Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007298.1 Hibiscus syriacus cultivar Beakdansim tig00019423_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: 730416
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 3
Found at i:476261 original size:9 final size:9
Alignment explanation
Indices: 476244--476276 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
476234 AATTACCTAT
*
476244 GTGAGTAAC
1 GTGAATAAC
476253 GTGAATAAC
1 GTGAATAAC
476262 GTGAATAAC
1 GTGAATAAC
476271 GTGAAT
1 GTGAAT
476277 GTATGAATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.24
Consensus pattern (9 bp):
GTGAATAAC
Found at i:480207 original size:2 final size:2
Alignment explanation
Indices: 480200--480224 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
480190 AGATACACTT
480200 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
480225 TTAAAATGAT
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:501436 original size:21 final size:22
Alignment explanation
Indices: 501407--501454 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
501397 TTATAATTTA
* * *
501407 AAATAATAT-TATGATTTTAAT
1 AAATTATATATATAATTTAAAT
501428 AAATTATATATATAATTTAAAT
1 AAATTATATATATAATTTAAAT
*
501450 TAATT
1 AAATT
501455 TAAGAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATTATATATATAATTTAAAT
Found at i:503151 original size:34 final size:36
Alignment explanation
Indices: 503099--503178 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 36
503089 TGAGAATAAA
* *
503099 TTAATTTAAT-TTAAGAATAAATT-ATATAATAATAT
1 TTAATATAATATT-AGAATAAATTAATATAAGAATAT
* *
503134 TTAA-ATAATATTAGAATAATTTAATTTAAGAATAT
1 TTAATATAATATTAGAATAAATTAATATAAGAATAT
503169 TTAATATAAT
1 TTAATATAAT
503179 TTAAATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
34 13 0.34
35 20 0.53
36 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (36 bp):
TTAATATAATATTAGAATAAATTAATATAAGAATAT
Found at i:503160 original size:25 final size:26
Alignment explanation
Indices: 503100--503187 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 26
503090 GAGAATAAAT
*
503100 TAATTTAATTT-AAGAATAAATT-ATA
1 TAATTTAATTTAAAGAAT-ATTTAATA
* *
503125 TAA-TAATATTTAAATAATA-TTAGA-A
1 TAATTTA-ATTTAAAGAATATTTA-ATA
503150 TAATTTAATTT-AAGAATATTTAATA
1 TAATTTAATTTAAAGAATATTTAATA
*
503175 TAATTTAAATTAA
1 TAATTTAATTTAA
503188 TATATTCTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
24 11 0.22
25 30 0.60
26 9 0.18
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TAATTTAATTTAAAGAATATTTAATA
Found at i:503279 original size:25 final size:25
Alignment explanation
Indices: 503251--503312 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
503241 ATTATATAAA
503251 AAATTAATTTAATTTAAGATAAATT
1 AAATTAATTTAATTTAAGATAAATT
* * **
503276 AAATTAAATTAATTTATGATATTTT
1 AAATTAATTTAATTTAAGATAAATT
*
503301 AATTTAATTTAA
1 AAATTAATTTAA
503313 ATAAATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
AAATTAATTTAATTTAAGATAAATT
Found at i:511144 original size:15 final size:16
Alignment explanation
Indices: 511107--511142 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
511097 TATTTATAAA
*
511107 TAAAATCTGATATTTT
1 TAAAATCTAATATTTT
*
511123 TAAAATCTAATTTTTT
1 TAAAATCTAATATTTT
511139 TAAA
1 TAAA
511143 TCACTATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (16 bp):
TAAAATCTAATATTTT
Found at i:517721 original size:23 final size:23
Alignment explanation
Indices: 517660--517725 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
517650 CATGTGAATG
517660 ATATGATTTGTATG-ATGTATGA
1 ATATGATTTGTATGCATGTATGA
* ** * *
517682 ATCATGA-GTAAAGGCATGTGTGA
1 AT-ATGATTTGTATGCATGTATGA
517705 ATATGATTTGTATGCAT-TATG
1 ATATGATTTGTATGCATGTATG
517726 TCATGTGAAC
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (23 bp):
ATATGATTTGTATGCATGTATGA
Found at i:518245 original size:32 final size:32
Alignment explanation
Indices: 518204--518406 Score: 255
Period size: 32 Copynumber: 6.3 Consensus size: 32
518194 AGAGTCAAGT
* *
518204 ATTACCTATGTCTTTCAGGACATATAGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
518236 ATTACCTATGTCTTTCGGGACATATGGA-TGAA
1 ATTACCTATGTCTTTCGGGACATATGGACAG-A
* * * *
518268 ATTACATACGTCTTTCGGGACATATGGATAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * *
518300 ATTACCTATGTCTTTTGAGACATATGGACAAA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * * *
518332 ATTACCTATGTCTTTTGGGACATATTGACGGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
518364 ATTACCTATGTCTTTCGGGACATATGAACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
518396 ATTACCTATGT
1 ATTACCTATGT
518407 GAGTAACGTG
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
31 1 0.01
32 143 0.99
33 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (32 bp):
ATTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:518422 original size:9 final size:9
Alignment explanation
Indices: 518405--518437 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
518395 AATTACCTAT
*
518405 GTGAGTAAC
1 GTGAATAAC
518414 GTGAATAAC
1 GTGAATAAC
518423 GTGAATAAC
1 GTGAATAAC
518432 GTGAAT
1 GTGAAT
518438 GTATGAATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.24
Consensus pattern (9 bp):
GTGAATAAC
Found at i:520933 original size:31 final size:32
Alignment explanation
Indices: 520874--520938 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
520864 AAAGAAGTAA
520874 AAGTATCTTAAATTTCAAGAAAAAAATAAAAT
1 AAGTATCTTAAATTTCAAGAAAAAAATAAAAT
*
520906 AAGTATCTTAAATTTCAA-AGAAAAATAAAAT
1 AAGTATCTTAAATTTCAAGAAAAAAATAAAAT
520937 AA
1 AA
520939 AAATTTAGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.44
32 18 0.56
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (32 bp):
AAGTATCTTAAATTTCAAGAAAAAAATAAAAT
Found at i:522393 original size:2 final size:2
Alignment explanation
Indices: 522386--522414 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
522376 AGATACACTT
522386 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 T
522415 TTAAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:524508 original size:88 final size:88
Alignment explanation
Indices: 524359--524537 Score: 349
Period size: 88 Copynumber: 2.0 Consensus size: 88
524349 CATCATCACT
524359 TATTCTACACACTATACCTACATTGAAAACCACTTGCCCAAAAAAATCCAAAATCAAATTGATCT
1 TATTCTACACACTATACCTACATTGAAAACCACTTGCCCAAAAAAATCCAAAATCAAATTGATCT
524424 TGATAGTTTTATACGGTTACACA
66 TGATAGTTTTATACGGTTACACA
*
524447 TATTCTACACACTATACCTACATTGAAAACCACTTGGCCAAAAAAATCCAAAATCAAATTGATCT
1 TATTCTACACACTATACCTACATTGAAAACCACTTGCCCAAAAAAATCCAAAATCAAATTGATCT
524512 TGATAGTTTTATACGGTTACACA
66 TGATAGTTTTATACGGTTACACA
524535 TAT
1 TAT
524538 AGGCAACAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (88 bp):
TATTCTACACACTATACCTACATTGAAAACCACTTGCCCAAAAAAATCCAAAATCAAATTGATCT
TGATAGTTTTATACGGTTACACA
Found at i:543874 original size:22 final size:22
Alignment explanation
Indices: 543820--543883 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
543810 AAATATATAA
*
543820 TAAT-TTATAA-TTTAA-ATAT
1 TAATATTATAATTTTAATAAAT
*
543839 TAATATTATGATTTTAATAAAT
1 TAATATTATAATTTTAATAAAT
* *
543861 T-ATATATATAATTTAAATTAAT
1 TAATAT-TATAATTTTAATAAAT
543883 T
1 T
543884 TAAGAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 9 0.25
22 18 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATATTATAATTTTAATAAAT
Found at i:544030 original size:21 final size:23
Alignment explanation
Indices: 544006--544049 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
543996 AATTGTCTAA
*
544006 ATTAATTTAA-TTTA-AGAATAT
1 ATTAATATAATTTTATAGAATAT
544027 ATTAATATAATTTTATAGAATAT
1 ATTAATATAATTTTATAGAATAT
544050 GATTGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTAATATAATTTTATAGAATAT
Found at i:545184 original size:26 final size:26
Alignment explanation
Indices: 545123--545212 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
545113 GAGAATAAAT
*
545123 TAATTTAATTTAAGAATAAATT-ATA
1 TAATTTAATTTAAGAATATATTAATA
* *
545148 TAA-TAATATTTTA-AATAATATTAGA-A
1 TAATTTA-ATTTAAGAAT-ATATTA-ATA
545174 TAATTTAATTTAAGAATATATTAATA
