
83 78 0.14
84 432 0.75
85 61 0.11
86 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (84 bp):
ATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGATT
ATACTCAGCTCAAAGGCAC
Found at i:1275127 original size:252 final size:250
Alignment explanation
Indices: 1274626--1275446 Score: 980
Period size: 252 Copynumber: 3.3 Consensus size: 250
1274616 GATATCATGA
* * * * * *
1274626 TCATTTACAGCTTATCTTAAGGCAAGAAGGGCTATCT-TCTAACAAAAGACCTTCGAGTTCGATT
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACAAAAGACCTTCGAGTTCGATT
* * * ** * * * *
1274690 ACACTCAGCTCAAATGCACATCATTTACAACATAACTCAAGGCTAGAAGGATTATTTGTCAACAA
65 ATACTCAGCTCAAAAGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGG-TTATTTGTCAACAA
* * * * * * * * *
1274755 AGACCTTTGAGTTCAATTATACTCAGCTCAAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
129 AAACCTTCGAGTTCGATTATACTCAGCTCCAAGGCACGTCATTTGCAGCATAACTCAAGTCTAGA
* * * *
1274820 AGTGCTATATGCAAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACG
194 AGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACG
*
1274877 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACATTCGAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTA
* *
1274942 TACTCAGCTCAAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGTGTTATCTGTCAACCAA
66 TACTCAGCTCAAAAGCACATCATTTGCAGTATAGCTTAAGTCGAGAAG-GTTATTTGTCAA-CAA
* * *
1275007 AAACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACGTCATTTGCAGCATAACTCAAGGCTAGA
129 AAACCTTCGAGTTCGATTATACTCAGCTCCAAGGCACGTCATTTGCAGCATAACTCAAGTCTAGA
*
1275072 AGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCACG
194 AGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACG
1275129 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTA
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTA
* * * *
1275194 TATTCAGCTCAAAAGCATATCATTTGCAGTATAGCTTACGTCGAGAAGAGTTATTTGTCATCAAA
66 TACTCAGCTCAAAAGCACATCATTTGCAGTATAGCTTAAGTCGAGAAG-GTTATTTGTCAACAAA
* * * * *
1275259 TACCTTCGAGATCCGATTTTATTCAGCTCCAAGGCACGCCATTTGCAGCATAACTCAAGTCTAGA
130 AACCTTCGAG-TTCGATTATACTCAGCTCCAAGGCACGTCATTTGCAGCATAACTCAAGTCTAGA
* ** * * * ** * **
1275324 AGGGTTATCTATCAACAAAAGACCTTTTGAGTTCGATTATACTCAGCT-TAAAGACATA
194 AGGGCTATCTGCCAACCAAAGACC-TTCGAGTTCGACTACGCTCAGCTCT-AAGGCACG
* * * ** * * *
1275382 TCTTTTGCAACATAACTCAAGGCTAGAAGGATTATCTACCAACATCAAGACTTTTGAGTTCGATT
1 TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACA-AAAGACCTTCGAGTTCGATT
1275447 TCATTCATCT
Statistics
Matches: 493, Mismatches: 70, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
251 117 0.24
252 297 0.60
253 62 0.13
254 17 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (250 bp):
TCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTA
TACTCAGCTCAAAAGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGTTATTTGTCAACAAAA
ACCTTCGAGTTCGATTATACTCAGCTCCAAGGCACGTCATTTGCAGCATAACTCAAGTCTAGAAG
GGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACG
Found at i:1277156 original size:29 final size:27
Alignment explanation
Indices: 1277124--1277185 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 27
1277114 TTTGTTTAGC
*
1277124 TATTTTAATACT-TTAAATTTCTATTTTTT
1 TATTTTAAT-CTCTT-AATTT-TATGTTTT
1277153 TATTTTAATCTCTTAATTTTATGTTTT
1 TATTTTAATCTCTTAATTTTATGTTTT
1277180 TATTTT
1 TATTTT
1277186 GCAGCTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 13 0.42
28 7 0.23
29 11 0.35
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (27 bp):
TATTTTAATCTCTTAATTTTATGTTTT
Found at i:1279257 original size:6 final size:6
Alignment explanation
Indices: 1279246--1279276 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
1279236 TGTAGTCCTG
1279246 GACCTA GACCTA GACCTA GACCTA GACCTA G
1 GACCTA GACCTA GACCTA GACCTA GACCTA G
1279277 TTGAAGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.16
Consensus pattern (6 bp):
GACCTA
Found at i:1285119 original size:65 final size:63
Alignment explanation
Indices: 1285017--1285165 Score: 221
Period size: 65 Copynumber: 2.3 Consensus size: 63
1285007 TGAACTTGTA
* *
1285017 ATGTTTTAAGTTTGTTG-GA-TAAAATTATTATGTTTTATGGTTATTGGATATTAAAATAATT
