Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_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: 2670214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1571886 original size:40 final size:41
Alignment explanation
Indices: 1571816--1571892 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
1571806 TCGCGTTGCG
* *
1571816 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGACAGTC
1571857 ATTCTCTCGTTGCG-ATTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGAC
1571893 TCTTCTGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 20 0.59
41 14 0.41
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGACAGTC
Found at i:1572018 original size:33 final size:33
Alignment explanation
Indices: 1571971--1572041 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
1571961 AATACTAACT
* *
1571971 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* * *
1572004 TGAAAATCGCAACGACAGAATCGTAACTCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1572037 TGAAA
1 TGAAA
1572042 TCTAAGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1572442 original size:20 final size:20
Alignment explanation
Indices: 1572417--1572610 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1572407 CTTTAAATAT
1572417 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1572437 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1572459 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1572478 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1572498 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1572518 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1572538 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1572558 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1572578 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1572598 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1572611 TGGCAAAACG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1572604 original size:60 final size:60
Alignment explanation
Indices: 1572417--1572610 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1572407 CTTTAAATAT
**
1572417 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1572478 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1572538 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1572598 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1572611 TGGCAAAACG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1573022 original size:2 final size:2
Alignment explanation
Indices: 1573017--1573177 Score: 75
Period size: 2 Copynumber: 78.0 Consensus size: 2
1573007 ACTTTGAATT
* * *
1573017 TA TA TA -A TA TA TA AA TA TA AA CTA TA GTT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA
* * *
1573060 TA TA GTA TA TA CTA TA TA GTA TA TA AA TA -A TT TA TA TA GTT TA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* *
1573103 TA T- TA -A TA AA CTA TA TA T- TA TA TA TA TA GT- TCA TA TG TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA
* *
1573142 AA CTA TA TA GTA TA TA TA GA T- TA TA TA TA GTA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
1573178 GAGAAAATAA
Statistics
Matches: 120, Mismatches: 20, Indels: 38
0.67 0.11 0.21
Matches are distributed among these distances:
1 7 0.06
2 96 0.80
3 17 0.14
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1573029 original size:7 final size:7
Alignment explanation
Indices: 1573017--1573085 Score: 54
Period size: 7 Copynumber: 10.0 Consensus size: 7
1573007 ACTTTGAATT
1573017 TATATAA
1 TATATAA
1573024 TATATAA
1 TATATAA
1573031 -ATATAA
1 TATATAA
*
1573037 -ACTATAG
1 TA-TATAA
*
1573044 TTTAT-A
1 TATATAA
1573050 TATATATA
1 TATATA-A
*
1573058 TATATAG
1 TATATAA
*
1573065 TATATAC
1 TATATAA
*
1573072 TATATAG
1 TATATAA
1573079 TATATAA
1 TATATAA
1573086 ATAATTTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 11 0.22
7 32 0.64
8 7 0.14
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (7 bp):
TATATAA
Found at i:1573068 original size:9 final size:9
Alignment explanation
Indices: 1573039--1573177 Score: 62
Period size: 9 Copynumber: 15.2 Consensus size: 9
1573029 AAATATAAAC
*
1573039 TATAGTTTA
1 TATAGTATA
1573048 TATA-TATA
1 TATAGTATA
1573056 TATA-TATA
1 TATAGTATA
1573064 GTATA-TACTA
1 -TATAGTA-TA
1573074 TATAGTATA
1 TATAGTATA
* *
1573083 TAAATAATTTA
1 T--ATAGTATA
1573094 TATAGT-T-
1 TATAGTATA
*
1573101 TATATTA-A
1 TATAGTATA
* *
1573109 TAAACTATA
1 TATAGTATA
1573118 TATTA-TATA
1 TA-TAGTATA
1573127 TATAGT-TCA
1 TATAGTAT-A
1573136 TAT-GTAAACTA
1 TATAGT--A-TA
1573147 TATAGTATA
1 TATAGTATA
1573156 TATAGATTATA
1 TATAG--TATA
1573167 TATAGTATA
1 TATAGTATA
1573176 TA
1 TA
1573178 GAGAAAATAA
Statistics
Matches: 104, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
7 5 0.05
8 22 0.21
9 48 0.46
10 6 0.06
11 20 0.19
12 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (9 bp):
TATAGTATA
Found at i:1573077 original size:20 final size:19
Alignment explanation
Indices: 1573017--1573177 Score: 99
Period size: 20 Copynumber: 8.7 Consensus size: 19
1573007 ACTTTGAATT
* *
1573017 TATATAATATATAAATATA
1 TATATAGTATATATATATA
*
1573036 AACTATAGT-T-TATATATA
1 TA-TATAGTATATATATATA
*
1573054 TATATA-TATAGTATATA-C
1 TATATAGTATA-TATATATA
* *
1573072 TATATAGTATATAAATAATT
1 TATATAGTATATATAT-ATA
1573092 TATATAGT-T-TATAT-TA
1 TATATAGTATATATATATA
* *
1573108 -ATAAACTATATAT-TATA
1 TATATAGTATATATATATA
* *
1573125 TATATAGT-TCATATGTAAA
1 TATATAGTAT-ATATATATA
*
1573144 CTATATAGTATATATAGATTA
1 -TATATAGTATATATATA-TA
1573165 TATATAGTATATA
1 TATATAGTATATA
1573178 GAGAAAATAA
Statistics
Matches: 109, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
15 5 0.05
16 4 0.04
17 11 0.10
18 31 0.28
19 17 0.16
20 39 0.36
21 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (19 bp):
TATATAGTATATATATATA
Found at i:1573126 original size:7 final size:7
Alignment explanation
Indices: 1573045--1573127 Score: 50
Period size: 7 Copynumber: 12.1 Consensus size: 7
1573035 AAACTATAGT
1573045 TTATATA
1 TTATATA
1573052 -TATATA
1 TTATATA
1573058 -TATATA
1 TTATATA
*
1573064 GTATATA
1 TTATATA
*
1573071 CTATATA
1 TTATATA
*
1573078 GTATATA
1 TTATATA
*
1573085 -AATA-A
1 TTATATA
1573090 TTTATATA
1 -TTATATA
1573098 GTT-TATA
1 -TTATATA
*
1573105 TTAATAAA
1 TT-ATATA
*
1573113 CTATATA
1 TTATATA
1573120 TTATATA
1 TTATATA
1573127 T
1 T
1573128 ATAGTTCATA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
5 1 0.02
6 17 0.28
7 36 0.59
8 7 0.11
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:1573285 original size:19 final size:19
Alignment explanation
Indices: 1573261--1573297 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1573251 ATGACCAACA
*
1573261 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1573280 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1573298 CAGTATCGCA
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:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1573413 original size:20 final size:20
Alignment explanation
Indices: 1573388--1573433 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1573378 TAGAAAATCG
1573388 ATGCGAATATGTAAATCGCA
1 ATGCGAATATGTAAATCGCA
1573408 ATGCGAATATGTAAATCGCA
1 ATGCGAATATGTAAATCGCA
1573428 ATGCGA
1 ATGCGA
1573434 TTCTGACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (20 bp):
ATGCGAATATGTAAATCGCA
Found at i:1573466 original size:41 final size:41
Alignment explanation
Indices: 1573420--1573502 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
1573410 GCGAATATGT
* *
1573420 AAATCGCAATGCGATTCTGACTATCACAACGCGATAATACA
1 AAATCGAAACGCGATTCTGACTATCACAACGCGATAATACA
*
1573461 AAATCGAAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGAAACGCGATTCTGACTATCACAACGCGATAATACA
1573502 A
1 A
1573503 TTCCAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (41 bp):
AAATCGAAACGCGATTCTGACTATCACAACGCGATAATACA
Found at i:1573491 original size:20 final size:20
Alignment explanation
Indices: 1573422--1573495 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
1573412 GAATATGTAA
*
1573422 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* ** *
1573442 ATCACAACGCGATAAT-ACAAA
1 ATCGCAACGCGATTCTGAC--T
*
1573463 ATCGAAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
1573483 ATCGCAACGCGAT
1 ATCGCAACGCGAT
1573496 AATACAATTC