1 TAATTTAATTTAAGAATATATTAATA
*
545200 TAATTTAAATTAA
1 TAATTTAATTTAA
545213 TATATTCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
24 5 0.10
25 13 0.25
26 28 0.54
27 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TAATTTAATTTAAGAATATATTAATA
Found at i:545995 original size:23 final size:23
Alignment explanation
Indices: 545952--545995 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
545942 CACCTTTGAG
*
545952 TTCACAACAGGAGCAATTTATTT
1 TTCACAACAGGAGCAACTTATTT
*
545975 TTCACAACAGGAGCACCTTAT
1 TTCACAACAGGAGCAACTTAT
545996 CATTTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (23 bp):
TTCACAACAGGAGCAACTTATTT
Found at i:548459 original size:13 final size:13
Alignment explanation
Indices: 548441--548465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
548431 AGAATATTAA
548441 TATAATTTAAATT
1 TATAATTTAAATT
548454 TATAATTTAAAT
1 TATAATTTAAAT
548466 ATTAATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATAATTTAAATT
Found at i:550829 original size:21 final size:19
Alignment explanation
Indices: 550804--550853 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
550794 ATAATTTATA
550804 ATAATTTAAATTAAGAATAT
1 ATAATTTAAATTAA-AATAT
* *
550824 ATTAATATAATTTAAAAT-T
1 A-TAATTTAAATTAAAATAT
550843 ATAATTTAAAT
1 ATAATTTAAAT
550854 ATTAGTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 2 0.08
20 4 0.16
21 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAATTTAAATTAAAATAT
Found at i:550847 original size:13 final size:14
Alignment explanation
Indices: 550829--550857 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
550819 AATATATTAA
550829 TATAATTTAAA-AT
1 TATAATTTAAATAT
550842 TATAATTTAAATAT
1 TATAATTTAAATAT
550856 TA
1 TA
550858 GTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAATTTAAATAT
Found at i:553920 original size:14 final size:16
Alignment explanation
Indices: 553890--553928 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
553880 TATTTATAAA
553890 TAAAATCTGATATTTT
1 TAAAATCTGATATTTT
* *
553906 TAAAATCTAATTTTTT
1 TAAAATCTGATATTTT
553922 TAAAATC
1 TAAAATC
553929 AACTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (16 bp):
TAAAATCTGATATTTT
Found at i:561801 original size:32 final size:32
Alignment explanation
Indices: 561760--562110 Score: 508
Period size: 32 Copynumber: 11.0 Consensus size: 32
561750 AGAGTCAAGT
* *
561760 ATTACCTATGTCTTTCAGGACATATAGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
561792 ATTACCTATGTCTTTCGGGACATATGGACA-A
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
561823 TATTACCTATGTCTTTCGGGACATATGGA-TGAA
1 -ATTACCTATGTCTTTCGGGACATATGGACAG-A
* * * *
561856 ATTACATACGTCTTTCGGGACATATGGATAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * *
561888 ATTACCTATGTCTTTTGAGACATATGGACAAA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * * *
561920 ATTACCTATGTCTTTTGGGACATATTGACGGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
561952 ATTACCTATGTCTTTCGGGACATATGAACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
561984 ATTACCTATGTCTTTCGGGACATATGGACAGG
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
562016 ATTACCTATGTCTTTCGGGACATATGGACATA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
562048 ATTACCTATGTCTTTCGGGACATATGGACATA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
562080 ATTACCTATGTCTTTCGGGACATATGGACAG
1 ATTACCTATGTCTTTCGGGACATATGGACAG
562111 TTACATATGT
Statistics
Matches: 286, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
31 1 0.00
32 283 0.99
33 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (32 bp):
ATTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:562342 original size:3 final size:3
Alignment explanation
Indices: 562334--562381 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
562324 TATGAAATGC
562334 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
562380 AT
1 AT
562382 ATTTTATACC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:562734 original size:22 final size:23
Alignment explanation
Indices: 562706--562758 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
562696 GACCGAAATT
*
562706 ACTGTAGCAAGGGTATCGGTA-C
1 ACTGTAGCAAGGGTATCGATACC
562728 ACTGTAGC-AGGGTATCGATACC
1 ACTGTAGCAAGGGTATCGATACC
*
562750 CCTGTAGCA
1 ACTGTAGCA
562759 TTCTGGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (23 bp):
ACTGTAGCAAGGGTATCGATACC
Found at i:566776 original size:32 final size:32
Alignment explanation
Indices: 566735--567139 Score: 493
Period size: 32 Copynumber: 12.9 Consensus size: 32
566725 AGAGTCGGGT
*
566735 ATTACCTATGTCTTTCGAGACATATGGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
566767 ATTACCTATGTCTTTCGGGACATATGGATAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * *
566799 ATTACCTATGTCTTTCGGGGCATTTAGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * * *
566831 ATTACCTACGTCTTTTGGGACATATGGATATA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
566863 ATTACCTATGTCTTTTGGGACATATGGACAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
566895 ATTACCTATGTCTTTCGGGACATATAGATAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
566927 ATTACCTATGTCTTTCAGGACATATGGACAGT
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
566959 ATTA-C-ATGTCTTTTGGGACATATGGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
*
566989 ATTACCTATGTCTTTCGGGATATATGGACAGA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* * * *
567021 ATTAACTATGTCTTT-GGGACACATGAACATA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
567052 ATTACC--TGTCTTTCGGGACATATAGACATA
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
567082 ATTACCTATGTCTTTAGGGACATTTGGAC--A
1 ATTACCTATGTCTTTCGGGACATATGGACAGA
* *
567112 ATTACCTATGT-TCTTAGGAACATATGGA
1 ATTACCTATGTCT-TTCGGGACATATGGA
567140 TAGGTCATTC
Statistics
Matches: 321, Mismatches: 46, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
29 8 0.02
30 70 0.22
31 19 0.06
32 224 0.70
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (32 bp):
ATTACCTATGTCTTTCGGGACATATGGACAGA
Found at i:567357 original size:3 final size:3
Alignment explanation
Indices: 567349--567386 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
567339 TATGAGATAC
567349 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
567387 GCCTCACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:567732 original size:22 final size:22
Alignment explanation
Indices: 567704--567756 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
567694 GACCGAAATT
*
567704 ACTGTAGCAAGGGTATCGGTA-C
1 ACTGTAGCAA-GGTATCGATACC
*
567726 ACTGTAGTAAGGTATCGATACC
1 ACTGTAGCAAGGTATCGATACC
*
567748 CCTGTAGCA
1 ACTGTAGCA
567757 TTCTGGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (22 bp):
ACTGTAGCAAGGTATCGATACC
Found at i:569104 original size:127 final size:125
Alignment explanation
Indices: 568846--569092 Score: 367
Period size: 127 Copynumber: 2.0 Consensus size: 125
568836 GAATATAACT
568846 TAAAACAATTTCATTATGATTTTGTATATTGAATCATAATATTGTTTAAATATTTAATGATAGTG
1 TAAAACAATTTCATTATGATTTTGTATATTGAATCATAATATTGTTTAAATATTTAATGATAGTG
** * ** * *
568911 TAATCAAAATAAGAAAATTTTGAAATTAAAATGATGTTAATTTAAGATGAATATAACTTTTT
66 TAATCAAAATAAGAAAATTTTGAAATT-AAATGA-GTTAATACAAAAAAAATATAAATTTTA
568973 TAAAACAATTTCATTATGATTTTGTATATTGAATCATAATATTGTTTAAATATTTAATGATAGTG
1 TAAAACAATTTCATTATGATTTTGTATATTGAATCATAATATTGTTTAAATATTTAATGATAGTG
*
569038 TAATCAAAATAAGAAAATTTTGAAATT-TATCGA-TTAA-ACAAAAAAAAT-TAAATTT
66 TAATCAAAATAAGAAAATTTTGAAATTAAAT-GAGTTAATACAAAAAAAATATAAATTT
569093 AAGTAAATAA
Statistics
Matches: 112, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
122 6 0.05
123 6 0.05
124 4 0.04
125 2 0.02
126 2 0.02
127 92 0.82
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (125 bp):
TAAAACAATTTCATTATGATTTTGTATATTGAATCATAATATTGTTTAAATATTTAATGATAGTG
TAATCAAAATAAGAAAATTTTGAAATTAAATGAGTTAATACAAAAAAAATATAAATTTTA
Found at i:571545 original size:11 final size:11
Alignment explanation
Indices: 571529--571557 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
571519 AAAGGCCATT
571529 TACTTCACATC
1 TACTTCACATC
