Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 54
Found at i:10709193 original size:21 final size:21
Alignment explanation
Indices: 10709167--10709239 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
10709157 ATAGTCAGTA
10709167 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
*
10709188 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
10709209 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
10709229 TCGCATTGCGA
1 TCGCATTGCGA
10709240 ATTGGGAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:10709319 original size:41 final size:38
Alignment explanation
Indices: 10709229--10709328 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 38
10709219 ATTTACTTAT
10709229 TCGCATTGCGAATTGGGAAAATCGCTGCGAATAAATAAA
1 TCGCATTGCGAATT-GGAAAATCGCTGCGAATAAATAAA
*
10709268 TCGCAATGCGAAATTGGAAAATCGCATTGCG-ATAGTAAT-AA
1 TCGCATTGCG-AATTGGAAAATCGC--TGCGAATA--AATAAA
*
10709309 TCGCGTTGCGAATCTGGAAA
1 TCGCATTGCGAAT-TGGAAA
10709329 CTGATTTGCG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
39 19 0.37
40 10 0.19
41 20 0.38
42 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (38 bp):
TCGCATTGCGAATTGGAAAATCGCTGCGAATAAATAAA
Found at i:10712350 original size:24 final size:24
Alignment explanation
Indices: 10712303--10712351 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
10712293 ATGTAATCTA
10712303 ATATAATATACACTTACATAAAAAT
1 ATATAATATACAC-TACATAAAAAT
10712328 ATATGAATATACA-TACATGAAAAA
1 ATAT-AATATACACTACAT-AAAAA
10712352 AATAAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (24 bp):
ATATAATATACACTACATAAAAAT
Found at i:10712703 original size:27 final size:28
Alignment explanation
Indices: 10712617--10712708 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 28
10712607 GAAGTTTAAA
* * *
10712617 GGACTAAAATGACAAAAACAAAAAATTAAA
1 GGACTAAAAT-A-AAAAACAGAAAATTCAG
* *
10712647 GGATCT-AAATAAAAAATAGAAAATTTAG
1 GGA-CTAAAATAAAAAACAGAAAATTCAG
10712675 GG-CTAAAATAAAAAACAGAAACA-TCAG
1 GGACTAAAATAAAAAACAGAAA-ATTCAG
10712702 GGACTAA
1 GGACTAA
10712709 TGAACAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 2 0.04
27 20 0.38
28 20 0.38
29 1 0.02
30 7 0.13
31 2 0.04
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (28 bp):
GGACTAAAATAAAAAACAGAAAATTCAG
Found at i:10714159 original size:3 final size:3
Alignment explanation
Indices: 10714139--10714188 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
10714129 TATGTAAATG
* * *
10714139 TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA TAT TTA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
10714183 TAA TAA
1 TAA TAA
10714189 AAAAGACCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:10714652 original size:134 final size:134
Alignment explanation
Indices: 10714372--10714731 Score: 478
Period size: 134 Copynumber: 2.7 Consensus size: 134
10714362 GGTCTGGTCG
* * * *
10714372 TCTAAGGGTGACACGGTTCCTACGTGATGAGGAA-ATATGGTCGAGGGATGACACTGCTCATACG
1 TCTAGGGGTGACACGGCTCCTACGTGATGA-GAAGATCTGGTCGAGGGATGACACGGCTCATACG
* * *
10714436 TGATGAAGAGTTCTTGGCCATCTTTAGGAAAGGTGATAAATCGGTTCCTACTCGATGAGGACGGG
65 TGATGAAGAGTTC-TGGCCATCTTTAGGAAAGGCGATAAATCGGTTCCTACTCGATGAGAACGGC
*
10714501 TGGTTA
129 TAGTTA
* * * *
10714507 TCTAGGGGTGACACGGCTCCTACGCGATGAGAAGATCTGGTCGGGGGACGATACGGCTCATACGT
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCGAGGGATGACACGGCTCATACGT
* *
10714572 GATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACA-CGGTTCCTACGT-GATGAGAACGTC
66 GATGAAGAGTTCTGGCCATCTTTAGGAAAGGCGATAA-ATCGGTTCCTAC-TCGATGAGAACGGC
10714635 TAGTTA
129 TAGTTA
* *
10714641 TCTAGGGGTGACGCGGCTCCTACGTGATGA-AGAGATCTGGTC-ATGAGATGACACGGCTCATAC
1 TCTAGGGGTGACACGGCTCCTACGTGATGAGA-AGATCTGGTCGA-GGGATGACACGGCTCATAC
*
10714704 ATGATGAAGAGTTCTGGCCATCTTTAGG
64 GTGATGAAGAGTTCTGGCCATCTTTAGG
10714732 GATAATAATT
Statistics
Matches: 199, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
133 1 0.01
134 131 0.66
135 67 0.34
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (134 bp):
TCTAGGGGTGACACGGCTCCTACGTGATGAGAAGATCTGGTCGAGGGATGACACGGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGGAAAGGCGATAAATCGGTTCCTACTCGATGAGAACGGCTA
GTTA
Found at i:10715046 original size:91 final size:89
Alignment explanation
Indices: 10714940--10715165 Score: 271
Period size: 91 Copynumber: 2.5 Consensus size: 89
10714930 GTTAAGAGAC
*
10714940 ACAATCTCAAAGA-TTTTTCAAAAGAAACAGACTCAAAGATTTTTCTCAAGAAAAACTGTCTCAA
1 ACAAACTCAAAGATTTTTTCAAAAGAAACAGACTCAAAGATTTTT-TCAAG--AAACTGTCTCAA
* * *
10715004 GAGAGATAAAACTTTGTTTCAAAAGAA
63 GAGAAACAAAACTTTGGTTCAAAAGAA
* * * * *
10715031 ACAAACTCAAAGATTTTGGTTTCAAAATAAA-TGACTCAAAGATTTTTTCACGAAATTGTCTTAA
1 ACAAACTCAAAGA-TTT--TTTCAAAAGAAACAGACTCAAAGATTTTTTCAAGAAACTGTCTCAA
10715095 GAGAAACAAAACTTTGGTTCAAAAGAA
63 GAGAAACAAAACTTTGGTTCAAAAGAA
* *
10715122 ACAGACTCAAAGATTTTTTCAAAAGAAACA-ACTAAAAG-TTTTTT
1 ACAAACTCAAAGATTTTTTCAAAAGAAACAGACTCAAAGATTTTTT
10715166 ATTTCAAAAG
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
87 6 0.05
88 18 0.15
90 3 0.03
91 58 0.50
93 6 0.05
94 15 0.13
95 11 0.09
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (89 bp):
ACAAACTCAAAGATTTTTTCAAAAGAAACAGACTCAAAGATTTTTTCAAGAAACTGTCTCAAGAG
AAACAAAACTTTGGTTCAAAAGAA
Found at i:10715194 original size:29 final size:27
Alignment explanation
Indices: 10715112--10715208 Score: 106
Period size: 29 Copynumber: 3.4 Consensus size: 27
10715102 AAAACTTTGG
10715112 TTCAAAAGAAACAGACTCAAAGA-TTTT
1 TTCAAAAGAAACA-ACTCAAAGATTTTT
* *
10715139 TTCAAAAGAAACAACTAAAAGTTTTTTAT
1 TTCAAAAGAAACAACTCAAAG-ATTTT-T
*
10715168 TTCAAAAGAAACAACTCACAGACTTTTGT
1 TTCAAAAGAAACAACTCAAAGA-TTTT-T
*
10715197 TTCAAGAGAAAC
1 TTCAAAAGAAAC
10715209 TGTTTCTAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.12
27 13 0.22
28 3 0.05