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 2 0.05
20 24 0.60
21 12 0.30
22 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:1573954 original size:19 final size:19
Alignment explanation
Indices: 1573930--1573966 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1573920 TTATTTTGGA
1573930 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
1573949 TTTTTCACTATCGCAACA
1 TTTTTCACTATCGCAACA
1573967 ACACGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:1574015 original size:19 final size:19
Alignment explanation
Indices: 1573931--1574016 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 19
1573921 TATTTTGGAT
* *
1573931 TTTTCACTATCGCAACACT
1 TTTTAACTATCGCAACACA
*
1573950 TTTTCACTATCGCAACAACA
1 TTTTAACTATCGCAAC-ACA
* *
1573970 CGTTTTTCAAACTCTCGCAATACA
1 ---TTTT--AACTATCGCAACACA
*
1573994 TTTTAACTATCGCAACATA
1 TTTTAACTATCGCAACACA
1574013 TTTT
1 TTTT
1574017 TCAAAATCGC
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 32 0.59
20 2 0.04
21 4 0.07
23 4 0.07
24 3 0.06
25 9 0.17
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTTAACTATCGCAACACA
Found at i:1574293 original size:18 final size:18
Alignment explanation
Indices: 1574214--1574293 Score: 65
Period size: 18 Copynumber: 4.4 Consensus size: 18
1574204 CTATGTATAA
* *
1574214 ACTATATAATTTATAAAC
1 ACTATATAATTTATACAT
*
1574232 ACTATATAGTTTATACAT
1 ACTATATAATTTATACAT
* **
1574250 AGTAGTATATAAATATA-A-
1 ACTA-TATA-ATTTATACAT
1574268 ACTATATAATTTATACAT
1 ACTATATAATTTATACAT
*
1574286 AGTATATA
1 ACTATATA
1574294 TAATTTATAA
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
16 5 0.11
17 5 0.11
18 28 0.60
19 5 0.11
20 4 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (18 bp):
ACTATATAATTTATACAT
Found at i:1574295 original size:20 final size:20
Alignment explanation
Indices: 1574234--1574471 Score: 85
Period size: 20 Copynumber: 12.3 Consensus size: 20
1574224 TTATAAACAC
*
1574234 TATATAGTTTATACATAGTA
1 TATATAATTTATACATAGTA
* *
1574254 GTATATAA-ATATA-A-A--C
1 -TATATAATTTATACATAGTA
1574270 TATATAATTTATACATAGTA
1 TATATAATTTATACATAGTA
1574290 TATATAATTTATA-AT--TA
1 TATATAATTTATACATAGTA
* * *
1574307 TACATAATATATAAATATAGTA
1 TATATAAT-T-TATACATAGTA
* *
1574329 TATATAGTTTATATATAGTTCA
1 TATATAATTTATACATAG-T-A
* *
1574351 TATATACA---ATATATAGTT
1 TATATA-ATTTATACATAGTA
* **
1574369 TATAT-ATGTAGTTTATA-TA
1 TATATAATTTA-TACATAGTA
* * *
1574388 TATATTATATATAC-T-TTA
1 TATATAATTTATACATAGTA
* * *
1574406 TATATACTTTATATATA-AA
1 TATATAATTTATACATAGTA
*
1574425 TTATATAGTTTATACATAGTA
1 -TATATAATTTATACATAGTA
* * *
1574446 TATATAGTTTGTACATAATA
1 TATATAATTTATACATAGTA
1574466 TATATA
1 TATATA
1574472 CTTTCCATGA
Statistics
Matches: 167, Mismatches: 27, Indels: 47
0.69 0.11 0.20
Matches are distributed among these distances:
15 7 0.04
16 5 0.03
17 10 0.06
18 21 0.13
19 17 0.10
20 83 0.50
21 9 0.05
22 15 0.09
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (20 bp):
TATATAATTTATACATAGTA
Found at i:1574302 original size:11 final size:11
Alignment explanation
Indices: 1574270--1574431 Score: 77
Period size: 11 Copynumber: 14.4 Consensus size: 11
1574260 AAATATAAAC
1574270 TATATAATTTA
1 TATATAATTTA
* *
1574281 TACAT-A-GTA
1 TATATAATTTA
1574290 TATATAATTTA
1 TATATAATTTA
*
1574301 TAATTATACA-TAA
1 T-A-TATA-ATTTA
1574314 TATATAAATATAGTA
1 TATAT-AAT-T--TA
*
1574329 TATATAGTTTA
1 TATATAATTTA
* *
1574340 TATATAGTTCA
1 TATATAATTTA
1574351 TATATACA---A
1 TATATA-ATTTA
*
1574360 TATATAGTTTA
1 TATATAATTTA
*
1574371 TATATGTAGTTTA
1 TATA--TAATTTA
1574384 TATAT-ATATTA
1 TATATAAT-TTA
*
1574395 TATATACTTTA
1 TATATAATTTA
*
1574406 TATATACTTTA
1 TATATAATTTA
*
1574417 TATATAAATTA
1 TATATAATTTA
1574428 TATA
1 TATA
1574432 GTTTATACAT
Statistics
Matches: 119, Mismatches: 14, Indels: 36
0.70 0.08 0.21
Matches are distributed among these distances:
9 13 0.11
10 3 0.03
11 70 0.59
12 4 0.03
13 20 0.17
14 3 0.03
15 6 0.05
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (11 bp):
TATATAATTTA
Found at i:1574303 original size:36 final size:38
Alignment explanation
Indices: 1574216--1574303 Score: 128
Period size: 36 Copynumber: 2.4 Consensus size: 38
1574206 ATGTATAAAC
*
1574216 TATATAATTTATAAACACTATATAGTTTATACATAGTAG
1 TATATAATTTAT-AACACTATATAATTTATACATAGTAG
*
1574255 TATATAA-ATATAA-ACTATATAATTTATACATAGTA-
1 TATATAATTTATAACACTATATAATTTATACATAGTAG
1574290 TATATAATTTATAA
1 TATATAATTTATAA
1574304 TTATACATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 7 0.16
36 26 0.58
37 2 0.04
38 3 0.07
39 7 0.16
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (38 bp):
TATATAATTTATAACACTATATAATTTATACATAGTAG
Found at i:1574313 original size:17 final size:17
Alignment explanation
Indices: 1574273--1574325 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
1574263 TATAAACTAT
*
1574273 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
1574293 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
1574310 ATAATATATAAATATA
1 ATAATTTATAATTATA
1574326 GTATATATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:1574333 original size:9 final size:9
Alignment explanation
Indices: 1574321--1574453 Score: 50
Period size: 9 Copynumber: 14.8 Consensus size: 9
1574311 TAATATATAA
1574321 ATATAGTAT
1 ATATAGTAT
1574330 ATATAGTTTAT
1 ATATAG--TAT
1574341 ATATAGTTCAT
1 ATATAG-T-AT
**
1574352 ATATACAAT
1 ATATAGTAT
*
1574361 ATATAGTTT
1 ATATAGTAT
1574370 ATATATGTAGT
1 ATATA-GTA-T
1574381 -T-TA-TAT
1 ATATAGTAT
*
1574387 ATATATTAT
1 ATATAGTAT
*
1574396 ATATACT-T
1 ATATAGTAT
1574404 -TATA-TAT
1 ATATAGTAT
*
1574411 ACTTTA-TAT
1 A-TATAGTAT
*
1574420 ATA-AAT-T
1 ATATAGTAT
1574427 ATATAGTTTAT
1 ATATAG--TAT
*
1574438 ACATAGTAT
1 ATATAGTAT
1574447 ATATAGT
1 ATATAGT
1574454 TTGTACATAA
Statistics
Matches: 96, Mismatches: 12, Indels: 32
0.69 0.09 0.23
Matches are distributed among these distances:
6 2 0.02
7 13 0.14
8 6 0.06
9 46 0.48
10 6 0.06
11 23 0.24
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.49
Consensus pattern (9 bp):
ATATAGTAT
Found at i:1574364 original size:33 final size:32
Alignment explanation
Indices: 1574327--1574451 Score: 146
Period size: 31 Copynumber: 3.9 Consensus size: 32
1574317 ATAAATATAG
* *
1574327 TATATATAGTTTATATATAGTTCATATATACA
1 TATATATAGTTTATATATAGTTTATATATAAA
*
1574359 -ATATATAGTTTATATATGTAGTTTATATATATAT
1 TATATATAGTTTATATA--TAGTTTATATATA-AA
* *
1574393 TATATATACTTTATATATACTTTATATATAAA
1 TATATATAGTTTATATATAGTTTATATATAAA
* *
1574425 T-TATATAGTTTATACATAGTATATATA
1 TATATATAGTTTATATATAGTTTATATA
1574452 GTTTGTACAT
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
31 38 0.48
32 2 0.03
33 24 0.30
35 15 0.19
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.50
Consensus pattern (32 bp):
TATATATAGTTTATATATAGTTTATATATAAA
Found at i:1574408 original size:22 final size:22
Alignment explanation
Indices: 1574299--1574431 Score: 87
Period size: 22 Copynumber: 6.1 Consensus size: 22
1574289 ATATATAATT
* *
1574299 TATA-ATTATACATAATATATA
1 TATATATTATATATAATTTATA
* * *
1574320 AATATAGTATATATAGTTTATA
1 TATATATTATATATAATTTATA
* *
1574342 TATAGT-TCATATATACA-ATATA
1 TATA-TATTATATATA-ATTTATA
* * *
1574364 TAGTTTA-TATATGTAGTTTATA
1 TA-TATATTATATATAATTTATA
*
1574386 TATATATTATATATACTTTATA
1 TATATATTATATATAATTTATA
*
1574408 TATACT-TTATATATAAATTATA
1 TATA-TATTATATATAATTTATA
1574430 TA
1 TA
1574432 GTTTATACAT
Statistics
Matches: 84, Mismatches: 20, Indels: 15
0.71 0.17 0.13
Matches are distributed among these distances:
21 6 0.07
22 75 0.89
23 3 0.04
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (22 bp):
TATATATTATATATAATTTATA
Found at i:1574443 original size:11 final size:11
Alignment explanation
Indices: 1574327--1574455 Score: 110
Period size: 11 Copynumber: 12.1 Consensus size: 11
1574317 ATAAATATAG
1574327 TATATATAGTT
1 TATATATAGTT
1574338 TATATATAGTT
1 TATATATAGTT
* *
1574349 CATATATA--C
1 TATATATAGTT
*
1574358 AATATATAGTT
1 TATATATAGTT
1574369 TATATATGTAGTT
1 TATATA--TAGTT
1574382 TATATATA-TAT
1 TATATATAGT-T
*
1574393 TATATATACTT
1 TATATATAGTT
*
1574404 TATATATACTT
1 TATATATAGTT
**
1574415 TATATATA-AA
1 TATATATAGTT
1574425 T-TATATAGTT
1 TATATATAGTT
*
1574435 TATACATAG--
1 TATATATAGTT
1574444 TATATATAGTT
1 TATATATAGTT
1574455 T
1 T
1574456 GTACATAATA