1 ATGTTTTAAGTTTGTTGATATTAAAATTATTATGTTTTATGGTTACTGGATATTAAAATAATT
* *
1285078 ATGTTTTTAAGTTTGTTGTATATTAAAATTATTATGTTTTATGTTTACTGGATATTGAAATAATT
1 ATG-TTTTAAGTTTGTTG-ATATTAAAATTATTATGTTTTATGGTTACTGGATATTAAAATAATT
1285143 ATGTTTTAAGTTTGTTGGATATT
1 ATGTTTTAAGTTTGTT-GATATT
1285166 GGAATTGTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
61 3 0.04
62 14 0.18
64 19 0.24
65 43 0.54
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (63 bp):
ATGTTTTAAGTTTGTTGATATTAAAATTATTATGTTTTATGGTTACTGGATATTAAAATAATT
Found at i:1285185 original size:31 final size:32
Alignment explanation
Indices: 1285017--1285190 Score: 185
Period size: 32 Copynumber: 5.5 Consensus size: 32
1285007 TGAACTTGTA
1285017 ATGTTTTAAGTTTGTTGGATA---AAATTATT
1 ATGTTTTAAGTTTGTTGGATATTGAAATTATT
* * * * *
1285046 ATGTTTTATGGTTATTGGATATTAAAATAATT
1 ATGTTTTAAGTTTGTTGGATATTGAAATTATT
* *
1285078 ATGTTTTTAAGTTTGTTGTATATTAAAATTATT
1 ATG-TTTTAAGTTTGTTGGATATTGAAATTATT
* ** *
1285111 ATGTTTTATGTTTACTGGATATTGAAATAATT
1 ATGTTTTAAGTTTGTTGGATATTGAAATTATT
* *
1285143 ATGTTTTAAGTTTGTTGGATATTGGAATTGTT
1 ATGTTTTAAGTTTGTTGGATATTGAAATTATT
*
1285175 AT-ATTTAAGTTTGTTG
1 ATGTTTTAAGTTTGTTG
1285191 AGTTTTGGAA
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
29 18 0.15
31 13 0.11
32 61 0.51
33 27 0.23
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (32 bp):
ATGTTTTAAGTTTGTTGGATATTGAAATTATT
Found at i:1285199 original size:31 final size:31
Alignment explanation
Indices: 1285147--1285217 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
1285137 ATAATTATGT
*
1285147 TTTAAGTTTGTTGGATATTGGAATTGTTATA
1 TTTAAGTTTGTTGGATATTGGAAGTGTTATA
* *
1285178 TTTAAGTTTGTT-GAGTTTTGGAAGTGTTATG
1 TTTAAGTTTGTTGGA-TATTGGAAGTGTTATA
1285209 TTCTAAGTT
1 TT-TAAGTT
1285218 GATGGTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 2 0.06
31 27 0.77
32 6 0.17
ACGTcount: A:0.23, C:0.01, G:0.24, T:0.52
Consensus pattern (31 bp):
TTTAAGTTTGTTGGATATTGGAAGTGTTATA
Found at i:1289128 original size:2 final size:2
Alignment explanation
Indices: 1289119--1289155 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1289109 ACACACAATT
*
1289119 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1289156 ACCGAACCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1292116 original size:14 final size:15
Alignment explanation
Indices: 1292070--1292118 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
1292060 ATTATTCTTA
1292070 TAATT-AATATTGATT
1 TAATTGAATATTGA-T
* *
1292085 TAATTTAA-ATTAAT
1 TAATTGAATATTGAT
1292099 TAATTGAATATTGA-
1 TAATTGAATATTGAT
1292113 TAATTG
1 TAATTG
1292119 TTGAATGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 14 0.48
15 13 0.45
16 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (15 bp):
TAATTGAATATTGAT
Found at i:1294132 original size:2 final size:2
Alignment explanation
Indices: 1294125--1294187 Score: 51
Period size: 2 Copynumber: 32.0 Consensus size: 2
1294115 CAAATTCATA
* * *
1294125 AT AT AT AT AT AT AT AT AT AT AT CAGT -T TT A- AT -T AT AT TT AA
1 AT AT AT AT AT AT AT AT AT AT AT -A-T AT AT AT AT AT AT AT AT AT
*
1294166 AT TT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1294188 CGCTTTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
1 3 0.06
2 44 0.90
3 1 0.02
4 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1300519 original size:18 final size:18
Alignment explanation
Indices: 1300496--1300549 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
1300486 GAGGGATTAT
* *
1300496 CAGTGGTCCTTCGAGACA
1 CAGTGGTCATTCGGGACA
* *
1300514 CAGTGGTCTTTTGGGACA
1 CAGTGGTCATTCGGGACA
*
1300532 CAATGGTCATTCGGGACA
1 CAGTGGTCATTCGGGACA
1300550 AATTTCTACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (18 bp):
CAGTGGTCATTCGGGACA
Found at i:1306924 original size:19 final size:19
Alignment explanation
Indices: 1306900--1306952 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
1306890 CGAATGCAAT
1306900 TAGTGCATCGATGCATAAG
1 TAGTGCATCGATGCATAAG
1306919 TAGTGCATCGATGCATAAG
1 TAGTGCATCGATGCATAAG
* *
1306938 GAGTGCATTGATGCA