571540 TACTTCACATC
1 TACTTCACATC
571551 TACTTCA
1 TACTTCA
571558 TTTCTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (11 bp):
TACTTCACATC
Found at i:573529 original size:23 final size:23
Alignment explanation
Indices: 573502--573555 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
573492 GGAATGTGGG
* *
573502 ATTCCCATGTGAATGGAATTTAC
1 ATTCCCATGGGAATAGAATTTAC
573525 ATTCCCATGGGAATAGAATTTAC
1 ATTCCCATGGGAATAGAATTTAC
*
573548 GTTCCCAT
1 ATTCCCAT
573556 ATTTGGTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (23 bp):
ATTCCCATGGGAATAGAATTTAC
Found at i:576303 original size:22 final size:22
Alignment explanation
Indices: 576275--576318 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
576265 TATTTGGAAC
576275 CAGGTTTGTCTCATGGTACTGG
1 CAGGTTTGTCTCATGGTACTGG
576297 CAGGTTTGTCTCATGGTACTGG
1 CAGGTTTGTCTCATGGTACTGG
576319 TGTTTCTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.32, T:0.36
Consensus pattern (22 bp):
CAGGTTTGTCTCATGGTACTGG
Found at i:584173 original size:18 final size:18
Alignment explanation
Indices: 584149--584191 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
584139 ATTGAACTCA
584149 CCAAACTCATTTAATATC
1 CCAAACTCATTTAATATC
*
584167 TCAAACTCATTTAATATC
1 CCAAACTCATTTAATATC
584185 CCAAACT
1 CCAAACT
584192 GATTCAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
CCAAACTCATTTAATATC
Found at i:587532 original size:78 final size:78
Alignment explanation
Indices: 587403--587558 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
587393 TGCTTGATTG
587403 AAACCCCCTCTGTTTTAGAATTGATTTCCTGCAAACTTTTGAGCCAAATGTTTCTCTCCCTAGAT
1 AAACCCCCTCTGTTTTAGAATTGATTTCCTGCAAACTTTTGAGCCAAATGTTTCTCTCCCTAGAT
587468 CTTTTATAAACTC
66 CTTTTATAAACTC
587481 AAACCCCCTCTGTTTTAGAATTGATTTCCTGCAAACTTTTGAGCCAAATGTTTCTCTCCCTAGAT
1 AAACCCCCTCTGTTTTAGAATTGATTTCCTGCAAACTTTTGAGCCAAATGTTTCTCTCCCTAGAT
*
587546 CTTTTATAGACTC
66 CTTTTATAAACTC
587559 TTATAACTTC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (78 bp):
AAACCCCCTCTGTTTTAGAATTGATTTCCTGCAAACTTTTGAGCCAAATGTTTCTCTCCCTAGAT
CTTTTATAAACTC
Found at i:598486 original size:14 final size:14
Alignment explanation
Indices: 598467--598493 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
598457 GCTACCCGCA
598467 AACGAAAATATTTG
1 AACGAAAATATTTG
598481 AACGAAAATATTT
1 AACGAAAATATTT
598494 AAGCAAGAGA
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:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
AACGAAAATATTTG
Found at i:600412 original size:22 final size:22
Alignment explanation
Indices: 600387--600429 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
600377 ACATATAAAT
600387 AACTAAAT-TATAATAAAAATAA
1 AACTAAATCTA-AATAAAAATAA
*
600409 AACTAAATCTAATTAAAAATA
1 AACTAAATCTAAATAAAAATA
600430 TAGGGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
AACTAAATCTAAATAAAAATAA
Found at i:601478 original size:114 final size:114
Alignment explanation
Indices: 601265--602108 Score: 1505
Period size: 114 Copynumber: 7.4 Consensus size: 114
601255 ATAAGCTCTT
* * * * *
601265 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAA-ATGATGGATTCAAGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601329 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
601378 GATGAGTTTTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601443 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
601492 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601557 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
601606 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601670 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
601719 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601784 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
601833 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
601897 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
601946 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
602011 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
602060 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAA
602109 ATGATAGATT
Statistics
Matches: 699, Mismatches: 29, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
113 263 0.38
114 436 0.62
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (114 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAGGT
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:601685 original size:227 final size:227
Alignment explanation
Indices: 601265--602118 Score: 1559
Period size: 227 Copynumber: 3.8 Consensus size: 227
601255 ATAAGCTCTT
* * * *
601265 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAA-ACTGATCCATCAA-ATGATGGATTCAAG
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGA-TAATCCATCAATTTGATGAATTCAGG
*
601328 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCA
65 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
601393 TTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAA
130 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAGGTAAAAGGTTGAACAAA
601458 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
194 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
601492 GATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
601557 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
601622 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
131 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
601687 CTTCTCATTATGAACTTCTTCTTCCTTCTTCA
196 CTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
601719 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
601784 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
601849 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
131 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
601914 CTTCTCATTATGAACTTCTTCTTCCTTCTTCA
196 CTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
601946 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
602011 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
66 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
602076 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATAGATT
131 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT
602119 TGAATCTTTG
Statistics
Matches: 612, Mismatches: 13, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
227 504 0.82
228 108 0.18
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (227 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCA
Found at i:601687 original size:341 final size:340
Alignment explanation
Indices: 601265--602108 Score: 1544
Period size: 341 Copynumber: 2.5 Consensus size: 340
601255 ATAAGCTCTT
* *
601265 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAACTGATCCATCAAATGATGGATTCAAGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
*
601330 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTCATT
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
601395 ATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATT
131 ATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATT
601460 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
196 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
*
601525 AAAGATAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACT
261 AAAGATAATCCATCAA-ATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACT
601590 TCTTCTTCCTTCTTCA
325 TCTTCTTCCTTCTTCA
601606 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
601671 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
66 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
601736 ATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATT
131 ATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATT
*
601801 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGA
196 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
* * *
601866 AAAGCTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
261 AAAGATAATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
601931 CTTCTTCCTTCTTCA
326 CTTCTTCCTTCTTCA
* * * *
601946 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