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
9 21 0.22
10 3 0.03
11 61 0.63
12 1 0.01
13 11 0.11
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (11 bp):
TATATATAGTT
Found at i:1580194 original size:35 final size:35
Alignment explanation
Indices: 1580148--1580216 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
1580138 AGGCGGAGTT
*
1580148 ATTCTAGTTAGCAAAACTACAAGACTAAAAGAAAC
1 ATTCTACTTAGCAAAACTACAAGACTAAAAGAAAC
* *
1580183 ATTCTACTTAGCAAAATTTCAAGACTAAAAGAAA
1 ATTCTACTTAGCAAAACTACAAGACTAAAAGAAA
1580217 TGGTTACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.23
Consensus pattern (35 bp):
ATTCTACTTAGCAAAACTACAAGACTAAAAGAAAC
Found at i:1580348 original size:19 final size:19
Alignment explanation
Indices: 1580324--1580361 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1580314 TCTATCAAGA
1580324 CAAAGGAAATGGTTTTTAT
1 CAAAGGAAATGGTTTTTAT
1580343 CAAAGGAAATGGTTTTTAT
1 CAAAGGAAATGGTTTTTAT
1580362 TACTACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (19 bp):
CAAAGGAAATGGTTTTTAT
Found at i:1586789 original size:21 final size:21
Alignment explanation
Indices: 1586748--1586789 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1586738 CATTAGGGTG
*
1586748 AAATAATAATATTTTAGGTAT
1 AAATAATAATATTTTAAGTAT
1586769 AAATAATAATATTTTAAGTAT
1 AAATAATAATATTTTAAGTAT
1586790 TTTTTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATAATAATATTTTAAGTAT
Found at i:1587046 original size:21 final size:21
Alignment explanation
Indices: 1587020--1587065 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1587010 CCGGAATTGT
1587020 TAAAAACTAATAATATTTTAAG
1 TAAAAA-TAATAATATTTTAAG
* *
1587042 TAAAAATAATAATGTTTTAGG
1 TAAAAATAATAATATTTTAAG
1587063 TAA
1 TAA
1587066 TTTTTTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAG
Found at i:1602092 original size:24 final size:22
Alignment explanation
Indices: 1602052--1602128 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
1602042 ATGCAATTAA
1602052 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
1602071 TGCATCGATGCACATGTTAAGG-G
1 TGCATCGATGCAC-TG-TAAGGAG
* *
1602094 ATGCATCGATACACTGT-A-GAA
1 -TGCATCGATGCACTGTAAGGAG
1602115 TGCATCGATGCACT
1 TGCATCGATGCACT
1602129 TCAAAGGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
19 12 0.25
20 14 0.29
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:1602864 original size:2 final size:2
Alignment explanation
Indices: 1602857--1602909 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
1602847 AAATTAAGTA
1602857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
1602898 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1602910 GTTTATAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1603686 original size:23 final size:23
Alignment explanation
Indices: 1603653--1603720 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
1603643 CATCTTATAT
1603653 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * *
1603676 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
* *
1603699 GGCACTCCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
1603721 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:1605771 original size:40 final size:40
Alignment explanation
Indices: 1605712--1605790 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
1605702 TGCATGTTTA
* *
1605712 TAATACACTTCGGTGTATATGGTGGACACGACCTTATGTG
1 TAATACACTTCAGTATATATGGTGGACACGACCTTATGTG
* *
1605752 TAATACACTTCAGTATATATGGTGGGCACGACTTTATGT
1 TAATACACTTCAGTATATATGGTGGACACGACCTTATGT
1605791 ATAGCACTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (40 bp):
TAATACACTTCAGTATATATGGTGGACACGACCTTATGTG
Found at i:1605987 original size:21 final size:22
Alignment explanation
Indices: 1605945--1605987 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1605935 AATTCAATGA
*
1605945 TTATTTGTATATATATTGAAGG
1 TTATTTGTATATATATTAAAGG
1605967 TTATTTAGTA-AT-TATTAAAGG
1 TTATTT-GTATATATATTAAAGG
1605988 AAATTAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TTATTTGTATATATATTAAAGG
Found at i:1606566 original size:21 final size:21
Alignment explanation
Indices: 1606540--1606584 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1606530 GATTTCTGGG
* *
1606540 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1606561 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1606582 CAA
1 CAA
1606585 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1606960 original size:18 final size:16
Alignment explanation
Indices: 1606939--1606978 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
1606929 TGATTATACG
1606939 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
1606957 TATATGTATGCATGAT
1 TATATGAATGCATGAT
1606973 TATATG
1 TATATG
1606979 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:1606976 original size:16 final size:18
Alignment explanation
Indices: 1606939--1606979 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
1606929 TGATTATACG
*
1606939 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
1606957 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
1606973 TATATGT
1 TATATGT
1606980 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:1607491 original size:31 final size:31
Alignment explanation
Indices: 1607453--1607608 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1607443 AGGGTCGAGG
*
1607453 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1607484 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1607515 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1607546 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1607577 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
1607608 G
1 G
1607609 GTCCTTTGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:1610639 original size:21 final size:21
Alignment explanation
Indices: 1610613--1610657 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1610603 GATTTCTGGG
* *
1610613 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1610634 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1610655 CAA
1 CAA
1610658 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1611028 original size:23 final size:22
Alignment explanation
Indices: 1610992--1611036 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1610982 GTTAGAATGC
*
1610992 ATGAATATATGATTATACGTAT
1 ATGAATACATGATTATACGTAT
*
1611014 ATGAATGACATGATTATATGTAT
1 ATGAAT-ACATGATTATACGTAT
1611037 GCATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (22 bp):
ATGAATACATGATTATACGTAT
Found at i:1611043 original size:16 final size:17
Alignment explanation
Indices: 1611011--1611050 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
1611001 TGATTATACG
*
1611011 TATATGAATGACATGAT
1 TATATGTATGACATGAT
1611028 TATATGTATG-CATGAT
1 TATATGTATGACATGAT
1611044 TATATGT
1 TATATGT
1611051 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (17 bp):
TATATGTATGACATGAT
Found at i:1611560 original size:31 final size:31
Alignment explanation
Indices: 1611522--1611677 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1611512 AGGGTCGAGG
*
1611522 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1611553 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1611584 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1611615 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1611646 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
1611677 G
1 G
1611678 GTCCTTTGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:1614155 original size:21 final size:22
Alignment explanation
Indices: 1614113--1614155 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1614103 AATTCAATGA
*
1614113 TTATTTGTATATATATTGAAGG
1 TTATTTGTATATATATTAAAGG
1614135 TTATTTAGTA-AT-TATTAAAGG
1 TTATTT-GTATATATATTAAAGG
1614156 AAATTAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 8 0.42
23 3 0.16
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TTATTTGTATATATATTAAAGG
Found at i:1614734 original size:21 final size:21
Alignment explanation
Indices: 1614708--1614752 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1614698 GATTTCTGGG
* *
1614708 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1614729 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1614750 CAA
1 CAA
1614753 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1615125 original size:18 final size:16