1 TAGTGCATCGATGCA
1306953 CCCCTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
TAGTGCATCGATGCATAAG
Found at i:1307031 original size:24 final size:24
Alignment explanation
Indices: 1307004--1307060 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
1306994 GCATGGGTAG
1307004 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCACATGTTAAGGGA
1307028 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCACATGTTAAGGGA
1307052 TGCATCGAT
1 TGCATCGAT
1307061 ACACTGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAAGGGA
Found at i:1307952 original size:18 final size:18
Alignment explanation
Indices: 1307835--1307942 Score: 189
Period size: 18 Copynumber: 6.0 Consensus size: 18
1307825 AAGGGACTAT
1307835 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
* *
1307853 TAGTGGTCCTTCGGTACA
1 CAGTGGTCCTTCGGGACA
*
1307871 CAATGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1307889 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1307907 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1307925 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1307943 TAATAGTCCT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 84 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:1316143 original size:18 final size:20
Alignment explanation
Indices: 1316108--1316144 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1316098 CGCGGAATGT
1316108 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
1316128 AAGATTACC-G-GGGAATA
1 AAGATTACCAGTGGGAATA
1316145 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.19
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:1316312 original size:15 final size:15
Alignment explanation
Indices: 1316294--1316324 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1316284 AAATTCTAAA
1316294 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
1316309 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
1316324 T
1 T
1316325 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:1316582 original size:31 final size:31
Alignment explanation
Indices: 1316518--1316582 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1316508 GTTATCTAAG
**
1316518 AATTTTCGAGTCAAGTCGAGCTCCATTTCAT
1 AATTTTCGAGTCAAGTCGAGCTCCAGCTCAT
* *
1316549 AATTTTCGAGTCGAGTCGAG-TCGAGCTCAAT
1 AATTTTCGAGTCAAGTCGAGCTCCAGCTC-AT
1316580 AAT
1 AAT
1316583 ATTTGAGCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (31 bp):
AATTTTCGAGTCAAGTCGAGCTCCAGCTCAT
Found at i:1318741 original size:15 final size:16
Alignment explanation
Indices: 1318715--1318747 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1318705 AAACAGAGGC
*
1318715 AAATATATATAAAGTA
1 AAATATATATAAAATA
1318731 AAATA-ATATAAAATA
1 AAATATATATAAAATA
1318746 AA
1 AA
1318748 GGGGAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATATATATAAAATA
Found at i:1320673 original size:105 final size:105
Alignment explanation
Indices: 1320501--1321466 Score: 1632
Period size: 105 Copynumber: 9.2 Consensus size: 105
1320491 TACCCCCCAC
* * * * *
1320501 TGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATCGTTTATTGACAACCAGCGGTCCCTTCGTCG
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTATTGACAACCAGCGGTCCCTTCGTCG
1320566 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
65 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
*
1320607 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
1320672 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
* * *
1320712 TGTGAAGTTGAGATTGGCTCTGAAATTGATAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
1320777 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
*
1320817 TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1320882 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
* ** * **
1320922 TGTGAAGTTGAAATTGACTCTG--GGTAAGACCTGTTTATTGACAACCAGCGGTCCCTTCGGT-G
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTC-GTCG
1320984 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
65 TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
* * *
1321025 TGTGAAGTTGAGATTGGCTCTGAAATTGATAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