29 36 0.61
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (27 bp):
TTCAAAAGAAACAACTCAAAGATTTTT
Found at i:10715417 original size:30 final size:31
Alignment explanation
Indices: 10715362--10715420 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10715352 GATTTTTTAT
** *
10715362 TTTGTTTCAAGTGAAACATACTCAAAGATCC
1 TTTGTTTCAAAAGAAACAGACTCAAAGATCC
10715393 TTTGTTTCAAAAGAAAC-GACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
10715421 GATGTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATCC
Found at i:10715523 original size:37 final size:37
Alignment explanation
Indices: 10715458--10715552 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 37
10715448 ATAATTTGGA
* * * *
10715458 AAATTTTCTCAAATGAGAC-AACATTTGTTTTTAGGG
1 AAATTATCTCAAATGAGACAAAAAATTGTTTTTAGAG
* *
10715494 AAATTGTCTCAAATGAGACAAAAAATTGTTTTTAGAT
1 AAATTATCTCAAATGAGACAAAAAATTGTTTTTAGAG
*
10715531 AAATTATCTCAAACGAGACAAA
1 AAATTATCTCAAATGAGACAAA
10715553 GTTTGTTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 18 0.35
37 33 0.65
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (37 bp):
AAATTATCTCAAATGAGACAAAAAATTGTTTTTAGAG
Found at i:10716146 original size:4 final size:4
Alignment explanation
Indices: 10716137--10716198 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
10716127 CTCATGTAAC
* * * *
10716137 ATGT ATGT ATGT GT-T GATGT ATGT ATGT AT-T GATGT AAGT ATAT ATAT
1 ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT
10716185 ATGT ATGT ATGT AT
1 ATGT ATGT ATGT AT
10716199 TGATCTATGC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 2 0.04
4 44 0.92
5 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:10716158 original size:16 final size:16
Alignment explanation
Indices: 10716137--10716207 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
10716127 CTCATGTAAC
*
10716137 ATGTATGTATGTGTTG
1 ATGTATGTATGTATTG
10716153 ATGTATGTATGTATTG
1 ATGTATGTATGTATTG
* *
10716169 ATGTAAGTATATATAT-
1 ATGTATGTATGTAT-TG
10716185 ATGTATGTATGTATTG
1 ATGTATGTATGTATTG
*
10716201 ATCTATG
1 ATGTATG
10716208 CTTTTCTCGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 1 0.02
16 45 0.96
17 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.23, T:0.48
Consensus pattern (16 bp):
ATGTATGTATGTATTG
Found at i:10717524 original size:12 final size:12
Alignment explanation
Indices: 10717507--10717541 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10717497 CTTTGTCCTC
10717507 TTTTTTCTTTGT
1 TTTTTTCTTTGT
*
10717519 TTTTTTCTTTTT
1 TTTTTTCTTTGT
10717531 TCTTTTTCTTT
1 T-TTTTTCTTT
10717542 CTGCTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (12 bp):
TTTTTTCTTTGT
Found at i:10719300 original size:24 final size:23
Alignment explanation
Indices: 10719262--10719308 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
10719252 TATGTAAATG
10719262 TAATATTAATAAAATAATAATAA
1 TAATATTAATAAAATAATAATAA
*
10719285 TAATATTTATATAAATAATAATAA
1 TAATATTAATA-AAATAATAATAA
10719309 AAAAGACCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATATTAATAAAATAATAATAA
Found at i:10719387 original size:17 final size:18
Alignment explanation
Indices: 10719345--10719380 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10719335 TACAAATATA
10719345 ATAAAT-AAAAATAAAAG
1 ATAAATAAAAAATAAAAG
*
10719362 ATAAATAAAAAATGAAAG
1 ATAAATAAAAAATAAAAG
10719380 A
1 A
10719381 AACTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
ATAAATAAAAAATAAAAG
Found at i:10725342 original size:18 final size:18
Alignment explanation
Indices: 10725321--10725358 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10725311 AGATGCTACG
10725321 CACCTCTGATATGCTCTT
1 CACCTCTGATATGCTCTT
10725339 CACCTCTGATATGCTCTT
1 CACCTCTGATATGCTCTT
10725357 CA
1 CA
10725359 GCGATTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (18 bp):
CACCTCTGATATGCTCTT
Found at i:10726963 original size:10 final size:10
Alignment explanation
Indices: 10726948--10726972 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10726938 TAAAGAAAAA
10726948 CAAAAAAAGT
1 CAAAAAAAGT
10726958 CAAAAAAAGT
1 CAAAAAAAGT
10726968 CAAAA
1 CAAAA
10726973 TTTCAAAAAA
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:0.72, C:0.12, G:0.08, T:0.08
Consensus pattern (10 bp):
CAAAAAAAGT
Found at i:10735425 original size:23 final size:23
Alignment explanation
Indices: 10735399--10735457 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
10735389 TAAATATACT
*
10735399 GAAGTGCCATATAGAATTGCACC
1 GAAGTGCCATATAGAAATGCACC
* ***
10735422 GAAGTGTCGCGTAGAAATGCACC
1 GAAGTGCCATATAGAAATGCACC
*
10735445 CAAGTGCCATATA
1 GAAGTGCCATATA
10735458 AGATGTCCAT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
GAAGTGCCATATAGAAATGCACC
Found at i:10744722 original size:22 final size:22
Alignment explanation
Indices: 10744697--10744742 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10744687 GTTTAAATGG
*
10744697 TTTGGAA-TTATTAATTTCAATT
1 TTTGGAACTTAATAATTT-AATT
10744719 TTTGGAACTTAATAATTTAATT
1 TTTGGAACTTAATAATTTAATT
10744741 TT
1 TT
10744743 AATGGGTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTGGAACTTAATAATTTAATT
Found at i:10745311 original size:19 final size:19
Alignment explanation
Indices: 10745287--10745327 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
10745277 CAATCTTTTC
10745287 TAAAGAGGATTTGTGGATT
1 TAAAGAGGATTTGTGGATT
* *
10745306 TAAAGATGATTTTTGGATT
1 TAAAGAGGATTTGTGGATT
10745325 TAA
1 TAA
10745328 TTAAAGAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (19 bp):
TAAAGAGGATTTGTGGATT
Found at i:10750047 original size:9 final size:8
Alignment explanation
Indices: 10750024--10750049 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10750014 AATTTCTATT
10750024 ATTAAAAA
1 ATTAAAAA
10750032 ATTAAAAA
1 ATTAAAAA
10750040 ATTAAAAA