Alignment explanation
Indices: 1615104--1615143 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
1615094 TGATTATACG
1615104 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
1615122 TATATGTATGCATGAT
1 TATATGAATGCATGAT
1615138 TATATG
1 TATATG
1615144 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:1615141 original size:16 final size:18
Alignment explanation
Indices: 1615104--1615144 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
1615094 TGATTATACG
*
1615104 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
1615122 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
1615138 TATATGT
1 TATATGT
1615145 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:1615659 original size:31 final size:31
Alignment explanation
Indices: 1615621--1615776 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
1615611 AGGGTCGAGG
*
1615621 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1615652 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
1615683 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1615714 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
1615745 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
1615776 G
1 G
1615777 GTCCTTTGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:1616556 original size:47 final size:46
Alignment explanation
Indices: 1616499--1616615 Score: 146
Period size: 47 Copynumber: 2.5 Consensus size: 46
1616489 AGTATATGGG
*
1616499 TAAAATAAGCTTACGAGCTTAT-AAGATTAAATGGTAAGTATTTTGTA
1 TAAAATAAGCTTACGAGCTTATGAA-ATTAAATGATAAGTATTTTG-A
* * * *
1616546 TAAAATAAGCTTATGAGCTTATGGAATTTAAATGATAATTATTTTGG
1 TAAAATAAGCTTACGAGCTTAT-GAAATTAAATGATAAGTATTTTGA
*
1616593 TAAAATAAACTTACGAGCTTATG
1 TAAAATAAGCTTACGAGCTTATG
1616616 TGATAAAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
46 1 0.02
47 41 0.67
48 17 0.28
49 2 0.03
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (46 bp):
TAAAATAAGCTTACGAGCTTATGAAATTAAATGATAAGTATTTTGA
Found at i:1619229 original size:7 final size:7
Alignment explanation
Indices: 1619217--1619279 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
1619207 CGGATTAAGA
1619217 GTTTAGG
1 GTTTAGG
1619224 GTTTAGG
1 GTTTAGG
*
1619231 GTTTAGT
1 GTTTAGG
* *
1619238 ATTTATG
1 GTTTAGG
*
1619245 GTTTAAG
1 GTTTAGG
1619252 GTTTA-G
1 GTTTAGG
**
1619258 GTTTATA
1 GTTTAGG
1619265 GTTTAGG
1 GTTTAGG
1619272 GTTTAGG
1 GTTTAGG
1619279 G
1 G
1619280 CTCATTGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:1619268 original size:20 final size:20
Alignment explanation
Indices: 1619224--1619278 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1619214 AGAGTTTAGG
* *
1619224 GTTTAGGGTTTAGTATTTATG
1 GTTTAGGGTTTAG-GTTTATA
*
1619245 GTTTAAGGTTTAGGTTTATA
1 GTTTAGGGTTTAGGTTTATA
1619265 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
1619279 GCTCATTGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (20 bp):
GTTTAGGGTTTAGGTTTATA
Found at i:1619771 original size:11 final size:11
Alignment explanation
Indices: 1619729--1619819 Score: 61
Period size: 11 Copynumber: 8.7 Consensus size: 11
1619719 CATATTTTTA
*
1619729 TTTTATTATAT
1 TTTTAATATAT
1619740 TTTTAA-A-A-
1 TTTTAATATAT
*
1619748 TTTT-ATAGAAT
1 TTTTAATA-TAT
1619759 TTTTAATATAT
1 TTTTAATATAT
1619770 TTTTAA-A-AT
1 TTTTAATATAT
1619779 TTTATAAT-TAT
1 TTT-TAATATAT
*** *
1619790 CAATAATGTAT
1 TTTTAATATAT
1619801 TTTTAATATAT
1 TTTTAATATAT
1619812 TTTTAATA
1 TTTTAATA
1619820 ATGTAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
7 1 0.02
8 5 0.08
9 6 0.10
10 10 0.16
11 37 0.60
12 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (11 bp):
TTTTAATATAT
Found at i:1619786 original size:21 final size:21
Alignment explanation
Indices: 1619727--1619786 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
1619717 ATCATATTTT
* *
1619727 TATTTTATTATATTTTTAA-A
1 TATTTTATAAAATTTTTAATA
*
1619747 -ATTTTATAGAATTTTTAATA
1 TATTTTATAAAATTTTTAATA
1619767 TATTTT-TAAAATTTTATAAT
1 TATTTTATAAAATTTT-TAAT
1619787 TATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 15 0.45
20 9 0.27
21 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTATAAAATTTTTAATA
Found at i:1619794 original size:28 final size:29
Alignment explanation
Indices: 1619735--1619794 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
1619725 TTTATTTTAT
* *
1619735 TATATTTTTAAAATTTTATAGAATTTTTAA
1 TATATTTTTAAAATTTTATA-AATTATCAA
1619765 TATATTTTTAAAATTTTAT-AATTATCAA
1 TATATTTTTAAAATTTTATAAATTATCAA
1619793 TA
1 TA
1619795 ATGTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.32
30 19 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATTTTTAAAATTTTATAAATTATCAA
Found at i:1629790 original size:29 final size:29
Alignment explanation
Indices: 1629733--1629791 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
1629723 GAAAATAATG
*
1629733 TAACAAAGAAAAGGAAAAGAAAAAGAAAA
1 TAACAAAGAAAAGGAAAAGAAAAACAAAA
*
1629762 TAACAAA-AGAAAGTAAAA-AAACAACAAAA
1 TAACAAAGA-AAAGGAAAAGAAA-AACAAAA
1629791 T
1 T
1629792 CCAAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.07
Consensus pattern (29 bp):
TAACAAAGAAAAGGAAAAGAAAAACAAAA
Found at i:1632105 original size:25 final size:25
Alignment explanation
Indices: 1632071--1632119 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1632061 GAATTGCTCA
1632071 TTATATTTCACAAAAACATTTGGGT
1 TTATATTTCACAAAAACATTTGGGT
1632096 TTATATTTCACAAAAACATTTGGG
1 TTATATTTCACAAAAACATTTGGG
1632120 ATAAGGCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATATTTCACAAAAACATTTGGGT
Found at i:1635488 original size:58 final size:58
Alignment explanation
Indices: 1635419--1635535 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
1635409 TCGGGTCGGA
**
1635419 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCGGTTTTTTTAAGTGTGATATTCAGG
1 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
* * *
1635477 TCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCAATTTTTTTAAGTGTGATATTTAGG
1 TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
1635535 T
1 T
1635536 TGAGTTCGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.19, C:0.09, G:0.29, T:0.43
Consensus pattern (58 bp):
TCGGGTGAAACTTTATTTTGGTCGGATCAGGTCAATTTTTTTAAGTGTGATATTCAGG
Found at i:1649620 original size:32 final size:31
Alignment explanation
Indices: 1649578--1649678 Score: 112
Period size: 32 Copynumber: 3.2 Consensus size: 31
1649568 AAGAGTCGAG
* *
1649578 GGTTACCTATGTCTTTCGAGACATATGGATA
1 GGTTACCTATGTCCTTCGAGACATATGGACA
*
1649609 GTGTTACCTATGTCCTTCGGGACATATGGACA
1 G-GTTACCTATGTCCTTCGAGACATATGGACA
* ** *
1649641 GGATTACCTATGTTCTAAGAAACATATGGACA
1 GG-TTACCTATGTCCTTCGAGACATATGGACA
*
1649673 GTTTAC
1 GGTTAC
1649679 TTAGGTTCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 6 0.10
32 53 0.90
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGAGACATATGGACA
Found at i:1650544 original size:32 final size:32
Alignment explanation
Indices: 1650502--1650579 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
1650492 TTGAGGGTGT
*
1650502 TACACGTGACATGTGCCACATCATCATTTATG
1 TACACGTGACATGTGCAACATCATCATTTATG
* * *
1650534 TACACATGACATGTGCAACATCATTATTTGTG
1 TACACGTGACATGTGCAACATCATCATTTATG
*
1650566 TACATGTGACATGT
1 TACACGTGACATGT
1650580 ACCATGTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (32 bp):
TACACGTGACATGTGCAACATCATCATTTATG
Found at i:1651494 original size:19 final size:19
Alignment explanation
Indices: 1651439--1651485 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
1651429 TTAGTTTACT
1651439 ATTATAATTGTAAATTTTC
1 ATTATAATTGTAAATTTTC
1651458 ATTATAATTGTAAATTTTC
1 ATTATAATTGTAAATTTTC
1651477 ATTATAATT
1 ATTATAATT
1651486 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
ATTATAATTGTAAATTTTC
Found at i:1652343 original size:14 final size:14
Alignment explanation
Indices: 1652324--1652350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1652314 AGTTATCTTC
1652324 TTCTTCTTCTTCAT
1 TTCTTCTTCTTCAT
1652338 TTCTTCTTCTTCA
1 TTCTTCTTCTTCA
1652351 CCGTGAACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (14 bp):
TTCTTCTTCTTCAT
Found at i:1653191 original size:31 final size:31
Alignment explanation
Indices: 1653153--1653277 Score: 182
Period size: 31 Copynumber: 4.0 Consensus size: 31