*
1321090 GAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
* *
1321130 TGTGAAGTTGAAATTAGCTCTGAAATTGAAAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1321195 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
1321235 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1321300 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
* * * *
1321340 TGTGAAGTTGAGATTGGCTCTGAAATTGATAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGT
1 TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
1321405 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
66 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
*
1321445 TGTGAAGTTGAAATTGACTCTG
1 TGTGAAGTTGAAATTGGCTCTG
1321467 GGTAAAACCT
Statistics
Matches: 812, Mismatches: 44, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
103 92 0.11
104 4 0.00
105 687 0.85
106 29 0.04
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
Found at i:1321345 original size:523 final size:524
Alignment explanation
Indices: 1320531--1321477 Score: 1743
Period size: 523 Copynumber: 1.8 Consensus size: 524
1320521 TGGAACTGGG
*
1320531 AAATCGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATCGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
* * *
1320596 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAAAAATGTTTATTGACAACCAGCGGT
*
1320661 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAGAT
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAAT
* *
1320726 TGGCTCTGAAATTGATAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
196 TGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* *
1320791 GTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTA
261 GTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTA
1320856 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
326 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
*
1320921 TTGTGAAGTTGAAATTGACTCTGGGTAAGACCTGTTTATTGACAACCAGCGGTCCCTTCGGTGTG
391 TTGTGAAGTTGAAATTGACTCTGGGTAAAACCTGTTTATTGACAACCAGCGGTCCCTTCGGTGTG
1320986 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAAAT
456 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAAAT
1321051 TGAT
521 TGAT
*
1321055 AAAT-GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
1 AAATCGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
1321119 ATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAAAAATGTTTATTGACAACCAGCGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAAAAATGTTTATTGACAACCAGCGGT
*
1321184 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
131 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAAT
1321249 TGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
196 TGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
* * * *
1321314 GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAAATTGATAAATATTTG
261 GTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTA
1321379 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
326 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1321444 TTGTGAAGTTGAAATTGACTCTGGGTAAAACCTG
391 TTGTGAAGTTGAAATTGACTCTGGGTAAAACCTG
1321478 CAAAGATATG
Statistics
Matches: 407, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
523 403 0.99
524 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (524 bp):
AAATCGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAAATTGAAAAATGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAAT
TGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGC
GTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTA
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGACTCTGGGTAAAACCTGTTTATTGACAACCAGCGGTCCCTTCGGTGTG
AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAAAT
TGAT
Found at i:1322240 original size:21 final size:20
Alignment explanation
Indices: 1322216--1322261 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
1322206 ACCCCCCTTA
1322216 TTTTCTCTTTTT-TTTGTTCTT
1 TTTTCTCTTTTTCTTT-TT-TT
1322237 TTTTCTCTTTTTCTTTTTTT
1 TTTTCTCTTTTTCTTTTTTT
1322257 TTTTC
1 TTTTC