1 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAGGT
602011 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
65 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
602076 TATGAACTTTCTCTGGAAAAGCTGATCCATCAA
130 TATGAACTTTCTCTGGAAAAGTTAATCCATCAA
602109 ATGATAGATT
Statistics
Matches: 488, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
340 109 0.22
341 379 0.78
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (340 bp):
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGTA
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGA
AAAGATAATCCATCAAATGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCA
Found at i:602997 original size:83 final size:84
Alignment explanation
Indices: 602850--603507 Score: 1138
Period size: 83 Copynumber: 7.9 Consensus size: 84
602840 GTAGTTCTTA
*
602850 CCAAACCATATCAGATAACTCAAAGAACACTTCCAGAAGA-GCTATTG-GCAAATTCATCTTTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
*
602913 AATTTAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
602932 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
602996 AATTCAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
603015 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATC-TTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
*
603079 AGTT-AATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
*
603097 CCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATC-TTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
603161 AAATTCAATGATTGGTTCTG
66 -AATTCAATGATTGGTTCTG
* *
603181 CCAAATCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
603246 AATTCAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
* *
603265 CCAAACCAGATCAGATAACTCAAAGAATACTTTCAGAAGATGCTATTG-GCAAATTCATCTTTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
*
603329 AATTCAATAATTGGTTCTG
66 AATTCAATGATTGGTTCTG
*
603348 CCAGACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
603412 AATTCAATGATTGGTTCTG
66 AATTCAATGATTGGTTCTG
603431 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATC-TTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
*
603495 AGTT-AATGATTGG
66 AATTCAATGATTGG
603508 ACTAAGATAT
Statistics
Matches: 555, Mismatches: 15, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
82 125 0.23
83 266 0.48
84 160 0.29
85 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTTTC
AATTCAATGATTGGTTCTG
Found at i:604282 original size:19 final size:20
Alignment explanation
Indices: 604258--604299 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
604248 AATAGAAAAG
*
604258 AATAAATTGAATTTCCAA-A
1 AATAAATTGAATCTCCAATA
604277 AATAAATTGAATCTCCAATA
1 AATAAATTGAATCTCCAATA
604297 AAT
1 AAT
604300 TGAACTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (20 bp):
AATAAATTGAATCTCCAATA
Found at i:604656 original size:17 final size:17
Alignment explanation
Indices: 604634--604672 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
604624 TGACCCCCCA
604634 TTTTTCTTTTTTTCTTT
1 TTTTTCTTTTTTTCTTT
604651 TTTTTCTTTTTTTCTTT
1 TTTTTCTTTTTTTCTTT
604668 TTTTT
1 TTTTT
604673 TTCAAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (17 bp):
TTTTTCTTTTTTTCTTT
Found at i:604672 original size:9 final size:8
Alignment explanation
Indices: 604634--604671 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
604624 TGACCCCCCA
604634 TTTTTCTT
1 TTTTTCTT
604642 TTTTTCTTT
1 TTTTTC-TT
604651 TTTTTCTT
1 TTTTTCTT
604659 TTTTTCTT
1 TTTTTCTT
604667 TTTTT
1 TTTTT
604672 TTTCAAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:616148 original size:22 final size:22
Alignment explanation
Indices: 616123--616165 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
616113 ACATATAAAT
616123 AACTAAAT-TATAATAAAAATAA
1 AACTAAATCTA-AATAAAAATAA
*
616145 AACTAAATCTAATTAAAAATA
1 AACTAAATCTAAATAAAAATA
616166 TAGGGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
AACTAAATCTAAATAAAAATAA
Found at i:617399 original size:3 final size:3
Alignment explanation
Indices: 617391--617432 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
617381 TTAATATATT
*
617391 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
617433 AAAAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:619699 original size:24 final size:24
Alignment explanation
Indices: 619668--619727 Score: 111
Period size: 24 Copynumber: 2.5 Consensus size: 24
619658 TGTGGTAGCT
*
619668 GGCCGTTTGGCCGGCCATTTAATC
1 GGCCGTTTCGCCGGCCATTTAATC
619692 GGCCGTTTCGCCGGCCATTTAATC
1 GGCCGTTTCGCCGGCCATTTAATC
619716 GGCCGTTTCGCC
1 GGCCGTTTCGCC
619728 TTTGGCCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.10, C:0.33, G:0.28, T:0.28
Consensus pattern (24 bp):
GGCCGTTTCGCCGGCCATTTAATC
Found at i:627208 original size:21 final size:23
Alignment explanation
Indices: 627173--627233 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
627163 TTTGTGCAGA
*
627173 GGGAATCGA-TCCCCCCATG-A-
1 GGGAACCGATTCCCCCCATGAAG
* **
627193 GGGAACCTATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATGAAG
627216 GGGAACCGATTCCCCCCA
1 GGGAACCGATTCCCCCCA
627234 CAGGGGAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 7 0.23
21 8 0.26
22 1 0.03
23 15 0.48
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCATGAAG
Found at i:630658 original size:16 final size:15
Alignment explanation
Indices: 630639--630669 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
630629 ATCGATTAAC
630639 TCAACAATAAGTTTAT
1 TCAACAATAA-TTTAT
630655 TCAACAATAATTTAT
1 TCAACAATAATTTAT
630670 CTCTCTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (15 bp):
TCAACAATAATTTAT
Found at i:636736 original size:31 final size:31
Alignment explanation
Indices: 636662--636738 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
636652 GTTAACCCGT
*
636662 GGTGACCGCATCTTAAATAAATAAAAACAAA
1 GGTGACCGTATCTTAAATAAATAAAAACAAA
* ** * *
636693 AGTGATTGTATCTTAATTAAATAAAAACGAA
1 GGTGACCGTATCTTAAATAAATAAAAACAAA
*
636724 GGTGACCATATCTTA
1 GGTGACCGTATCTTA
636739 TGTATTTTGA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.27
Consensus pattern (31 bp):
GGTGACCGTATCTTAAATAAATAAAAACAAA
Found at i:640153 original size:21 final size:21
Alignment explanation
Indices: 640038--640153 Score: 58
Period size: 21 Copynumber: 5.6 Consensus size: 21
640028 GCGAAATAAA
*
640038 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
*** * *
640058 AATCGCAA-ATTAGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* * **
640078 AATCGCAACTCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* ** *
640099 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
640119 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
640141 AATCGCAACGCGA
1 AATCGCAACGCGA
640154 ACATATAAAT
Statistics
Matches: 67, Mismatches: 25, Indels: 7
0.68 0.25 0.07
Matches are distributed among these distances:
19 1 0.01
20 23 0.34
21 41 0.61
22 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:640230 original size:41 final size:40
Alignment explanation
Indices: 640182--640436 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
640172 GATTCTGACT
* * *
640182 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* *
640223 ATAGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* * *
640264 ATAGAAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* * *
640305 ATCGTAACGATAATACGTAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
640345 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * * *
640385 ATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
640425 ATCGCAACGAGA
1 ATCGCAACGAGA
640437 TTCTGACTAT
Statistics
Matches: 194, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
40 103 0.53
41 91 0.47
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:640383 original size:20 final size:20
Alignment explanation
Indices: 640182--640433 Score: 222
Period size: 20 Copynumber: 12.4 Consensus size: 20
640172 GATTCTGACT
*
640182 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
640203 ATCGCAACGCGTATCCATAA
1 ATCGCAACGCGTATCCGTAA
* * *
640223 ATAGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