1653143 AGAGTCGAGG
*
1653153 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
1653184 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1653215 GTTTACCTATGTTCTTCGGGACATATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1653246 GATTACCTA-GATTCTTCAGGATC-TATGGACT
1 GTTTACCTATG-TTCTTCGGGA-CATATGGACT
1653277 G
1 G
1653278 GTCATTCGAG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 1 0.01
31 85 0.98
32 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1654161 original size:22 final size:22
Alignment explanation
Indices: 1654096--1654161 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
1654086 TAAAATTCGG
* *
1654096 TACTATTCACGATATTGTTCAT
1 TACTGTTCACGGTATTGTTCAT
*
1654118 TACTGTTCACGGTATTGCTCAT
1 TACTGTTCACGGTATTGTTCAT
*
1654140 TACTGTTTACGGT-TCTGTTCAT
1 TACTGTTCACGGTAT-TGTTCAT
1654162 ACAATATAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 1 0.03
22 37 0.97
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (22 bp):
TACTGTTCACGGTATTGTTCAT
Found at i:1654491 original size:61 final size:61
Alignment explanation
Indices: 1654390--1654526 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
1654380 GAACATATCG
* * * * * *
1654390 TCATCCGTGCCTTCGATGGGTTCTGTTTGAGCTGGCGCCACGTAAGGAAAGACGTGGATCA
1 TCATCCGCGCCTTCGATGGGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
* * * *
1654451 TCATCCGCGCCTTTG-TGAGGTTCTATCTGAGATGGTGCCACATAAGGAAAGGCATTGATCA
1 TCATCCGCGCCTTCGATG-GGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
*
1654512 TCATCTGCGCCTTCG
1 TCATCCGCGCCTTCG
1654527 CGGGGTTTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
60 2 0.03
61 61 0.97
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (61 bp):
TCATCCGCGCCTTCGATGGGTTCTATCTGAGATGGCGCCACATAAGGAAAGACATGGATCA
Found at i:1657190 original size:13 final size:13
Alignment explanation
Indices: 1657165--1657198 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1657155 CAAGATGGGT
1657165 ATTTTAAAGATGG
1 ATTTTAAAGATGG
1657178 ATTTGTAAA-ATGG
1 ATTT-TAAAGATGG
1657191 ATTTTAAA
1 ATTTTAAA
1657199 TGAATTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 12 0.60
14 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (13 bp):
ATTTTAAAGATGG
Found at i:1657623 original size:55 final size:55
Alignment explanation
Indices: 1657551--1657695 Score: 218
Period size: 55 Copynumber: 2.6 Consensus size: 55
1657541 TTTGTATGAG
*
1657551 TGTGTATCGGTATACTGAGAAGTGTATCGATACCCTCAAAACATCGAATGTCATT
1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT
* * * * **
1657606 TGTGTATCGGTACACTGAGGAGTGTATCGACAACCTCAAAACATCGAGTGTTTTT
1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT
*
1657661 TATGTATCGGTATACTGAGGAGTGTATCGATACCC
1 TGTGTATCGGTATACTGAGGAGTGTATCGATACCC
1657696 CTAAGTATGA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 79 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (55 bp):
TGTGTATCGGTATACTGAGGAGTGTATCGATACCCTCAAAACATCGAATGTCATT
Found at i:1665780 original size:18 final size:17
Alignment explanation
Indices: 1665757--1665790 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
1665747 TTTAAATGAG
1665757 TGCATCGATGCATCCTTA
1 TGCATCGATGCA-CCTTA
1665775 TGCATCGATGCACCTT
1 TGCATCGATGCACCTT
1665791 CAACAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (17 bp):
TGCATCGATGCACCTTA
Found at i:1667142 original size:21 final size:21
Alignment explanation
Indices: 1667118--1667166 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1667108 GTCGAGGATC
* *
1667118 TATGTGGTCCTTCGGGATAAT
1 TATGTGGTCCTCCGGGATAAA
1667139 TATGTGGTCCTCCGGGATAAA
1 TATGTGGTCCTCCGGGATAAA
1667160 TATGTGG
1 TATGTGG
1667167 CACTTCAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.31, T:0.35
Consensus pattern (21 bp):
TATGTGGTCCTCCGGGATAAA
Found at i:1668635 original size:13 final size:12
Alignment explanation
Indices: 1668606--1668638 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1668596 AAAGCCATTC
1668606 CTTTTTAAAAGT
1 CTTTTTAAAAGT
1668618 CTTTTTAAAAGT
1 CTTTTTAAAAGT
1668630 CTTTTTAAA
1 CTTTTTAAA
1668639 TCTTCTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (12 bp):
CTTTTTAAAAGT
Found at i:1672822 original size:7 final size:7
Alignment explanation
Indices: 1672810--1672840 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1672800 GTCAAAGAAA
1672810 GTCAACG
1 GTCAACG
1672817 GTCAACG
1 GTCAACG
1672824 GTCAACG
1 GTCAACG
1672831 GTCAACG
1 GTCAACG
1672838 GTC
1 GTC
1672841 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1672852 original size:17 final size:17
Alignment explanation
Indices: 1672830--1672870 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1672820 AACGGTCAAC
*
1672830 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
1672847 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
1672864 GGTCAAC
1 GGTCAAC
1672871 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:1672888 original size:19 final size:19
Alignment explanation
Indices: 1672864--1672927 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
1672854 AGTCGGGTCG
* *
1672864 GGTCAACCCGGTTCAGATC
1 GGTCAAACCGGTTCAGACC
*
1672883 GGTCAAACCGGTTCTGACC
1 GGTCAAACCGGTTCAGACC
*
1672902 GGTCAAACCGG-TCAAACC
1 GGTCAAACCGGTTCAGACC
1672920 GGTTCAAA
1 GG-TCAAA
1672928 ACTGGTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:1672914 original size:28 final size:29
Alignment explanation
Indices: 1672882--1672942 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
1672872 CGGTTCAGAT
**
1672882 CGGTCAAACCGGTTC-TGACCGGTCAAAC
1 CGGTCAAACCGGTTCAAAACCGGTCAAAC
*
1672910 CGGTCAAACCGGTTCAAAACTGGTCAAAC
1 CGGTCAAACCGGTTCAAAACCGGTCAAAC
1672939 CGGT
1 CGGT
1672943 TTTCCAGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.18
Consensus pattern (29 bp):
CGGTCAAACCGGTTCAAAACCGGTCAAAC
Found at i:1672934 original size:20 final size:20
Alignment explanation
Indices: 1672906--1672943 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1672896 CTGACCGGTC
1672906 AAACCGGTCAAACCGGTTCA
1 AAACCGGTCAAACCGGTTCA
*
1672926 AAACTGGTCAAACCGGTT
1 AAACCGGTCAAACCGGTT
1672944 TTCCAGCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.18
Consensus pattern (20 bp):
AAACCGGTCAAACCGGTTCA
Found at i:1672936 original size:10 final size:9
Alignment explanation
Indices: 1672882--1672942 Score: 68
Period size: 9 Copynumber: 6.4 Consensus size: 9
1672872 CGGTTCAGAT
1672882 CGGTCAAAC
1 CGGTCAAAC
**
1672891 CGGTTCTGAC
1 CGG-TCAAAC
1672901 CGGTCAAAC
1 CGGTCAAAC
1672910 CGGTCAAAC
1 CGGTCAAAC
1672919 CGGTTCAAAAC
1 CGG-TC-AAAC
*
1672930 TGGTCAAAC
1 CGGTCAAAC
1672939 CGGT
1 CGGT
1672943 TTTCCAGCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 26 0.60
10 11 0.26
11 6 0.14
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.18
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:1680120 original size:17 final size:17
Alignment explanation
Indices: 1680098--1680138 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
1680088 AACAGTCAAC
*
1680098 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
1680115 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
1680132 GGTCAAC
1 GGTCAAC
1680139 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:1680156 original size:19 final size:19
Alignment explanation
Indices: 1680132--1680222 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
1680122 AGTCGGGTCG
* *
1680132 GGTCAACCCGGTTCAGATC
1 GGTCAAACCGGTTCAGACC
*
1680151 GGTCAAACCGGTTCTGACC
1 GGTCAAACCGGTTCAGACC
1680170 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* *
1680189 GGTCAAACCGGGTTCAAAACT
1 GGTCAAACC-GGTTC-AGACC
1680210 GGTCAAACCGGTT
1 GGTCAAACCGGTT
1680223 TTCCAGCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
18 1 0.02
19 42 0.67
20 9 0.14
21 11 0.17
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:1680179 original size:9 final size:9
Alignment explanation
Indices: 1680150--1680221 Score: 63
Period size: 9 Copynumber: 7.4 Consensus size: 9
1680140 CGGTTCAGAT
1680150 CGGTCAAAC
1 CGGTCAAAC
**
1680159 CGGTTCTGAC
1 CGG-TCAAAC
1680169 CGGTCAAAC
1 CGGTCAAAC
*
1680178 CGGTTCGAAC
1 CGG-TCAAAC
1680188 CGGTCAAAC
1 CGGTCAAAC
1680197 CGGGTTCAAAAC
1 C-GG-TC-AAAC
*
1680209 TGGTCAAAC
1 CGGTCAAAC
1680218 CGGT
1 CGGT
1680222 TTTCCAGCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