1 ATTAAAAA
10750048 AT
1 AT
10750050 AAACGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAA
Found at i:10752901 original size:24 final size:24
Alignment explanation
Indices: 10752869--10752935 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
10752859 CAATTCATTT
10752869 TTATTATTATTAAAATTATAAATA
1 TTATTATTATTAAAATTATAAATA
* * *
10752893 TTATTATTAATAATATTATATATA
1 TTATTATTATTAAAATTATAAATA
10752917 -TATTATTTATTAAATATTA
1 TTATTA-TTATTAAA-ATTA
10752936 CAAAGCCCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATTATTATTAAAATTATAAATA
Found at i:10754119 original size:2 final size:2
Alignment explanation
Indices: 10754112--10754142 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10754102 ATTTAATCAC
10754112 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10754143 TAGGTTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10754438 original size:20 final size:18
Alignment explanation
Indices: 10754413--10754452 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
10754403 ATCTAATAAA
*
10754413 TAAATAAATATATATTTGTT
1 TAAAT-AATA-ATATTTATT
10754433 TAAATAATAATATTTATT
1 TAAATAATAATATTTATT
10754451 TA
1 TA
10754453 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TAAATAATAATATTTATT
Found at i:10754947 original size:13 final size:13
Alignment explanation
Indices: 10754929--10754955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10754919 TTTAAAATTT
10754929 CCAATAATAGAGG
1 CCAATAATAGAGG
10754942 CCAATAATAGAGG
1 CCAATAATAGAGG
10754955 C
1 C
10754956 AATTTATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (13 bp):
CCAATAATAGAGG
Found at i:10755417 original size:15 final size:15
Alignment explanation
Indices: 10755383--10755434 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
10755373 TTATATATAC
10755383 TTATTATTTT-TATAT
1 TTATTATTTTATAT-T
*
10755398 GTATTATTTTATATT
1 TTATTATTTTATATT
10755413 TTATTAATGTTTATATT
1 TTATT-AT-TTTATATT
10755430 TTATT
1 TTATT
10755435 TTCAAGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 14 0.44
16 5 0.16
17 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (15 bp):
TTATTATTTTATATT
Found at i:10759835 original size:72 final size:72
Alignment explanation
Indices: 10759738--10759953 Score: 328
Period size: 72 Copynumber: 3.0 Consensus size: 72
10759728 ATACAATAAA
* * * *
10759738 GCTTTAGTTATCCCCTTAAAGCAATTGGTTAAT-AGCCCCGACTTTATGGATAATATTCAGCTAA
1 GCTTGAGTTATCCCCCTAAAACAATTGGTTAATCA-CCCCGGCTTTATGGATAATATTCAGCTAA
10759802 TCTGTTAT
65 TCTGTTAT
10759810 GCTTGAGTTATCCCCCTAAAACAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAACAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTAAT
*
10759875 TTGTTAT
66 CTGTTAT
* *
10759882 TCTTGAGTTATCCCCCTAAAGA-AATTGGTTAATCACCCCGGCTTTATGGATAATATTCAACTAA
1 GCTTGAGTTATCCCCCTAAA-ACAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTAA
*
10759946 CCTGTTAT
65 TCTGTTAT
10759954 ACTATTATAT
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
72 131 0.98
73 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAACAATTGGTTAATCACCCCGGCTTTATGGATAATATTCAGCTAAT
CTGTTAT
Found at i:10764037 original size:54 final size:54
Alignment explanation
Indices: 10763972--10764117 Score: 222
Period size: 54 Copynumber: 2.7 Consensus size: 54
10763962 CTAAAACCAT
* *
10763972 ATAAAAAGATGAATGAATTTTCAAAAGTTTTACGAACCTCTGGACAGAAGCCAC
1 ATAAAAAGATGAATGAATTGTCAAATGTTTTACGAACCTCTGGACAGAAGCCAC
*
10764026 ATAAAAGGATGAATGAATTGTCAAATGTTTTACGAACCTCTGGACAGAAGCCAC
1 ATAAAAAGATGAATGAATTGTCAAATGTTTTACGAACCTCTGGACAGAAGCCAC
* **
10764080 A-AGAAATGATGAATGTGTTGTCAAATGTTTTACGAACC
1 ATA-AAAAGATGAATGAATTGTCAAATGTTTTACGAACC
10764118 AATTATTCTG
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
53 1 0.01
54 84 0.99
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (54 bp):
ATAAAAAGATGAATGAATTGTCAAATGTTTTACGAACCTCTGGACAGAAGCCAC
Found at i:10765340 original size:77 final size:76
Alignment explanation
Indices: 10765179--10765366 Score: 349
Period size: 77 Copynumber: 2.5 Consensus size: 76
10765169 TATTTCCCAT
*
10765179 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAAA
10765244 GCCTTCGGGTC
66 GCCTTCGGGTC
*
10765255 ATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAAAGCATTCGGGGAGCTTTTTGATGTTTTCAA
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCATTC-GGGAGCTTTTTGATGTTTTCAA
10765320 AGCCTTCGGGTC
65 AGCCTTCGGGTC
10765332 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1 ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
10765367 CCTTCGGGTC
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 40 0.37
77 68 0.63
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTCGGGTC
Found at i:10765372 original size:45 final size:45
Alignment explanation
Indices: 10765308--10765411 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
10765298 GGGAGCTTTT
* ** *
10765308 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGT-AGTGCA
10765353 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCA
*
10765398 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
10765412 AAGCCTTCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
45 52 0.98
46 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCA
Found at i:10765448 original size:122 final size:122
Alignment explanation
Indices: 10765231--10765597 Score: 567
Period size: 122 Copynumber: 3.0 Consensus size: 122
10765221 GGGAGCTTTT
* ** * * * *
10765231 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCT-TCAGTGCATGATGTTTT-TAAAAAGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGT-AGTGCAGGATGTTTTCAAAAAAGCC
* * *
10765294 TTCGGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
65 TTC-GAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