640244 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
640264 ATAGAAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
640285 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
640305 ATCGTAACG-ATAATACGTAA
1 ATCGCAACGCGT-ATCCGTAA
*
640325 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
640345 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
640365 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
640385 ATCGCAATGCGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
640405 ATCGCAATGCGAATCTGTAA
1 ATCGCAACGCGTATCCGTAA
640425 ATCGCAACG
1 ATCGCAACG
640434 AGATTCTGAC
Statistics
Matches: 186, Mismatches: 37, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
19 1 0.01
20 137 0.74
21 48 0.26
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:640452 original size:80 final size:80
Alignment explanation
Indices: 640141--640436 Score: 324
Period size: 80 Copynumber: 3.7 Consensus size: 80
640131 GATTTTCCAG
* * ** * * * * *
640141 AATCGCAACGCGAACATATAAATCGAAACGCGATTCTG-ACTATCGCAACGAGTATCCGTAAAAT
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTA-AATCGCAACGAGAATACGT-AAAT
* *
640205 CGCAACGCGTATCCATA
64 CGCAATGCGTATCCGTA
* * * * * * *
640222 AATAGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATAGAAACGACAATACGTAAAAT
1 AATCGCAACGAGAATACGT-AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATACGT-AAAT
*
640287 CGCAACGCGTATCCGTA
64 CGCAATGCGTATCCGTA
* * *
640304 AATCGTAACGATAATACGTAAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATCG
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACGAGAATACGTAAATCG
640369 CAATGCGTATCCGTA
66 CAATGCGTATCCGTA
* * *
640384 AATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGTAAATCGCAACGAGA
1 AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACGAGA
640437 TTCTGACTAT
Statistics
Matches: 182, Mismatches: 31, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
80 67 0.37
81 49 0.27
82 65 0.36
83 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (80 bp):
AATCGCAACGAGAATACGTAAATCGCAACGCGAATCTGTAAATCGCAACGAGAATACGTAAATCG
CAATGCGTATCCGTA
Found at i:641927 original size:21 final size:20
Alignment explanation
Indices: 641904--641975 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
641894 CAAGAACCCC
641904 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
641924 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
641945 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
641965 GTTGCGATTTT
1 GTTGCGATTTT
641976 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:642563 original size:20 final size:20
Alignment explanation
Indices: 642538--642706 Score: 118
Period size: 20 Copynumber: 8.5 Consensus size: 20
642528 TTTAAAAATC
642538 GCGTTGCGATTTACGGATAT
1 GCGTTGCGATTTACGGATAT
*
642558 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAT
* *
642578 GTCGTTGCGATTTACAGATAC
1 G-CGTTGCGATTTACGGATAT
* *
642599 GCATTGCGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* * *
642618 CTCATTGCGATTTACAGATA-
1 -GCGTTGCGATTTACGGATAT
** *
642638 -C-TTGTTATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* *
642655 CTCGTTGCGATTTACGGATAC
1 -GCGTTGCGATTTACGGATAT
642676 GCGTTGCGATTTTACGGATACT
1 GCGTTGCGA-TTTACGGATA-T
642698 -CGTTGCGAT
1 GCGTTGCGAT
642707 AGTCAAAATC
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
17 11 0.09
18 1 0.01
19 1 0.01
20 68 0.59
21 35 0.30
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAT
Found at i:642606 original size:41 final size:40
Alignment explanation
Indices: 642539--642767 Score: 207
Period size: 40 Copynumber: 5.8 Consensus size: 40
642529 TTAAAAATCG
* * *
642539 CGTTGCGATTTACGGATATGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
*
642580 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
* **
642620 CATTGCGATTTACAGATA--C-TTGTTATTTACGTATTCT
1 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
* * *
642657 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
* * ** * *
642698 CGTTGCGATAGT-CA-AAATCGCGTTGCGATTTATATGTTCG
1 CGTTGCGAT-TTACAGATA-CGCGTTGCGATTTACGTATTCT
** * *
642738 CGTTGCGATTTTTATATTCGCGTTGCGATT
1 CGTTGCGATTTACAGATACGCGTTGCGATT
642768 ATGGAAAATC
Statistics
Matches: 154, Mismatches: 26, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
37 32 0.21
38 1 0.01
39 2 0.01
40 62 0.40
41 56 0.36
42 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (40 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCT
Found at i:642657 original size:37 final size:38
Alignment explanation
Indices: 642539--642706 Score: 167
Period size: 41 Copynumber: 4.2 Consensus size: 38
642529 TTAAAAATCG
* * *
642539 CGTTGCGATTTACGGATATGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACAGATA--CATTGCGA-TTTACGTATTCT
642580 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCT
1 CGTTGCGATTTACAGATA--CATTGCGATTTACGTATTCT
* **
642620 CATTGCGATTTACAGATAC-TTGTTATTTACGTATTCT
1 CGTTGCGATTTACAGATACATTGCGATTTACGTATTCT
* * * *
642657 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACAGATA--CATTGCGA-TTTACGTATTCT
642698 CGTTGCGAT
1 CGTTGCGAT
642707 AGTCAAAATC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 32 0.29
38 1 0.01
39 1 0.01
40 32 0.29
41 44 0.40
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (38 bp):
CGTTGCGATTTACAGATACATTGCGATTTACGTATTCT
Found at i:642754 original size:22 final size:20
Alignment explanation
Indices: 642715--642767 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
642705 ATAGTCAAAA
* *
642715 TCGCGTTGCGATTTATATGT
1 TCGCGTTGCGATTTTTATAT
642735 TCGCGTTGCGATTTTTATAT
1 TCGCGTTGCGATTTTTATAT
642755 TCGCGTTGCGATT
1 TCGCGTTGCGATT
642768 ATGGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTATAT
Found at i:644681 original size:38 final size:38
Alignment explanation
Indices: 644630--644707 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
644620 CTATGTGATG
644630 GATCCACGTTTGTGTTTGTTAGGTTCAGAAGCAAGCAT
1 GATCCACGTTTGTGTTTGTTAGGTTCAGAAGCAAGCAT
644668 GATCCACGTTTGTGTTTGTTAGGTTCAGAAGCAAGCAT
1 GATCCACGTTTGTGTTTGTTAGGTTCAGAAGCAAGCAT
644706 GA
1 GA
644708 AGCCAGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (38 bp):
GATCCACGTTTGTGTTTGTTAGGTTCAGAAGCAAGCAT
Found at i:648698 original size:23 final size:23
Alignment explanation
Indices: 648672--648716 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
648662 AAGTCTGGGT
648672 AGGTTTTTGATGAGACCCACAAG
1 AGGTTTTTGATGAGACCCACAAG
648695 AGGTTTTTGATGAGACCCACAA
1 AGGTTTTTGATGAGACCCACAA
648717 ATCTGGGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (23 bp):
AGGTTTTTGATGAGACCCACAAG
Found at i:648800 original size:14 final size:15
Alignment explanation
Indices: 648765--648803 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
648755 TCTTATTTAA
*
648765 AATTTAGGGACTATTT
1 AATTTAGGGACTA-TG
648781 AATTTAGGGACTA-G
1 AATTTAGGGACTATG
648795 AATTTAGGG
1 AATTTAGGG
648804 TTTTCAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.36
Consensus pattern (15 bp):
AATTTAGGGACTATG
Found at i:654471 original size:23 final size:23
Alignment explanation
Indices: 654441--654519 Score: 124
Period size: 23 Copynumber: 3.4 Consensus size: 23
654431 TAATGCTGAA
*
654441 TCATTCAGCAGTGTTTTGTTGTT
1 TCATTCAGCAGTGTTTTGATGTT
654464 TCATTCAGCAGTGTTTTGATGTT
1 TCATTCAGCAGTGTTTTGATGTT
*
654487 TCATTCAACAGTGTTTT-ACTGTT
1 TCATTCAGCAGTGTTTTGA-TGTT
654510 TCATTCAGCA
1 TCATTCAGCA
654520 TAGTCTTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
22 1 0.02
23 51 0.98
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (23 bp):
TCATTCAGCAGTGTTTTGATGTT
Found at i:656793 original size:60 final size:60
Alignment explanation
Indices: 656729--656853 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
656719 ATTTATTGGG
** * *
656729 ATGTTGAAAAGTTTGGGGACT-AATTTAGAATGAGAATCATAGTTTGGGGATGAAATTT-GA
1 ATGTTGAAAAGTTTAAGGA-TGAATTTAAAATGAGAATCATAGTTTAGGGAT-AAATTTAGA
* * * *
656789 ATGTTTAAAAGTTTAAGGATGAATTTAAAATGATAGTCATAGTTTAGGGATTAATTTAGA
1 ATGTTGAAAAGTTTAAGGATGAATTTAAAATGAGAATCATAGTTTAGGGATAAATTTAGA
656849 ATGTT
1 ATGTT