9 23 0.46
10 19 0.38
11 4 0.08
12 4 0.08
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:1681241 original size:9 final size:10
Alignment explanation
Indices: 1681216--1681240 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1681206 TAAAATATAT
1681216 AAAAAATTAA
1 AAAAAATTAA
1681226 AAAAAATTAA
1 AAAAAATTAA
1681236 AAAAA
1 AAAAA
1681241 TAATTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:1682198 original size:25 final size:25
Alignment explanation
Indices: 1682170--1682218 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1682160 TATAAATTTA
* *
1682170 TATAAT-TATTTAGGTTAAACATTAC
1 TATAATAT-TTTAGATTAAAAATTAC
1682195 TATAATATTTTAGATTAAAAATTA
1 TATAATATTTTAGATTAAAAATTA
1682219 ACTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (25 bp):
TATAATATTTTAGATTAAAAATTAC
Found at i:1690897 original size:41 final size:41
Alignment explanation
Indices: 1690852--1691079 Score: 271
Period size: 41 Copynumber: 5.4 Consensus size: 41
1690842 ATTCACGTTG
*
1690852 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
* *
1690893 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTT-
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG-TTTTTC
* ***
1690934 CATTTCACGTTGCGATAGTTG-AAATCGCAACGCGATCTCTATCATC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCG-T-T-T-T--TC
* *
1690980 GCAAATTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 -C-ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
*
1691023 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1691064 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
1691080 TTTCCATTTC
Statistics
Matches: 162, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.07
41 108 0.67
42 7 0.04
43 3 0.02
45 2 0.01
46 1 0.01
47 2 0.01
48 18 0.11
49 10 0.06
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
Found at i:1691010 original size:21 final size:21
Alignment explanation
Indices: 1690986--1691059 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
1690976 CATCGCAAAT
1690986 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
1691007 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
1691027 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
1691048 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1691060 TTTCCATTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:1691032 original size:20 final size:20
Alignment explanation
Indices: 1691007--1691099 Score: 132
Period size: 20 Copynumber: 4.6 Consensus size: 20
1690997 TAGTTGAAAA
1691007 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
1691027 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1691048 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1691068 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1691088 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1691100 AGTCTACAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
20 47 0.76
21 15 0.24
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1691136 original size:61 final size:60
Alignment explanation
Indices: 1691010--1691136 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
1691000 TTGAAAATCG
*
1691010 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
* * *
1691070 GCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGTTGTCGTTGCGATTTTCCAAATT-
1 -CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCC-AATTC
1691132 CGTTG
1 CGTTG
1691137 AAAAAAAAGA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
61 41 0.69
62 15 0.25
63 3 0.05
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (60 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAATTC
Found at i:1691223 original size:6 final size:6
Alignment explanation
Indices: 1691212--1691256 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
1691202 GACACGTATT
1691212 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1691257 CGAGACGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1691751 original size:5 final size:5
Alignment explanation
Indices: 1691737--1691780 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
1691727 ACCGCCGCTG
1691737 CCGT- CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC
1 CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC CCGTC
1691781 TCGGGTCGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.00, C:0.59, G:0.20, T:0.20
Consensus pattern (5 bp):
CCGTC
Found at i:1691810 original size:6 final size:6
Alignment explanation
Indices: 1691784--1691837 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
1691774 TCCCGTCTCG
1691784 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1691829 GGTCGT GGT
1 GGTCGT GGT
1691838 AATATGTGTC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.31
6 33 0.69
ACGTcount: A:0.00, C:0.17, G:0.54, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:1691945 original size:19 final size:19
Alignment explanation
Indices: 1691921--1691986 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
1691911 TTAACTATCA
1691921 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
** * *
1691940 CAACGACAACTGTATACTATCG
1 CAACGA-ATTTGGA-A-AATCG
1691962 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
1691981 CAACGA
1 CAACGA
1691987 CAACTGTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 16 0.44
20 5 0.14
21 5 0.14
22 10 0.28
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:1691963 original size:22 final size:22
Alignment explanation
Indices: 1691936--1692007 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
1691926 AATTTGGAAA
1691936 ATCGCAACGACAACTGTATACT
1 ATCGCAACGACAACTGTATACT
** * *
1691958 ATCGCAACGA-ATTTGGA-A-A
1 ATCGCAACGACAACTGTATACT
1691977 ATCGCAACGACAACTGTATACT
1 ATCGCAACGACAACTGTATACT
1691999 ATCGCAACG
1 ATCGCAACG
1692008 CGAAATGGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (22 bp):
ATCGCAACGACAACTGTATACT
Found at i:1692027 original size:61 final size:60
Alignment explanation
Indices: 1691958--1692210 Score: 237
Period size: 61 Copynumber: 4.1 Consensus size: 60
1691948 ACTGTATACT
* *
1691958 ATCGCAA-CGAATTTGGAAAATCGCAACGACAACTGT-ATACTATCGCAACGCGAAATGGAAA
1 ATCGCAACCGAA-ATGGAAAATCGCAACG-CAATTGTCA-ACTATCGCAACGCGAAATGGAAA
* ** * * * * * **
1692019 ATCGCAACGCGAATTTCAACTATCGCAACGCGAAATG-GAA-AATCGCAACGCG-ACTGTAGACT
1 ATCGCAAC-CGAAATGGAA-AATCGCAACGC-AATTGTCAACTATCGCAACGCGAAATG--GAAA
* *
1692081 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAAC-CGAAATGGAAAATCGCAACGCAATTGTCAACTATCGCAACGCGAAATGGAAA
* *
1692142 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAAC-CGAAATGGAAAATCGCAACGCAATTGTCAACTATCGCAACGCGAAATGGAAA
1692203 ATCGCAAC
1 ATCGCAAC
1692211 GCGATTTTCA
Statistics
Matches: 162, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
60 5 0.03
61 101 0.62
62 35 0.22
63 21 0.13
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.17
Consensus pattern (60 bp):
ATCGCAACCGAAATGGAAAATCGCAACGCAATTGTCAACTATCGCAACGCGAAATGGAAA
Found at i:1692132 original size:123 final size:124
Alignment explanation
Indices: 1691930--1692154 Score: 341
Period size: 123 Copynumber: 1.8 Consensus size: 124
1691920 ACAACGAATT
* *
1691930 TGGAAAATCGCAACGACAACTGTATACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTA
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTA
1691995 TACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
66 TACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
* * * *
1692054 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGATTT
1 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA--CGAATATGGAAAATCGCAACGACAACTG
1692116 TCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAA
64 T-ATACTATCGCAACGCGAAATGGAAAATCGCAACGCGAA
1692155 ATGGAAAATC
Statistics
Matches: 92, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
123 57 0.62
124 31 0.34
125 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (124 bp):
TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTA
TACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
Found at i:1692152 original size:41 final size:41
Alignment explanation
Indices: 1691930--1692154 Score: 275
Period size: 41 Copynumber: 5.5 Consensus size: 41
1691920 ACAACGAATT
* *
1691930 TGGAAAATCGCAACGAC-AACTGT-ATACTATCGCAA--CGAATT
1 TGGAAAATCGCAACG-CGAA-TTTCA-ACTATCGCAACGCGAA-A
*