10765353 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCAGGATGTTTTCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCAGGATGTTTTCAAAAAAGCCT
*
10765418 TCGAGAGCTTTTTGATATTTTCAAAACCTTCGGATCATCTGTAAGCCCTTCAGTGCA
66 TCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
10765475 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCAGGATGTTTTCAAAAAAGCCT
* *
10765540 TCGTGAGCTTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTACAGTGCA
66 TCGAGAGC-TTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
10765598 AGGTGACAAG
Statistics
Matches: 227, Mismatches: 15, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
122 169 0.74
123 58 0.26
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (122 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGTAGTGCAGGATGTTTTCAAAAAAGCCT
TCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:10765484 original size:45 final size:45
Alignment explanation
Indices: 10765430--10765533 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
10765420 GAGAGCTTTT
* ** * *
10765430 TGATATTTTCAAAACCTTCGGATCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGATCATCCATAAGACCTGCAGTGCA
*
10765475 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTGCAGTGCA
1 TGATGTTTTCAAAACCTTCGGATCATCCATAAGACCTGCAGTGCA
*
10765520 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
10765534 AAGCCTTCGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGATCATCCATAAGACCTGCAGTGCA
Found at i:10765765 original size:3 final size:3
Alignment explanation
Indices: 10765757--10765837 Score: 99
Period size: 3 Copynumber: 26.0 Consensus size: 3
10765747 CAGTTCATTT
** * *
10765757 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10765805 TTA TTA TTA TTA TTA TATA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA T-TA T-TA TTA -TTA TTA
10765838 AATATTACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
3 58 0.85
4 10 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10769922 original size:2 final size:2
Alignment explanation
Indices: 10769917--10769945 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10769907 GTTTTTTACT
10769917 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
10769946 GGTTATTTAC
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:10770314 original size:22 final size:22
Alignment explanation
Indices: 10770272--10770314 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10770262 ATTCAATAAA
* *
10770272 TAAATACTTAAAATGTTATATT
1 TAAATACTTAAAATCTCATATT
10770294 TAAATACTTGAAAA-CTCATAT
1 TAAATACTT-AAAATCTCATAT
10770315 ATCTAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAATACTTAAAATCTCATATT
Found at i:10774144 original size:21 final size:21
Alignment explanation
Indices: 10774120--10774161 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10774110 AGTTTATTTT
10774120 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
10774141 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
10774162 AACTTGAAGT
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:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:10774209 original size:33 final size:33
Alignment explanation
Indices: 10774156--10774258 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
10774146 TTTGTTTCAA
10774156 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
10774188 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
10774221 TTATCAAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
10774253 TTATCG
1 TTATCG
10774259 TAAACTTTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
32 16 0.24
33 50 0.76
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:10774327 original size:15 final size:15
Alignment explanation
Indices: 10774300--10774355 Score: 76
Period size: 15 Copynumber: 3.6 Consensus size: 15
10774290 TTTAATAATA
*
10774300 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
10774315 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
10774330 TTAAAAAACCGGTTTTT
1 TT--AAAACCGGTTTTT
10774347 TTAAAACCG
1 TTAAAACCG
10774356 AAACCGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 22 0.61
17 14 0.39
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:10774364 original size:21 final size:17
Alignment explanation
Indices: 10774302--10774352 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
10774292 TAATAATATT
*
10774302 AAAATCGGTTTTTTT--
1 AAAACCGGTTTTTTTAA
*
10774317 ATAACCGGTTTTTTTAA
1 AAAACCGGTTTTTTTAA
10774334 AAAACCGGTTTTTTTAA
1 AAAACCGGTTTTTTTAA
10774351 AA
1 AA
10774353 CCGAAACCGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 13 0.42
17 18 0.58
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (17 bp):
AAAACCGGTTTTTTTAA
Found at i:10774472 original size:15 final size:17
Alignment explanation
Indices: 10774446--10774477 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10774436 TTTCTATGGA
10774446 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
10774462 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
10774478 CGAATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:10774540 original size:18 final size:18
Alignment explanation
Indices: 10774517--10774552 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10774507 TAACAATCAT
10774517 GCACTAATTAATAAAGAG
1 GCACTAATTAATAAAGAG
10774535 GCACTAATTAATAAAGAG
1 GCACTAATTAATAAAGAG
10774553 ATTCCCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (18 bp):
GCACTAATTAATAAAGAG
Found at i:10774634 original size:27 final size:27
Alignment explanation
Indices: 10774586--10774637 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
10774576 AAAAGTATTT
* *
10774586 AAAAACGATTATGATTTTATTTGAAGA
1 AAAAACGATTATGAATTAATTTGAAGA
* *
10774613 AAAAAGGATTTTGAATTAATTTGAA
1 AAAAACGATTATGAATTAATTTGAA
10774638 AATTTTGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.15, T:0.37