656854 TAAATATTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (60 bp):
ATGTTGAAAAGTTTAAGGATGAATTTAAAATGAGAATCATAGTTTAGGGATAAATTTAGA
Found at i:656874 original size:60 final size:60
Alignment explanation
Indices: 656745--656882 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
656735 AAAAGTTTGG
* * *
656745 GGACTAATTTAGAATGAGAATCATAGTTTGGGGATGAAATTTGAATGTTTAAAAGTTTAA
1 GGACTAATTTAAAATGAGAATCATAGTTTAGGGATGAAATTTGAATGTTTAAAAGTTCAA
* * *
656805 GGA-TGAATTTAAAATGATAGTCATAGTTTAGGGAT-TAATTTAGAATGTTTAAATA-TTCAA
1 GGACT-AATTTAAAATGAGAATCATAGTTTAGGGATGAAATTT-GAATGTTTAAA-AGTTCAA
*
656865 TGACTAATTTAAAATGAG
1 GGACTAATTTAAAATGAG
656883 TCATATTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
59 6 0.09
60 58 0.88
61 2 0.03
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (60 bp):
GGACTAATTTAAAATGAGAATCATAGTTTAGGGATGAAATTTGAATGTTTAAAAGTTCAA
Found at i:662479 original size:2 final size:2
Alignment explanation
Indices: 662472--662525 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
662462 ACAATTAAAG
662472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
662514 TA TA TA TA TA TA
1 TA TA TA TA TA TA
662526 GCTGACATCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:672846 original size:40 final size:40
Alignment explanation
Indices: 672796--672899 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
672786 AAAGTATAGT
*
672796 TTTTTTTTTCATTTTAGTAACCCGCCAGTAGAAACTTTAG
1 TTTTTGTTTCATTTTAGTAACCCGCCAGTAGAAACTTTAG
** *
672836 TTTTTGTTTCATTTTAGTAACATGCCATTAGAAACTTTAG
1 TTTTTGTTTCATTTTAGTAACCCGCCAGTAGAAACTTTAG
*
672876 TTTTTGTTTCATTTTAGCAACCCG
1 TTTTTGTTTCATTTTAGTAACCCG
672900 TTCAAAATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.47
Consensus pattern (40 bp):
TTTTTGTTTCATTTTAGTAACCCGCCAGTAGAAACTTTAG
Found at i:679741 original size:16 final size:16
Alignment explanation
Indices: 679720--679786 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
679710 GTCTCCAACG
679720 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* *
679736 TTTATGTTCATGTTCG
1 TTTATGTTCGTGTTCA
*
679752 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
679768 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
679782 TTTAT
1 TTTAT
679787 TAAATGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 40 0.85
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:679758 original size:10 final size:10
Alignment explanation
Indices: 679718--679782 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
679708 GGGTCTCCAA
679718 CGTTTATGTT
1 CGTTTATGTT
679728 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* *
679739 ATGTTCATGTT
1 -CGTTTATGTT
679750 CGTTTATGTT
1 CGTTTATGTT
679760 CG----TGTT
1 CGTTTATGTT
679766 CGTTTATGTT
1 CGTTTATGTT
679776 CGTTTAT
1 CGTTTAT
679783 TTATTAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
6 6 0.14
10 26 0.60
11 7 0.16
12 4 0.09
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:679867 original size:16 final size:16
Alignment explanation
Indices: 679846--679878 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
679836 CAAAAAAAAT
679846 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
679862 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
679878 T
1 T
679879 TTATAACGAA
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:683185 original size:2 final size:2
Alignment explanation
Indices: 683124--683169 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
683114 TGTATTCAAC
683124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
683166 AT AT
1 AT AT
683170 GATTCTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:684646 original size:20 final size:20
Alignment explanation
Indices: 684621--684661 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
684611 CAAATCATTC
684621 TCACATTTATAATATCCGAT
1 TCACATTTATAATATCCGAT
684641 TCACATTTATAATATCCGAT
1 TCACATTTATAATATCCGAT
684661 T
1 T
684662 TAGATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (20 bp):
TCACATTTATAATATCCGAT
Found at i:695796 original size:48 final size:47
Alignment explanation
Indices: 695718--695810 Score: 150
Period size: 48 Copynumber: 2.0 Consensus size: 47
695708 GTTAACCAGA
*
695718 GGCGGATGCACTAAACCCCATAATAACTAATTGTATCCCAATAATAG
1 GGCGGATGCACTAAACCCCATAAGAACTAATTGTATCCCAATAATAG
* *
695765 GGCGGATGCACTAAGCCCCCATAAGGACTAATTGTATCCCAATAAT
1 GGCGGATGCACTAA-ACCCCATAAGAACTAATTGTATCCCAATAAT
695811 TTTGGGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 14 0.33
48 28 0.67
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (47 bp):
GGCGGATGCACTAAACCCCATAAGAACTAATTGTATCCCAATAATAG
Found at i:700692 original size:21 final size:21
Alignment explanation
Indices: 700650--700693 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
700640 TCGATAAAAA
* *
700650 TTATCTAAAATATTATTATTT
1 TTATCTAAAACATTAATATTT
*
700671 TTATCTAAAACATTAATGTTT
1 TTATCTAAAACATTAATATTT
700692 TT
1 TT
700694 TAATATTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATCTAAAACATTAATATTT
Found at i:702762 original size:35 final size:35
Alignment explanation
Indices: 702716--702787 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
702706 ATCTGCATTC
702716 CTTCTTGCAGGTATTGGAATTCCATGGAATATTGT
1 CTTCTTGCAGGTATTGGAATTCCATGGAATATTGT
702751 CTTCTTGCAGGTATTGGAATTCCATGGAATATTGT
1 CTTCTTGCAGGTATTGGAATTCCATGGAATATTGT
702786 CT
1 CT
702788 GCTCACACCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.40
Consensus pattern (35 bp):
CTTCTTGCAGGTATTGGAATTCCATGGAATATTGT
Found at i:706016 original size:21 final size:21
Alignment explanation
Indices: 705984--706025 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
705974 TTTGTTTCAT
* *
705984 TTTAGTACCTAATATTAAAAA
1 TTTAGTACCTAAAATGAAAAA
706005 TTTAGGTA-CTAAAATGAAAAA
1 TTTA-GTACCTAAAATGAAAAA
706026 AAAAGTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTAGTACCTAAAATGAAAAA
Found at i:706046 original size:31 final size:31
Alignment explanation
Indices: 706008--706096 Score: 160
Period size: 31 Copynumber: 2.9 Consensus size: 31
705998 TTAAAAATTT
*
706008 AGGTACTAAAATGAAAAAAAAAGTAAACTTC
1 AGGTACTAAAATGAAATAAAAAGTAAACTTC
706039 AGGTACTAAAATGAAATAAAAAGTAAACTTC
1 AGGTACTAAAATGAAATAAAAAGTAAACTTC
*
706070 AGGTGCTAAAATGAAATAAAAAGTAAA
1 AGGTACTAAAATGAAATAAAAAGTAAA
706097 TATTTGGTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (31 bp):
AGGTACTAAAATGAAATAAAAAGTAAACTTC
Found at i:706672 original size:3 final size:3
Alignment explanation
Indices: 706664--706689 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
706654 CGGTAAGTAA
706664 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
706690 AAATCAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:708687 original size:31 final size:28
Alignment explanation
Indices: 708633--708722 Score: 110
Period size: 31 Copynumber: 3.1 Consensus size: 28
708623 CTTTTTCATT
708633 TAAGTACCTAAAGTATTTTTTGGTCAAAA
1 TAAGTA-CTAAAGTATTTTTTGGTCAAAA
*
708662 TAAGTATCTAAAATTATCTTTTTGGTCAAAA
1 TAAGTA-CT-AAAGTAT-TTTTTGGTCAAAA
*
708693 TAAGTACTTAAAGTATTTTAT-GTCAAAA
1 TAAGTAC-TAAAGTATTTTTTGGTCAAAA
708721 TA
1 TA
708723 GGTTCCTAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 9 0.17
29 12 0.22
30 13 0.24
31 20 0.37
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (28 bp):
TAAGTACTAAAGTATTTTTTGGTCAAAA
Found at i:708732 original size:28 final size:29
Alignment explanation
Indices: 708633--708737 Score: 106
Period size: 28 Copynumber: 3.6 Consensus size: 29
708623 CTTTTTCATT
*
708633 TAAGTACCTAAAGTATTTTTTGGTCAAAA
1 TAAGTTCCTAAAGTATTTTTTGGTCAAAA
*
708662 TAAGTAT-CTAAAATTATCTTTTTGGTCAAAA
1 TAAGT-TCCT-AAAGTAT-TTTTTGGTCAAAA
* * *
708693 TAAGTACTTAAAGTATTTTAT-GTCAAAA
1 TAAGTTCCTAAAGTATTTTTTGGTCAAAA
* *
708721 TAGGTTCCTAAACTATT
1 TAAGTTCCTAAAGTATT
708738 CAAACTTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
28 20 0.32
29 11 0.18
30 12 0.19
31 19 0.31
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.40
Consensus pattern (29 bp):
TAAGTTCCTAAAGTATTTTTTGGTCAAAA
Found at i:708897 original size:31 final size:29
Alignment explanation