1691971 TGGAAAATCGCAACGAC-AACTGT-ATACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGAA-TTTCA-ACTATCGCAACGCGAAA
1692013 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
* *
1692054 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATTTCA-ACTATCGCAACGCGAAA
*
1692095 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
1692136 TGGAAAATCGCAACGCGAA
1 TGGAAAATCGCAACGCGAA
1692155 ATGGAAAATC
Statistics
Matches: 171, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
40 1 0.01
41 147 0.86
42 19 0.11
43 4 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAA
Found at i:1692152 original size:82 final size:82
Alignment explanation
Indices: 1691930--1692153 Score: 330
Period size: 82 Copynumber: 2.7 Consensus size: 82
1691920 ACAACGAATT
* * *
1691930 TGGAAAATCGCAACGAC-AACTGT-ATACTATCGCAA--CGAATTTGGAAAATCGCAACGACAAC
1 TGGAAAATCGCAACG-CGAA-TTTCA-ACTATCGCAACGCGAA-ATGGAAAATCGCAACG-CGAC
*
1691991 TGTATACTATCGCAACGCGAAA
61 TGTAGACTATCGCAACGCGAAA
1692013 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAG
1 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAG
1692078 ACTATCGCAACGCGAAA
66 ACTATCGCAACGCGAAA
*
1692095 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1692154 AATGGAAAAT
Statistics
Matches: 132, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
82 95 0.72
83 33 0.25
84 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (82 bp):
TGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAG
ACTATCGCAACGCGAAA
Found at i:1692194 original size:82 final size:81
Alignment explanation
Indices: 1691999--1692173 Score: 271
Period size: 82 Copynumber: 2.1 Consensus size: 81
1691989 ACTGTATACT
*
1691999 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGCAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
* **
1692064 CAACGCGACTGTAGACT
66 CAACGCGAATG-AGAAA
* *
1692081 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGCAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
1692146 CAACGCGAAATG-GAAA
66 CAACGCG-AATGAGAAA
1692162 ATCGCAACGCGA
1 ATCGCAACGCGA
1692174 TTTTCAACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
81 14 0.16
82 71 0.81
83 3 0.03
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (81 bp):
ATCGCAACGCGAAATGCAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
CAACGCGAATGAGAAA
Found at i:1692211 original size:61 final size:61
Alignment explanation
Indices: 1691996--1692214 Score: 289
Period size: 61 Copynumber: 3.6 Consensus size: 61
1691986 ACAACTGTAT
* ** * ** **
1691996 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCA
* * **
1692058 A-AATCGCAACGCG-ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATG--GAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1692119 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1692180 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGA
1692215 TTTTCAACTA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
60 3 0.02
61 101 0.74
62 30 0.22
63 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.16
Consensus pattern (61 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:1692256 original size:41 final size:41
Alignment explanation
Indices: 1692142--1692239 Score: 196
Period size: 41 Copynumber: 2.4 Consensus size: 41
1692132 GAAATGGAAA
1692142 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1692183 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1692224 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
1692240 CAACGCGAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:1692270 original size:102 final size:102
Alignment explanation
Indices: 1692040--1692239 Score: 366
Period size: 102 Copynumber: 2.0 Consensus size: 102
1692030 AATTTCAACT
1692040 ATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCG
1692105 CAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
66 CAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
* *
1692142 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATC
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGACTGT-AGACTATCGCAACGCGAAATGGAAAATC
1692206 GCAACGCGATTTTCAACTATCGCAACGCGAAATG
65 GCAACGCGATTTTCAACTATCGCAACGCGAAATG
1692240 CAACGCGAAT
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
102 94 0.99
103 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (102 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAATCG
CAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:1694783 original size:11 final size:12
Alignment explanation
Indices: 1694760--1694789 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
1694750 AACTTCTTAT
1694760 TTATTTATTTTC
1 TTATTTATTTTC
1694772 TTATTT-TTTTC
1 TTATTTATTTTC
1694783 TTATTTA
1 TTATTTA
1694790 ATTGTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTATTTTC
Found at i:1694786 original size:23 final size:23
Alignment explanation
Indices: 1694760--1694831 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 23
1694750 AACTTCTTAT
*
1694760 TTATTTATTTTCTTATTTTTTTC
1 TTATTTATTTTCTTATTTTTTTA
**
1694783 TTATTTAATTGTTCAAATTATTTTTA
1 TTATTT-ATT-TTCTTATT-TTTTTA
*
1694809 TTATTTAGTTTTTTTTATTTTTT
1 TTATTTA--TTTTCTTATTTTTT
1694832 AGTTGTATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
23 6 0.16
24 3 0.08
25 11 0.29
26 16 0.42
27 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (23 bp):
TTATTTATTTTCTTATTTTTTTA
Found at i:1694823 original size:17 final size:17
Alignment explanation
Indices: 1694803--1694835 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1694793 GTTCAAATTA
1694803 TTTTTATTATTTAGTTT
1 TTTTTATTATTTAGTTT
*
1694820 TTTTTATTTTTTAGTT
1 TTTTTATTATTTAGTT
1694836 GTATCGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTATTATTTAGTTT
Found at i:1696558 original size:24 final size:24
Alignment explanation
Indices: 1696531--1696592 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
1696521 CGTTCGTGAA
1696531 CGTTCGGTTATGTTCATTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
*
1696555 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTCATTTATGTT
**
1696579 CGTTCATTTATGTT
1 CGTTCGGTTATGTT
1696593 TAACCTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.21, T:0.55
Consensus pattern (24 bp):
CGTTCGGTTATGTTCATTTATGTT
Found at i:1696583 original size:14 final size:14
Alignment explanation
Indices: 1696542--1696592 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
1696532 GTTCGGTTAT
1696542 GTTCATTTATGTTC
1 GTTCATTTATGTTC
**
1696556 GTTCGGTTATGTTC
1 GTTCATTTATGTTC
1696570 G----TTTATGTTC
1 GTTCATTTATGTTC
1696580 GTTCATTTATGTT
1 GTTCATTTATGTT
1696593 TAACCTAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
10 9 0.30
14 21 0.70
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:1697686 original size:16 final size:16
Alignment explanation
Indices: 1697665--1697709 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
1697655 AGGTCTCCAA
1697665 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
*
1697681 CGTTTATGTTCATGTT
1 CGTTTATGTTCGTGTT
*
1697697 CATTTATGTTCGT
1 CGTTTATGTTCGT
1697710 TTATTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:1697800 original size:16 final size:16
Alignment explanation
Indices: 1697779--1697811 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1697769 AAAAATTTAT
1697779 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1697795 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
1697811 T
1 T
1697812 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:1700779 original size:22 final size:24
Alignment explanation
Indices: 1700754--1700798 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1700744 AATTCAATTT
1700754 TCAAA-TATCTTT-CTATTTTATC
1 TCAAAGTATCTTTACTATTTTATC
* *
1700776 TCAAAGTATTTTTATTATTTTAT
1 TCAAAGTATCTTTACTATTTTAT
1700799 AAACATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (24 bp):
TCAAAGTATCTTTACTATTTTATC
Found at i:1703633 original size:14 final size:14
Alignment explanation
Indices: 1703606--1703653 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1703596 TGGGTATTTA
* *
1703606 GTGGGTGGGAGGAT
1 GTGGGCGGGCGGAT
1703620 GTGGGCGGGCGGAT
1 GTGGGCGGGCGGAT
* *
1703634 GCGGGGCGGGCTGAT
1 G-TGGGCGGGCGGAT
1703649 GTGGG
1 GTGGG
1703654 GTGGGTAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.08, C:0.10, G:0.65, T:0.17