Consensus pattern (27 bp):
AAAAACGATTATGAATTAATTTGAAGA
Found at i:10776020 original size:108 final size:109
Alignment explanation
Indices: 10775899--10776167 Score: 441
Period size: 108 Copynumber: 2.5 Consensus size: 109
10775889 GTTGTTAATG
* * * *
10775899 GTTAGCAGAGTCCGAACCATAATAATTTGGATCGTACCCCGGATCGGGTCACCACAAGGTCAAAT
1 GTTAGTAGAGTCCGGACCATAATAATGTGGATCGTACCCCGGATTGGGTCACCACAAGGTCAAAT
*
10775964 AATAATTCAAACAAATTAATAAAAATAAT-AAAAATAGTTAAGA
66 AATAATTCAAACAAATTAATAAAAATAATAAAAAAAAGTTAAGA
* * *
10776007 GTTAGTAGAGTCCGGACCATAATAATGTGGATCGTACCTCGGATTGGGACACCACAAGGTCGAAT
1 GTTAGTAGAGTCCGGACCATAATAATGTGGATCGTACCCCGGATTGGGTCACCACAAGGTCAAAT
10776072 AATAATTCAAACAAATTAATAAAAATAATAAAAAAAAAGTTAAGA
66 AATAATTCAAACAAATTAATAAAAATAAT-AAAAAAAAGTTAAGA
*
10776117 GTTAGTAGAGTCTGGACCATAATAATGTGGATCGTACCCCGGATTGGGTCA
1 GTTAGTAGAGTCCGGACCATAATAATGTGGATCGTACCCCGGATTGGGTCA
10776168 TTAGGTCATA
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 87 0.59
110 61 0.41
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (109 bp):
GTTAGTAGAGTCCGGACCATAATAATGTGGATCGTACCCCGGATTGGGTCACCACAAGGTCAAAT
AATAATTCAAACAAATTAATAAAAATAATAAAAAAAAGTTAAGA
Found at i:10778754 original size:137 final size:137
Alignment explanation
Indices: 10777956--10779036 Score: 1133
Period size: 137 Copynumber: 7.8 Consensus size: 137
10777946 GTCTAGACAT
* ** * * * * * * * *
10777956 ATTTGGAGATAACACGGTTCCTTTACATTAAGAAATTTTGATTGTCTGAGGATGAAACTGCTCTT
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
* ** * * *
10778021 TCGCGTTGAGGAGATCTGGTCGGTGGGTGACATTATTCCTTCGTGTTGAGGACATCAAGCCGTAT
66 TCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGT-T
* *
10778086 TTGGAGATG
130 TTAG-GATA
* * * * *
10778095 ATTTGGAGACAACACGGTTCCTTCACGTTGAGGAAGTCTGATTATCTGAA-GATAAAACTGATCC
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCT-AAGGATGACACTGCTCC
* * * * * * *
10778159 TTCGTGTTGAGGAGATCTGGATCGGTGGAAGACATTATTCCTTCGTGTTGAGGACATATAGCCAT
65 TTCGCGTTGAGGAGATCTGG-TCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGT
*
10778224 ATTTGGAGATA
129 -TTTAG-GATA
** * * * * *
10778235 ATTTATAGACAACACAGTTTCTTCGCATTGAGGAAGTATGATTGTCTAAGGATGACACTTCTCCT
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
* * * * * * *
10778300 TCGTGTTGAGGAGATCTGGTCGGTGGGCAACATTGTTTCTTCGTGTTGAGGACGTCAAGCCTTAT
66 TCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGT-T
* *
10778365 TTGGAGATG
130 TTAG-GATA
* * * * * *
10778374 ATTTGGAGACAACACGATTCCTTCACTTTGAGGAAGTCTAATTGTCTAAAGATGACACTGCTCTT
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
* * ** * *
10778439 TCACGTTGAGGGGGCCTGGTCGATGGACGACATTGTTCATTTGTGTTGAGGACGTCTAGCCGTTT
66 TCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGTTT
10778504 TAGGATA
131 TAGGATA
* * * * *
10778511 ATTTGGAGACAACATGATTCATTCGCTTTAAAGGAAGTCTGATTGTCTAAGGATGACACTGCTCC
1 ATTTGGAGACAACACGGTTCCTTCGCGTT-GAGGAAGTCTGATTGTCTAAGGATGACACTGCTCC
* * *
10778576 TTCGTGTTGAGGAGATCTGGTCAATGGATGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGTT
65 TTCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGTT
10778641 TTAGGATA
130 TTAGGATA
* * * * * *
10778649 ATTTGGAGACAATACGGTTCCTTCGCGTTGTGGAAGTGTGATTATCTGAGGATGACACTGTTCCT
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
* * * * *
10778714 TCACGTTGAGGAGGTCTAGTCGATGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTT
66 TCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGTTT
*
10778779 TAAGATA
131 TAGGATA
** * * * *
10778786 ATTTAAAGACAACATGGTTACTTCGCGTTAAGGAAGTTTGATTGTCTAAGGATGACACTGCTCCT
1 ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
* * * * * * *
10778851 TCGTGTTGAGGAGATCTGGTCGATGGATGACA-TGTTTTCTTCATGTTGAGGACGTTTATCCATT
66 TCGCGTTGAGGAGATCTGGTCGATGGACGACATTG-TTCCTTCGTGTTGAGGACGTCTAGCCGTT
10778915 TTAGGATA
130 TTAGGATA
* * * * * *
10778923 ATTAT-GAGACAACACGGTTCCTTCGCGTTGATGAAGTCTAATTGTCTAAAGATGATATTGCTCA
1 ATT-TGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCC
* *
10778987 TTCGCGTTGAGGATATCTGGTCGATGGACGACGTTGTTCCTTCGTGTTGA
65 TTCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGA
10779037 TGAGAGCTAG
Statistics
Matches: 791, Mismatches: 144, Indels: 16
0.83 0.15 0.02
Matches are distributed among these distances:
136 2 0.00
137 325 0.41
138 126 0.16
139 219 0.28
140 119 0.15
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (137 bp):
ATTTGGAGACAACACGGTTCCTTCGCGTTGAGGAAGTCTGATTGTCTAAGGATGACACTGCTCCT
TCGCGTTGAGGAGATCTGGTCGATGGACGACATTGTTCCTTCGTGTTGAGGACGTCTAGCCGTTT
TAGGATA
Found at i:10778942 original size:274 final size:275
Alignment explanation
Indices: 10777722--10779036 Score: 1277
Period size: 274 Copynumber: 4.8 Consensus size: 275
10777712 ATTCATGTTG
* * * * * ** * *
10777722 AGGAAGTCTGGTTATCTGAGGATGACACTACTCCTTCACGTT---GAGATCTGGTCGGTGGACGA
1 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
* * * * * * *
10777784 CATTGTTCCTTTGTGTTGAGGACATCTAGCCATATTTAGAGATGATTTGGAGACAACATGGTTCA
66 CATTGTTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATTTGGAGACAACACGGTTCC
** * * * * * * * *
10777849 TTCGTGTTGAGGAAGTCTGATTGTCTGAGGATGACACTGCTCCTTCGCATTGAAGATG-TATGGT
131 TTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGA-GATCTGGT
* * * * * ** *
10777913 C-AGTTGACGACATTGTTCTTTCGTGTTGAGGACGTCTA---G-----ACAT-ATTTGGAGATAA
195 CGA-TGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTTTAAGATAATTTAAAGACAA
* **
10777968 CACGGTTCCTTTACATTA
259 CATGGTT-CTTCGCATTA
* * * * * * * *
10777986 AGAAATTTTGATTGTCTGAGGATGAAACTGCTCTTTCGCGTTGAGGAGATCTGGTCGGTGGGTGA
1 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
* * * *
10778051 CATTATTCCTTCGTGTTGAGGACATCAAGCCGTATTTGGAGATGATTTGGAGACAACACGGTTCC
66 CATTGTTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATTTGGAGACAACACGGTTCC
* * * * * **
10778116 TTCACGTTGAGGAAGTCTGATTATCTGAAGATAAAACTGATCCTTCGTGTTGAGGAGATCTGGAT
131 TTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGAGATCTGG-T
* * * * * *
10778181 CGGTGGAAGACATT-ATTCCTTCGTGTTGAGGACATATAGCCATATTTGGAGATAATTTATAGAC
195 CGATGGACGACATTGA-TCCTTCGTGTTGAGGACGTATAGCCGT-TTT-AAGATAATTTAAAGAC
* * *
10778245 AACACAGTTTCTTCGCATTG
257 AACA-TGGTTCTTCGCATTA
* * * ***
10778265 AGGAAGTATGATTGTCTAAGGATGACACTTCTCCTTCGTGTTGAGGAGATCTGGTCGGTGGGCAA
1 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
* * * * *
10778330 CATTGTTTCTTCGTGTTGAGGACGTCAAGCCTTATTTGGAGATGATTTGGAGACAACACGATTCC
66 CATTGTTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATTTGGAGACAACACGGTTCC
* * * * **
10778395 TTCACTTTGAGGAAGTCTAATTGTCTAAAGATGACACTGCTCTTTCACGTTGAGGGGGCCTGGTC
131 TTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGAGATCTGGTC
* * * * * **
10778460 GATGGACGACATTGTTCATTTGTGTTGAGGACGTCTAGCCGTTTTAGGATAATTTGGAGACAACA
196 GATGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTTTAAGATAATTTAAAGACAACA
* *
10778525 TGATTCATTCGCTTTAA
261 TGGTTC-TTCGCATT-A
* *
10778542 AGGAAGTCTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCAATGGATGA
1 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
* *
10778607 CATTGTTCCTTCGTGTTGAGGACGTCTAGCCGT-TTTAG-GATAATTTGGAGACAATACGGTTCC
66 CATTGTTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATTTGGAGACAACACGGTTCC
* * * * * * * * *
10778670 TTCGCGTTGTGGAAGTGTGATTATCTGAGGATGACACTGTTCCTTCACGTTGAGGAGGTCTAGTC
131 TTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGAGATCTGGTC
10778735 GATGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTTTAAGATAATTTAAAGACAACA
196 GATGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTTTAAGATAATTTAAAGACAACA
*
10778800 TGGTTACTTCGCGTTA
261 TGGTT-CTTCGCATTA
10778816 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
1 AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
* * ** * *
10778881 CA-TGTTTTCTTCATGTTGAGGACGTTTATCCAT-TTTAG-GATAATTAT-GAGACAACACGGTT
66 CATTG-TTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATT-TGGAGACAACACGGTT
* * * * * * * *
10778942 CCTTCGCGTTGATGAAGTCTAATTGTCTAAAGATGATATTGCTCATTCGCGTTGAGGATATCTGG
129 CCTTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGAGATCTGG
* *
10779007 TCGATGGACGACGTTGTTCCTTCGTGTTGA
194 TCGATGGACGACATTGATCCTTCGTGTTGA
10779037 TGAGAGCTAG
Statistics
Matches: 875, Mismatches: 151, Indels: 40
0.82 0.14 0.04
Matches are distributed among these distances:
264 33 0.04
266 1 0.00
267 126 0.14
268 30 0.03
273 2 0.00
274 192 0.22
275 148 0.17
276 28 0.03
277 91 0.10
278 38 0.04
279 183 0.21
280 3 0.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (275 bp):
AGGAAGTTTGATTGTCTAAGGATGACACTGCTCCTTCGTGTTGAGGAGATCTGGTCGATGGATGA
CATTGTTCCTTCGTGTTGAGGACGTCAAGCCGTATTTAGAGATAATTTGGAGACAACACGGTTCC
TTCACGTTGAGGAAGTCTAATTATCTAAAGATGACACTGCTCCTTCACGTTGAGGAGATCTGGTC
GATGGACGACATTGATCCTTCGTGTTGAGGACGTATAGCCGTTTTAAGATAATTTAAAGACAACA
TGGTTCTTCGCATTA
Found at i:10779577 original size:20 final size:20
Alignment explanation
Indices: 10779552--10779628 Score: 154
Period size: 20 Copynumber: 3.9 Consensus size: 20
10779542 GAAAACAATC
10779552 TCAAGTGAAACAATTTCGTT
1 TCAAGTGAAACAATTTCGTT
10779572 TCAAGTGAAACAATTTCGTT
1 TCAAGTGAAACAATTTCGTT
10779592 TCAAGTGAAACAATTTCGTT
1 TCAAGTGAAACAATTTCGTT
10779612 TCAAGTGAAACAATTTC
1 TCAAGTGAAACAATTTC
10779629 AAAATTTATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
TCAAGTGAAACAATTTCGTT
Found at i:10779587 original size:94 final size:93
Alignment explanation
Indices: 10779317--10779587 Score: 350
Period size: 94 Copynumber: 2.9 Consensus size: 93
10779307 AGTGTCTTAA
* * * * * *
10779317 GGAAGATTGTCTCAAGTGAGACGAAATTTGTTTTGA-GATAAACAATCTCAAGTGAGATAAGTTT
1 GGAAAATTATCTCAAGCGAGACGAAATTTGTTTTTAGGA-AAACAATCTCAAGTGAAACAA-TTT
10779381 TGTTTCAAGTGAAATAA-TTTCAAAATTTGT
64 TGTTTCAAGTGAAA-AATTTTCAAAATTTGT
* * *
10779411 AGAAAATTATCTCAAGCGAGACGAAAATTT-TTTTTAGGAAAACAATCACAAGTGAGACCAATTT
1 GGAAAATTATCTCAAGCGAGACG-AAATTTGTTTTTAGGAAAACAATCTCAAGTGA-AACAATTT
* *
10779475 TGTTTCAAGTGCAAAATTTTCAAATTTTGT
64 TGTTTCAAGTGAAAAATTTTCAAAATTTGT
* *
10779505 GGAAAATTATCTCAAGCAAGACGAAATTTGTTTTTAGGAAAACAATCTCAAGTGAAACAATTTCG
1 GGAAAATTATCTCAAGCGAGACGAAATTTGTTTTTAGGAAAACAATCTCAAGTGAAACAATTTTG
10779570 TTTCAAGTGAAACAATTT
66 TTTCAAGTGAAA-AATTT
10779588 CGTTTCAAGT
Statistics
Matches: 154, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
93 27 0.18
94 117 0.76
95 10 0.06
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (93 bp):
GGAAAATTATCTCAAGCGAGACGAAATTTGTTTTTAGGAAAACAATCTCAAGTGAAACAATTTTG
TTTCAAGTGAAAAATTTTCAAAATTTGT
Found at i:10779757 original size:67 final size:65
Alignment explanation
Indices: 10779653--10779827 Score: 192
Period size: 67 Copynumber: 2.6 Consensus size: 65
10779643 GAGGGAAAAT
* * *
10779653 TGTCTCAAGCAAGACGAAATTTGTTTTGAGAGAAACAATCTCAAAGGCTTA-AGTTTCAAAAGAA
1 TGTCTCAAGCGAGACAAAATTTGTTTT-AGAGAAACAATCTCAAAGACTTATA-TTTCAAAAGAA
10779717 AC
64 AC
* * * *
10779719 TGTCTCAAGTGAGACAAAACTTTGTTTGTAGAGAAACAATCTTAAAGATTTATATTTCAAGAGAA
1 TGTCTCAAGCGAGACAAAA-TTTGTTT-TAGAGAAACAATCTCAAAGACTTATATTTCAAAAGAA
*
10779784 AT
64 AC
* *
10779786 TATCTCAAACGAGACAAAATTTGTTCTTAG-GAAATCAATCTC
1 TGTCTCAAGCGAGACAAAATTTGTT-TTAGAGAAA-CAATCTC
10779828 GACTGAGATC
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
65 4 0.04
66 31 0.34
67 55 0.60
68 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (65 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAGAGAAACAATCTCAAAGACTTATATTTCAAAAGAAAC
Found at i:10780080 original size:35 final size:36
Alignment explanation
Indices: 10780036--10780126 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 36
10780026 AATTTGTATC
*