Indices: 708821--708919 Score: 123
Period size: 31 Copynumber: 3.4 Consensus size: 29
708811 AAACAAATTG
708821 AATAC-TT-GGTATCTATTTTGACC-AAA
1 AATACTTTAGGTATCTATTTTGACCAAAA
* * *
708847 AATACTATAGGTACCTATTTTAACCAAAA
1 AATACTTTAGGTATCTATTTTGACCAAAA
*
708876 AGATAACTTTAGGTATTTATTTTGACCAAAA
1 A-AT-ACTTTAGGTATCTATTTTGACCAAAA
708907 AATACTTTAGGTA
1 AATACTTTAGGTA
708920 CTTAAATGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.08
27 1 0.02
28 14 0.23
29 14 0.23
30 4 0.07
31 23 0.38
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (29 bp):
AATACTTTAGGTATCTATTTTGACCAAAA
Found at i:708945 original size:60 final size:56
Alignment explanation
Indices: 708790--708950 Score: 139
Period size: 60 Copynumber: 2.7 Consensus size: 56
708780 TTAATTGAAG
* *
708790 AATACTTTAGGTACTTAGATAAAACAAATTGAATAC-TT-GGTATCTATTTTGACCAAA
1 AATACTTTAGGTACTTAAAT-AAA-AAATAG-ATACTTTAGGTATCTATTTTGACCAAA
* * ** *
708847 AATACTATAGGTACCTATTTTAACCAAAA-AGATAACTTTAGGTATTTATTTTGACCAAAA
1 AATACTTTAGGTACTTA-AATAA--AAAATAGAT-ACTTTAGGTATCTATTTTGACC-AAA
708907 AATACTTTAGGTACTTAAATGAAAAAGATAGTATACTTTAGGTA
1 AATACTTTAGGTACTTAAAT-AAAAA-ATAG-ATACTTTAGGTA
708951 CTTAAATGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
56 2 0.02
57 20 0.24
58 9 0.11
59 18 0.22
60 32 0.39
61 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (56 bp):
AATACTTTAGGTACTTAAATAAAAAATAGATACTTTAGGTATCTATTTTGACCAAA
Found at i:708946 original size:31 final size:31
Alignment explanation
Indices: 708908--708985 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
708898 TGACCAAAAA
708908 ATACTTTAGGTACTTAAATGAAAAAGATAGT
1 ATACTTTAGGTACTTAAATGAAAAAGATAGT
708939 ATACTTTAGGTACTTAAATGAAAAAGATAGT
1 ATACTTTAGGTACTTAAATGAAAAAGATAGT
*
708970 ATACTTTAGATACTTA
1 ATACTTTAGGTACTTA
708986 TATGTGATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.35
Consensus pattern (31 bp):
ATACTTTAGGTACTTAAATGAAAAAGATAGT
Found at i:713978 original size:21 final size:21
Alignment explanation
Indices: 713927--713979 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
713917 ATTATTACTA
713927 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
713948 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
713969 TCGCAATGCGA
1 TCGCAATGCGA
713980 ATTTGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:714014 original size:20 final size:20
Alignment explanation
Indices: 713989--714083 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
713979 AATTTGGAAA
713989 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
714009 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
714030 ATCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
714050 TTCGCAACGCGGTACTGACT
1 ATCGCAACGCGATACTGACT
* *
714070 TTCGCAACGAGATA
1 ATCGCAACGCGATA
714084 ATACATAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.70
21 15 0.24
22 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:714299 original size:22 final size:22
Alignment explanation
Indices: 714271--714313 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
714261 ACTCTCTCAT
714271 CCATCTCCGACGAAATCCGTCC
1 CCATCTCCGACGAAATCCGTCC
* *
714293 CCATCTCTGGCGAAATCCGTC
1 CCATCTCCGACGAAATCCGTC
714314 TATCTCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCC
Found at i:714791 original size:25 final size:24
Alignment explanation
Indices: 714737--714791 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
714727 TGTTTATTAT
* *
714737 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
714761 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
714787 TGTTT
1 TGTTT
714792 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:716491 original size:20 final size:20
Alignment explanation
Indices: 716466--716511 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
716456 TAGTTTACTT
716466 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
716486 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
716506 TCGCAA
1 TCGCAA
716512 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:716520 original size:19 final size:20
Alignment explanation
Indices: 716477--716521 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
716467 CGCAACACGA
716477 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
716497 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
716516 AAATGA
1 AAATGA
716522 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:716527 original size:19 final size:19
Alignment explanation
Indices: 716485--716566 Score: 75
Period size: 19 Copynumber: 4.5 Consensus size: 19
716475 GAAAATGACT
***
716485 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAATGAAA
716505 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
716524 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
716538 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
716557 ATCGCAATGC
1 ATCGCAATGC
716567 AATTTGTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.49
20 10 0.20
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:716599 original size:14 final size:14
Alignment explanation
Indices: 716580--716638 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
716570 TTGTGTTACG
716580 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
716594 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
716611 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
716627 CGTTGAGATTTT
1 CGTTGCGATTTT
716639 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:716620 original size:19 final size:19
Alignment explanation
Indices: 716596--716654 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
716586 GATTTTGTCG
716596 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
716615 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
716629 TTGAGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
716648 TTGCGAT
1 TTGCGAT
716655 AGCCATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 4 0.13
17 4 0.13
18 3 0.10
19 12 0.39
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:716624 original size:33 final size:33
Alignment explanation
Indices: 716582--716654 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
716572 GTGTTACGCG
*
716582 TTGCGATTTTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGAGATTTTCATTTCGCA
716615 TTGCGATTTTGTCGTTGAGATTTTCATTTCGCA
1 TTGCGATTTTGTCGTTGAGATTTTCATTTCGCA
716648 TTGCGAT
1 TTGCGAT
716655 AGCCATTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTGTCGTTGAGATTTTCATTTCGCA
Found at i:716666 original size:20 final size:20
Alignment explanation
Indices: 716641--716691 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
716631 GAGATTTTCA
*
716641 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
716661 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
716681 TTTCGCGTTGC
1 TTTCGCGTTGC
716692 AAAAGTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:716704 original size:20 final size:20
Alignment explanation
Indices: 716661--716719 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
716651 CGATAGCCAT
* * *
716661 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGAAAGTAAG
*
716681 TTTCGCGTTGCAAAAGTAAG
1 TTTCGCGTTGCGAAAGTAAG
*
716701 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCGAAAGTAA
716720 ACTATTCTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (20 bp):
TTTCGCGTTGCGAAAGTAAG
Found at i:717093 original size:21 final size:20
Alignment explanation
Indices: 717067--717135 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
717057 CTGTCATCCC
717067 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
717088 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
717109 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
717129 TCAAGAG
1 TCAAGAG
717136 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:717147 original size:41 final size:42
Alignment explanation
Indices: 717057--717147 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 42
717047 CCCGACTCAC
* *
717057 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
717099 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
717140 CTGTCATC