Consensus pattern (14 bp):
GTGGGCGGGCGGAT
Found at i:1710724 original size:16 final size:16
Alignment explanation
Indices: 1710684--1710724 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1710674 CTTGTTATTG
*
1710684 ATCTGATTTGACATTT
1 ATCTGACTTGACATTT
* *
1710700 ACCTAACTTGACATTT
1 ATCTGACTTGACATTT
1710716 ATCTGACTT
1 ATCTGACTT
1710725 ATATATTACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (16 bp):
ATCTGACTTGACATTT
Found at i:1710988 original size:23 final size:24
Alignment explanation
Indices: 1710946--1710999 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
1710936 CAATGATTAA
*
1710946 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAATTTAATTT
1710970 ATGTAAATT-ATATAATTTAATTT
1 ATGTAAATTAATATAATTTAATTT
1710993 ATGTAAA
1 ATGTAAA
1711000 GGAAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAATTTAATTT
Found at i:1714125 original size:121 final size:121
Alignment explanation
Indices: 1713911--1714159 Score: 471
Period size: 121 Copynumber: 2.1 Consensus size: 121
1713901 AAATTGTAAG
1713911 ATTTTAAAACTTCGGGTCTAATTTTGAAAAATTAGAAAAGTTTAGGGACTTAGATTAAAATATCT
1 ATTTTAAAACTTCGGGTCTAATTTTGAAAAATTAGAAAAGTTTAGGGACTTAGATTAAAATATCT
*
1713976 TGGTATTGGATTAAATAGCAAAGAAAGAAAGAAATGAAGGGTATTATGGTATTTTT
66 TGGTATTGGATTAAATAGCAAAGAAAGAAAGAAATGAAGGGTATTATGGTATTTTC
*
1714032 ATTTTAAAACTTCGGGTCTAATTTTGAAAAATTAGAAAAGTTTAGGGACTTAGATTGAAATATCT
1 ATTTTAAAACTTCGGGTCTAATTTTGAAAAATTAGAAAAGTTTAGGGACTTAGATTAAAATATCT
*
1714097 TGGTGTTGGATTAAATAGCAAAGAAAGAAAGAAATGAAGGGTATTATGGTATTTTC
66 TGGTATTGGATTAAATAGCAAAGAAAGAAAGAAATGAAGGGTATTATGGTATTTTC
1714153 ATTTTAA
1 ATTTTAA
1714160 TGGATACTTT
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 125 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (121 bp):
ATTTTAAAACTTCGGGTCTAATTTTGAAAAATTAGAAAAGTTTAGGGACTTAGATTAAAATATCT
TGGTATTGGATTAAATAGCAAAGAAAGAAAGAAATGAAGGGTATTATGGTATTTTC
Found at i:1714853 original size:35 final size:35
Alignment explanation
Indices: 1714803--1714875 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
1714793 AGCAAATTTT
* * *
1714803 CATGGGTATCGATACCGAA-GTGGTAGTATCGGTAC
1 CATGGGTATCAATACC-AATGTAGAAGTATCGGTAC
1714838 CATGGGTATCAATACCAATGTAGAAGTATCGGTAC
1 CATGGGTATCAATACCAATGTAGAAGTATCGGTAC
1714873 CAT
1 CAT
1714876 TTTTTACAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 2 0.06
35 32 0.94
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (35 bp):
CATGGGTATCAATACCAATGTAGAAGTATCGGTAC
Found at i:1715755 original size:21 final size:21
Alignment explanation
Indices: 1715729--1715799 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
1715719 GTCCTTCGGG
*
1715729 ACATATATTTGATCATTTGGA
1 ACATATATTTGGTCATTTGGA
** * *
1715750 ACATATATGCGGTCCTTCAGG-
1 ACATATATTTGGTCATT-TGGA
*
1715771 ACATATATTTGGTCTTTTGGA
1 ACATATATTTGGTCATTTGGA
1715792 ACATATAT
1 ACATATAT
1715800 GTGTTTCTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (21 bp):
ACATATATTTGGTCATTTGGA
Found at i:1715776 original size:42 final size:42
Alignment explanation
Indices: 1715717--1715800 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
1715707 GGGTTCTACA
*
1715717 CGGTCCTTCGGGACATATATTTGATCATTTGGAACATATATG
1 CGGTCCTTCAGGACATATATTTGATCATTTGGAACATATATG
* *
1715759 CGGTCCTTCAGGACATATATTTGGTCTTTTGGAACATATATG
1 CGGTCCTTCAGGACATATATTTGATCATTTGGAACATATATG
1715801 TGTTTCTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
CGGTCCTTCAGGACATATATTTGATCATTTGGAACATATATG
Found at i:1716194 original size:16 final size:16
Alignment explanation
Indices: 1716189--1716239 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
1716179 GTAAACGAAC
*
1716189 ACGAACGCGAACATAA
1 ACGAACACGAACATAA
1716205 ACGAACACGAACATAA
1 ACGAACACGAACATAA
*
1716221 ATGAACACGAACATAA
1 ACGAACACGAACATAA
1716237 ACG
1 ACG
1716240 TTGGAGACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.53, C:0.24, G:0.16, T:0.08
Consensus pattern (16 bp):
ACGAACACGAACATAA
Found at i:1716199 original size:22 final size:22
Alignment explanation
Indices: 1716174--1716216 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1716164 AATAAATAAA
*
1716174 CGAACGTAAACGAACACGAACG
1 CGAACATAAACGAACACGAACG
1716196 CGAACATAAACGAACACGAAC
1 CGAACATAAACGAACACGAAC
1716217 ATAAATGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.28, G:0.19, T:0.05
Consensus pattern (22 bp):
CGAACATAAACGAACACGAACG
Found at i:1717207 original size:20 final size:20
Alignment explanation
Indices: 1717178--1717216 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1717168 AAAGCTCATA
*
1717178 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1717198 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1717217 GTGGTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1719014 original size:14 final size:14
Alignment explanation
Indices: 1718997--1719038 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
1718987 GATTGGGTTA
*
1718997 AACATAAATGAACG
1 AACATAAACGAACG
*
1719011 AACATAAACGAGCG
1 AACATAAACGAACG
*
1719025 AACATAACCGAACG
1 AACATAAACGAACG
1719039 TTCACGAACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:1722512 original size:20 final size:19
Alignment explanation
Indices: 1722487--1722553 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
1722477 TCTTCATGGG
1722487 GTATCGATACCAAAGTGGTA
1 GTATCGATACCAAAGTGG-A
*
1722507 GTATCGGTACC--A-TGG-
1 GTATCGATACCAAAGTGGA
*
1722522 GTATCGATACCAATGTGGAA
1 GTATCGATACCAAAGTGG-A
*
1722542 GTATCGGTACCA
1 GTATCGATACCA
1722554 GTTTTTACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
15 10 0.26
17 3 0.08
18 4 0.11
20 21 0.55
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (19 bp):
GTATCGATACCAAAGTGGA
Found at i:1722525 original size:35 final size:35
Alignment explanation
Indices: 1722485--1722553 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
1722475 ATTCTTCATG
*
1722485 GGGTATCGATACCAAAGTGGTAGTATCGGTACCAT
1 GGGTATCGATACCAAAGTGGAAGTATCGGTACCAT
*
1722520 GGGTATCGATACCAATGTGGAAGTATCGGTACCA
1 GGGTATCGATACCAAAGTGGAAGTATCGGTACCA
1722554 GTTTTTACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (35 bp):
GGGTATCGATACCAAAGTGGAAGTATCGGTACCAT
Found at i:1723440 original size:21 final size:21
Alignment explanation
Indices: 1723416--1723487 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
1723406 CCTTCGAGAT
1723416 ATATATGTGATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * *
1723437 ATATATGCGGTTC-TTCGAGAC
1 ATATATGTGATCCTTTGGA-AC
*
1723458 ATATAT-TTAGTCCTTTGGAAC
1 ATATATGTGA-TCCTTTGGAAC
1723479 ATATATGTG
1 ATATATGTG
1723488 GTTCTTAAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
20 4 0.11
21 28 0.76
22 5 0.14
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:1723462 original size:42 final size:42
Alignment explanation
Indices: 1723401--1723493 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
1723391 AGGGTTCTAC
* *
1723401 GCGGTCCTTCGAGATATATATGTGA-TCCTTTGGAACATATAT
1 GCGGTTCTTCGAGACATATAT-TGAGTCCTTTGGAACATATAT
*
1723443 GCGGTTCTTCGAGACATATATTTAGTCCTTTGGAACATATAT
1 GCGGTTCTTCGAGACATATATTGAGTCCTTTGGAACATATAT
*
1723485 GTGGTTCTT
1 GCGGTTCTT
1723494 AAGGACAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.04
42 44 0.96
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.39
Consensus pattern (42 bp):
GCGGTTCTTCGAGACATATATTGAGTCCTTTGGAACATATAT
Found at i:1725002 original size:24 final size:24
Alignment explanation
Indices: 1724957--1725005 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1724947 GGTTTTTTAA
* **
1724957 GGTTCGGGTTTAGATTTGGGTTCG
1 GGTTCGGGTTTAGAATCAGGTTCG
*
1724981 GGTTCGGGTTTGGAATCAGGTTCG
1 GGTTCGGGTTTAGAATCAGGTTCG
1725005 G
1 G
1725006 CTTTGGTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.43, T:0.37
Consensus pattern (24 bp):
GGTTCGGGTTTAGAATCAGGTTCG
Found at i:1725048 original size:24 final size:23
Alignment explanation
Indices: 1725020--1725078 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
1725010 GGTTTGGATT
*
1725020 GGATTTGGGTTTGGGTTTAGGTTC
1 GGATTTGGGTTTAGGTTTAGG-TC
1725044 GGATTTGGGTTTAGGTTTAGGTC
1 GGATTTGGGTTTAGGTTTAGGTC
*
1725067 CGAGTTTGGGTT
1 GGA-TTTGGGTT
1725079 ATAGAAGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.10, C:0.05, G:0.41, T:0.44
Consensus pattern (23 bp):
GGATTTGGGTTTAGGTTTAGGTC
Done.