1322262 AATTTAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 14 0.58
22 3 0.12
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTCTCTTTTTCTTTTTTT
Found at i:1322321 original size:11 final size:11
Alignment explanation
Indices: 1322305--1322338 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1322295 CGTTTTTCTC
1322305 TTTTTGTTTTT
1 TTTTTGTTTTT
1322316 TTTTTGTTTTT
1 TTTTTGTTTTT
1322327 TTGTTT-TTTTT
1 TT-TTTGTTTTT
1322338 T
1 T
1322339 CAACTTAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:1322353 original size:78 final size:83
Alignment explanation
Indices: 1322216--1322372 Score: 225
Period size: 78 Copynumber: 2.0 Consensus size: 83
1322206 ACCCCCCTTA
* * * *
1322216 TTTTCTCTTTTTTTTGTTCTTTTTTCTCTTTTTCTTTTTTTTTTTCAATTTAGGGCGCCCT-TCG
1 TTTTCTCTTTTTGTTGTTCTTTTTTCTCTTTTTCTGTTTTTTTTTCAACTTAGGACGCCCTCTCG
1322280 GGTTTTCACCCTAAACGT
66 GGTTTTCACCCTAAACGT
*
1322298 TTTTCTCTTTTTGTT-TT-TTTTTTGT-TTTTT-TGTTTTTTTTTCAACTTAGGACGCCCTCTCG
1 TTTTCTCTTTTTGTTGTTCTTTTTTCTCTTTTTCTGTTTTTTTTTCAACTTAGGACGCCCTCTCG
*
1322359 GGTTTTCATCCTAA
66 GGTTTTCACCCTAA
1322373 GCGAAGTATT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 24 0.35
79 21 0.31
80 7 0.10
81 2 0.03
82 14 0.21
ACGTcount: A:0.09, C:0.19, G:0.11, T:0.61
Consensus pattern (83 bp):
TTTTCTCTTTTTGTTGTTCTTTTTTCTCTTTTTCTGTTTTTTTTTCAACTTAGGACGCCCTCTCG
GGTTTTCACCCTAAACGT
Found at i:1332945 original size:2 final size:2
Alignment explanation
Indices: 1332938--1332974 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1332928 GGTAAAATGA
1332938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1332975 CATAAATACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1339200 original size:21 final size:21
Alignment explanation
Indices: 1339160--1339202 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
1339150 TCTAGTTTTC
1339160 TCTCTATTCTTCCCTCCTATT
1 TCTCTATTCTTCCCTCCTATT
1339181 TCTC-ATTCTATCTCCT-CTATT
1 TCTCTATTCT-TC-CCTCCTATT
1339202 T
1 T
1339203 ACTGTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 12 0.60
22 3 0.15
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (21 bp):
TCTCTATTCTTCCCTCCTATT
Found at i:1341749 original size:17 final size:17
Alignment explanation
Indices: 1341716--1341755 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1341706 TAAGAAGTAC
*
1341716 TTTTT-TAATATTAATT
1 TTTTTATAAAATTAATT
*
1341732 TTTTTATAAAATTTATT
1 TTTTTATAAAATTAATT
1341749 TTTTTAT
1 TTTTTAT
1341756 TTAAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTATAAAATTAATT
Found at i:1341758 original size:21 final size:21
Alignment explanation
Indices: 1341730--1341773 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
1341720 TTAATATTAA
* *
1341730 TTTTTTTATAAA-ATTTATTT
1 TTTTTTTAAAAACATTAATTT
1341750 TTTTATTTAAAAACATTAATTT
1 TTTT-TTTAAAAACATTAATTT
1341772 TT
1 TT
1341774 CATCACGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 7 0.35
22 9 0.45
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTTAAAAACATTAATTT
Found at i:1341760 original size:19 final size:19
Alignment explanation
Indices: 1341719--1341761 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
1341709 GAAGTACTTT
*
1341719 TTTAATATTAATTTTTTTA
1 TTTAAAATTAATTTTTTTA
*
1341738 --TAAAATTTATTTTTTTA
1 TTTAAAATTAATTTTTTTA
1341755 TTTAAAA
1 TTTAAAA
1341762 ACATTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 15 0.75
19 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAAAATTAATTTTTTTA
Found at i:1353671 original size:27 final size:28
Alignment explanation
Indices: 1353594--1353681 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 28
1353584 ATAAAATAAG
* * * * *
1353594 GGACTAAATAGTAATAACAAAAATTTACA
1 GGACTAAATA-CAAAAACAGAAAGTTAAA
1353623 GGACTAAAATAACAAAAACAGAAAGTTAAA
1 GGACT-AAAT-ACAAAAACAGAAAGTTAAA
*
1353653 GGACTAAATA-AAAAACAGAAAGTAAAA
1 GGACTAAATACAAAAACAGAAAGTTAAA
1353680 GG
1 GG
1353682 GTTAAACCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 18 0.35
28 1 0.02
29 9 0.18
30 22 0.43
31 1 0.02
ACGTcount: A:0.60, C:0.09, G:0.15, T:0.16
Consensus pattern (28 bp):
GGACTAAATACAAAAACAGAAAGTTAAA
Done.