1 CTGTCATC
717148 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 23 0.52
42 21 0.48
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:718731 original size:34 final size:34
Alignment explanation
Indices: 718684--718758 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
718674 AAAACAGACT
* *
718684 ATCGCAACACGAAACTGACTATCGCAACGAGAGA
1 ATCGCAACACGAAAATGACTATCGCAACGAGAAA
* *
718718 ATCGCAACGCGAAAATGGCTATCGCAACGAGAAA
1 ATCGCAACACGAAAATGACTATCGCAACGAGAAA
718752 ATCGCAA
1 ATCGCAA
718759 TTCGATTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.12
Consensus pattern (34 bp):
ATCGCAACACGAAAATGACTATCGCAACGAGAAA
Found at i:718807 original size:20 final size:20
Alignment explanation
Indices: 718782--718837 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
718772 TCGCATTGCG
718782 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
718802 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
718822 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
718838 TTCCCCGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:719076 original size:20 final size:20
Alignment explanation
Indices: 719060--719136 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
719050 ATTGCGATTT
*
719060 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
719080 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
719100 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
719120 TCAGTATCGCGTTGCGA
1 TCAGAATCGCGTTGCGA
719137 TTTTGTATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:719150 original size:21 final size:21
Alignment explanation
Indices: 719124--719179 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
719114 CGAAAGTCAG
719124 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
719145 TATCGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATTTTGTAT
719166 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
719180 AGTCAGTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.45
Consensus pattern (21 bp):
TATCGCGTTGCGATTTTGTAT
Found at i:719191 original size:20 final size:20
Alignment explanation
Indices: 719069--719199 Score: 122
Period size: 20 Copynumber: 6.5 Consensus size: 20
719059 TTCAGAATCT
* *
719069 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGATAGTCAGTATCG
* *
719089 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGATAGTCAGTATCG
*
719109 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGATAGTCAGTATCG
* *
719129 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGTATCG
* *
719150 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGTATCG
719171 CGTTGCGATAGTCAGTATCG
1 CGTTGCGATAGTCAGTATCG
*
719191 CATTGCGAT
1 CGTTGCGAT
719200 TTTCCAAATT
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
19 3 0.03
20 61 0.60
21 35 0.35
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAGTATCG
Found at i:719218 original size:62 final size:62
Alignment explanation
Indices: 719105--719222 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 62
719095 GAAAGTCAGA
* ** * *
719105 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCGCATTGCGATTTTGTATT
*
719167 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCATTGCGATTT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT-CAAATATCGCATTGCGATTT
719223 ACTTATTCGC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
62 47 0.96
63 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (62 bp):
ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCGCATTGCGATTTTGTATT
Found at i:719232 original size:20 final size:21
Alignment explanation
Indices: 719188--719235 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
719178 ATAGTCAGTA
*
719188 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
719209 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
719229 TCGCATT
1 TCGCATT
719236 ACGAATTGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:720332 original size:60 final size:60
Alignment explanation
Indices: 720239--720352 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
720229 AGTGTATACA
* * *
720239 TATAATTTGGGATGAAATTGAAATGTTAAAAAAG-TTGAAGGACCAATTTAGAATGAAGGG
1 TATAATTTGGGATGAAACTAAAATGTTAAAAAAGTTTG-AGGACAAATTTAGAATGAAGGG
* *
720299 TATAATTTGGGGATGAAACTAAAATGTT-CAAAAGTTTGAGGATAAATTTAGAAT
1 TATAATTT-GGGATGAAACTAAAATGTTAAAAAAGTTTGAGGACAAATTTAGAAT
720353 TATAGTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 27 0.57
61 20 0.43
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.31
Consensus pattern (60 bp):
TATAATTTGGGATGAAACTAAAATGTTAAAAAAGTTTGAGGACAAATTTAGAATGAAGGG
Found at i:720642 original size:14 final size:14
Alignment explanation
Indices: 720612--720644 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
720602 ATAAATTAGT
720612 TAAAAATTTAAAGA
1 TAAAAATTTAAAGA
720626 TAAAATATTTAAA-A
1 TAAAA-ATTTAAAGA
720640 TAAAA
1 TAAAA
720645 GGCAAACTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
TAAAAATTTAAAGA
Found at i:722186 original size:27 final size:28
Alignment explanation
Indices: 722136--722199 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
722126 TTTATAGTTT
*
722136 TATGATTTTTCAAAATGACATTTTTAAC
1 TATGATTTTTCAAAAAGACATTTTTAAC
**
722164 TATGA-TTTTCTAAAAAGAC-TTTTTAGT
1 TATGATTTTTC-AAAAAGACATTTTTAAC
722191 TATGATTTT
1 TATGATTTT
722200 AATAGATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (28 bp):
TATGATTTTTCAAAAAGACATTTTTAAC
Found at i:722591 original size:38 final size:39
Alignment explanation
Indices: 722548--722626 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
722538 ATTTAACATT
*
722548 AAATTTTGAACAATGA-TATTAAAATGAAACAAAAACTA
1 AAATTTTGAACAACGAGTATTAAAATGAAACAAAAACTA
* * *
722586 AAATTTTTAACAACGAGTTTTAAAATGAAATAAAAACTA
1 AAATTTTGAACAACGAGTATTAAAATGAAACAAAAACTA
722625 AA
1 AA
722627 CTTTAGGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 14 0.39
39 22 0.61
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.28
Consensus pattern (39 bp):
AAATTTTGAACAACGAGTATTAAAATGAAACAAAAACTA
Found at i:722875 original size:28 final size:28
Alignment explanation
Indices: 722842--722904 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
722832 TTCGATAATA
*
722842 TGTTCGTTCATGTTCGTTCATTTATGT-
1 TGTTCGTTCATGCTCGTTCATTTATGTC
* **
722869 TCGTTCGTTTATGCTCGTTTGTTTATGTC
1 T-GTTCGTTCATGCTCGTTCATTTATGTC
722898 TGTTCGT
1 TGTTCGT
722905 CTATGTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 28 0.93
29 1 0.03
ACGTcount: A:0.08, C:0.16, G:0.21, T:0.56
Consensus pattern (28 bp):
TGTTCGTTCATGCTCGTTCATTTATGTC
Found at i:722892 original size:14 final size:14
Alignment explanation
Indices: 722843--722909 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
722833 TCGATAATAT
* *
722843 GTTCGTTCATGTTC
1 GTTCGTTTATGCTC
* *
722857 GTTCATTTATGTTC
1 GTTCGTTTATGCTC
722871 GTTCGTTTATGCTC
1 GTTCGTTTATGCTC
*
722885 GTTTGTTTATG-TC
1 GTTCGTTTATGCTC
*
722898 TGTTCGTCTATG
1 -GTTCGTTTATG
722910 TTTGTTTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 2 0.04
14 43 0.96
ACGTcount: A:0.09, C:0.16, G:0.21, T:0.54
Consensus pattern (14 bp):
GTTCGTTTATGCTC
Found at i:727405 original size:60 final size:60
Alignment explanation
Indices: 727334--727454 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
727324 TAAGTCGCAC
*
727334 AACATAATTGTTGTTTTTTTAATTTTAAAGGATAAAATATATAAATTGTACTTGCATAAT
1 AACAGAATTGTTGTTTTTTTAATTTTAAAGGATAAAATATATAAATTGTACTTGCATAAT
727394 AACAGAATTGTTGTTTTTTTAATTTTAAAGGATAAAATATATAAATTGTACTTGCATAAT
1 AACAGAATTGTTGTTTTTTTAATTTTAAAGGATAAAATATATAAATTGTACTTGCATAAT
727454 A
1 A
727455 TTTTTGATTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (60 bp):
AACAGAATTGTTGTTTTTTTAATTTTAAAGGATAAAATATATAAATTGTACTTGCATAAT
Found at i:729730 original size:2 final size:2
Alignment explanation
Indices: 729723--729772 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
729713 GGATCAGATA
729723 AT AT AT AT AT A- AT AT AT AT AT AT AT AT -T 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
729763 AT AT AT AT AT
1 AT AT AT AT AT
729773 GGCTTATGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.