10780036 TCAAGGGAAAACTATCTCAAGCGAGATGAATTTT-TT
1 TCAA-GGAAAACTATCTCAAGCGAGATCAATTTTGTT
** * *
10780072 TTTAGGAAAACAATCTCAAGTGAGATCAATTTTGTT
1 TCAAGGAAAACTATCTCAAGCGAGATCAATTTTGTT
*
10780108 TCAAGAAAAACTATCTCAA
1 TCAAGGAAAACTATCTCAA
10780127 TCAAGAAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 26 0.58
36 19 0.42
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (36 bp):
TCAAGGAAAACTATCTCAAGCGAGATCAATTTTGTT
Found at i:10782687 original size:23 final size:24
Alignment explanation
Indices: 10782659--10782726 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
10782649 ACCACAGCTC
10782659 GTATAAATGCACCGAAGTGCCACT
1 GTATAAATGCACCGAAGTGCCACT
* *
10782683 -TATAATTGCACCGAAGTGCC-GT
1 GTATAAATGCACCGAAGTGCCACT
**
10782705 GTAGCAATGCACCGAAGTGCCA
1 GTATAAATGCACCGAAGTGCCA
10782727 TATAAAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.21
Consensus pattern (24 bp):
GTATAAATGCACCGAAGTGCCACT
Found at i:10786053 original size:20 final size:20
Alignment explanation
Indices: 10786028--10786087 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
10786018 CTTTGTATAG
10786028 TAGTATCGATACCATAGGCA
1 TAGTATCGATACCATAGGCA
10786048 TAGTATCGATACCATAGGCA
1 TAGTATCGATACCATAGGCA
10786068 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCAT-AGGC
10786088 CCCAATAGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
TAGTATCGATACCATAGGCA
Found at i:10787999 original size:19 final size:19
Alignment explanation
Indices: 10787975--10788011 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10787965 TGAAAATGAT
*
10787975 TTGATTTTGAAAGTCAAAG
1 TTGATTTTGAAAATCAAAG
10787994 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAATCAAA
10788012 ATGAAATTTT
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:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGATTTTGAAAATCAAAG
Found at i:10789423 original size:41 final size:41
Alignment explanation
Indices: 10789364--10789441 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
10789354 AATTTTCTGG
* * *
10789364 ACAAGTAGTAATATTGTTCTTACAGTATCGATACCAATTGA
1 ACAAGTAGTAATAATGTTCATACAGTACCGATACCAATTGA
* * **
10789405 ACAAGTATTGATAATGTTCATATGGTACCGATACCAA
1 ACAAGTAGTAATAATGTTCATACAGTACCGATACCAA
10789442 AGGTAAGGGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (41 bp):
ACAAGTAGTAATAATGTTCATACAGTACCGATACCAATTGA
Found at i:10792780 original size:4 final size:4
Alignment explanation
Indices: 10792771--10792805 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
10792761 TTCAAACATA
*
10792771 AAAT AAAT AAAT AAAT AAGT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10792806 AATTAGCGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10793046 original size:109 final size:109
Alignment explanation
Indices: 10792876--10793142 Score: 405
Period size: 109 Copynumber: 2.5 Consensus size: 109
10792866 TAACAGAATT
* * * *
10792876 CGGACCATAATAATGTGGATCGTACCCCGGATCGGGTTACCACAAGATCGAAAAGTAATTCAAAC
1 CGGACCATAATAATGTGGATCGTACCCTGGATCGGGTTACCACAAGGTTGAAAAATAATTCAAAC
* *
10792941 AAATTAATAAAAATAATAAAAAA-TTGTTAAGGGTTAGTAGAGTC
66 AAATTAATAAAAATAATAAAAAACAT-TTAAGAGTTAGTAGAGTC
* * *
10792985 GGGACCATAATAATATGGATCGTACCCTGGATCGGGTCACCACAAGGTTGAAAAATAATTCAAAC
1 CGGACCATAATAATGTGGATCGTACCCTGGATCGGGTTACCACAAGGTTGAAAAATAATTCAAAC
10793050 AAATTAATAAAAATAATAAAAAACATTTAAGAGTTAGTAGAGTC
66 AAATTAATAAAAATAATAAAAAACATTTAAGAGTTAGTAGAGTC
*
10793094 CGGACCATAATAATGTGGATCGTA-CCTCGGATCAGGTTA-CACAAGGTTG
1 CGGACCATAATAATGTGGATCGTACCCT-GGATCGGGTTACCACAAGGTTG
10793143 TATAAATATT
Statistics
Matches: 143, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
108 13 0.09
109 129 0.90
110 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (109 bp):
CGGACCATAATAATGTGGATCGTACCCTGGATCGGGTTACCACAAGGTTGAAAAATAATTCAAAC
AAATTAATAAAAATAATAAAAAACATTTAAGAGTTAGTAGAGTC
Found at i:10794839 original size:21 final size:19
Alignment explanation
Indices: 10794796--10794832 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10794786 TTCGAAAATA
* *
10794796 TTGAATTTTTTTATATGAT
1 TTGAATTTTTTTAAATAAT
10794815 TTGAATTTTTTTAAATAA
1 TTGAATTTTTTTAAATAA
10794833 AGTTTGAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTGAATTTTTTTAAATAAT
Found at i:10794945 original size:23 final size:23
Alignment explanation
Indices: 10794915--10794988 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
10794905 CACTACTAGG
*
10794915 AGTTACATAATGATACAATAGAT
1 AGTTACATAGTGATACAATAGAT
* *
10794938 AGTTACATAGTGACACAAGAGAT
1 AGTTACATAGTGATACAATAGAT
10794961 AGTTTACATAGT-AGTACAATAGAT
1 AG-TTACATAGTGA-TACAATAGAT
10794985 AGTT
1 AGTT
10794989 TGTTGTTCTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
23 25 0.57
24 19 0.43
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (23 bp):
AGTTACATAGTGATACAATAGAT
Found at i:10794972 original size:24 final size:24
Alignment explanation
Indices: 10794917--10794989 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
10794907 CTACTAGGAG
*
10794917 TTACATAATGATACAATAGATAG-
1 TTACATAGTGATACAATAGATAGT
* *
10794940 TTACATAGTGACACAAGAGATAGT
1 TTACATAGTGATACAATAGATAGT
10794964 TTACATAGT-AGTACAATAGATAGT
1 TTACATAGTGA-TACAATAGATAGT
10794988 TT
1 TT
10794990 GTTGTTCTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 21 0.49
24 22 0.51
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (24 bp):
TTACATAGTGATACAATAGATAGT
Found at i:10795164 original size:40 final size:40
Alignment explanation
Indices: 10795117--10795197 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
10795107 TATTTTCATC
*
10795117 TCTAGAATTTTATAAATGTATTTTTTTATTTTTTTTAAAT
1 TCTAGAATTTTATAAATGTAATTTTTTATTTTTTTTAAAT
10795157 TCTAGAATTTTATAAATGTAATTTTTTATTTTTTTTAAAT
1 TCTAGAATTTTATAAATGTAATTTTTTATTTTTTTTAAAT
10795197 T
1 T
10795198 ATCTTTAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (40 bp):
TCTAGAATTTTATAAATGTAATTTTTTATTTTTTTTAAAT
Found at i:10798037 original size:3 final size:3
Alignment explanation
Indices: 10798029--10798056 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10798019 GAATAGGGTT
10798029 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG T
10798057 CTTTAAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:10798720 original size:104 final size:104
Alignment explanation
Indices: 10798590--10798797 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
10798580 TAGGATCAAA
10798590 ATTTTTCATAATACAAAGACTTTTTGTTTGTGCATTCTGATTGAATGGATCCTATTCTATACCAA
1 ATTTTTCATAATACAAAGACTTTTTGTTTGTGCATTCTGATTGAATGGATCCTATTCTATACCAA
*
10798655 ATGCCAGTTGAATGAAGAACATTGCACTTCTATGACATT
66 ATGCCAGGTGAATGAAGAACATTGCACTTCTATGACATT
10798694 ATTTTTCATAATACAAAGACTTTTTGTTTGTGCATTCTGATTGAATGGATCCTATTCTATACCAA
1 ATTTTTCATAATACAAAGACTTTTTGTTTGTGCATTCTGATTGAATGGATCCTATTCTATACCAA
10798759 ATGCCAGGTGAATGAAGAACATTGCACTTCTATGACATT
66 ATGCCAGGTGAATGAAGAACATTGCACTTCTATGACATT
10798798 CTTTAAGCTG
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (104 bp):
ATTTTTCATAATACAAAGACTTTTTGTTTGTGCATTCTGATTGAATGGATCCTATTCTATACCAA
ATGCCAGGTGAATGAAGAACATTGCACTTCTATGACATT
Found at i:10802679 original size:24 final size:24
Alignment explanation
Indices: 10802652--10802730 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
10802642 AATACATTAA
10802652 TTATAATAAATTATAAAAATATAT
1 TTATAATAAATTATAAAAATATAT
* *
10802676 TTATAATATCAATTAT-AAGATA-AA
1 TTATAATA--AATTATAAAAATATAT
*
10802700 TTAGAA-AAGTATTATAAAAATATAT
1 TTATAATAA--ATTATAAAAATATAT
10802725 TTATAA
1 TTATAA
10802731 CATCAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
21 1 0.02
23 6 0.14
24 19 0.44
25 11 0.26
26 6 0.14
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (24 bp):
TTATAATAAATTATAAAAATATAT
Found at i:10803099 original size:22 final size:23
Alignment explanation
Indices: 10803051--10803099 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
10803041 TATTGCACAT
* *
10803051 TTTCTATGCTTTTGTGGCAGGTT
1 TTTCTATGCTTTTGTGGCAGATA
10803074 TTTCTATGC-TTTGTGGC-GCATA
1 TTTCTATGCTTTTGTGGCAG-ATA
10803096 TTTC
1 TTTC
10803100 ATCTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 13 0.57
23 9 0.39
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.51
Consensus pattern (23 bp):
TTTCTATGCTTTTGTGGCAGATA
Found at i:10810452 original size:12 final size:13
Alignment explanation
Indices: 10810429--10810457 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10810419 ATGAAATGAA
10810429 TTAAAAATTCATT
1 TTAAAAATTCATT
10810442 TTAAAAA-TCATT
1 TTAAAAATTCATT
10810454 TTAA
1 TTAA
10810458 GCATGTGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAAAATTCATT
Found at i:10810998 original size:32 final size:32
Alignment explanation
Indices: 10810917--10810990 Score: 148
Period size: 32 Copynumber: 2.3 Consensus size: 32
10810907 GTAAGAGATT
10810917 TAAGTGAAATTTGGGTAAAATTCGAAATAAAA
1 TAAGTGAAATTTGGGTAAAATTCGAAATAAAA
10810949 TAAGTGAAATTTGGGTAAAATTCGAAATAAAA
1 TAAGTGAAATTTGGGTAAAATTCGAAATAAAA
10810981 TAAGTGAAAT
1 TAAGTGAAAT
10810991 CTAGGTAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (32 bp):
TAAGTGAAATTTGGGTAAAATTCGAAATAAAA
Found at i:10811836 original size:15 final size:15
Alignment explanation
Indices: 10811797--10811836 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10811787 TTTTGGATAA
10811797 TGCTATGTGAAAATG
1 TGCTATGTGAAAATG
* *
10811812 TTCTATGTGAATATG
1 TGCTATGTGAAAATG
*
10811827 TGCTAAGTGA
1 TGCTATGTGA
10811837 CCTTAGTCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (15 bp):
TGCTATGTGAAAATG
Found at i:10812000 original size:24 final size:24
Alignment explanation
Indices: 10811972--10812017 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10811962 ATTCCGTGAT
* *
10811972 AATTCTATGTGGTCATTTGGGACA
1 AATTCTATGCGGTCATTCGGGACA
10811996 AATTCTATGCGGTCATTCGGGA
1 AATTCTATGCGGTCATTCGGGA
10812018 TAAACCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (24 bp):
AATTCTATGCGGTCATTCGGGACA
Found at i:10817264 original size:2 final size:2
Alignment explanation
Indices: 10817257--10817297 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10817247 TCAGTGCGGT
10817257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10817298 CTTGTGATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10817787 original size:20 final size:20
Alignment explanation
Indices: 10817758--10817814 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
10817748 GATTGCCCAG
*
10817758 AGGGTACCGATTCCCCTCCT
1 AGGGTACCGATACCCCTCCT
*
10817778 AGGGTGCCGATACCCCTCCT
1 AGGGTACCGATACCCCTCCT
*
10817798 TGGGTACCGATACCCCT
1 AGGGTACCGATACCCCT
10817815 AGGCTTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.39, G:0.23, T:0.23
Consensus pattern (20 bp):
AGGGTACCGATACCCCTCCT
Found at i:10821383 original size:19 final size:19
Alignment explanation
Indices: 10821337--10821386 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
10821327 TAGTGAGAAA
* *
10821337 CAAGGCTAGACTTTTTGCT
1 CAAGGCTATACTTGTTGCT
10821356 CAAGGCTATACTTGTTGCT
1 CAAGGCTATACTTGTTGCT
10821375 CAAGGCTATACT
1 CAAGGCTATACT
10821387 CAAGAAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (19 bp):
CAAGGCTATACTTGTTGCT
Found at i:10825134 original size:20 final size:20
Alignment explanation
Indices: 10825109--10825165 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
10825099 GATTGTCCCG
10825109 AGGGTACCGATACCCCTCCT
1 AGGGTACCGATACCCCTCCT
*
10825129 AGGGTACCGATACCCC-CTT
1 AGGGTACCGATACCCCTCCT
10825148 ATGGGTACCGATACCCCT
1 A-GGGTACCGATACCCCT
10825166 AACCTTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (20 bp):
AGGGTACCGATACCCCTCCT
Found at i:10827416 original size:17 final size:17
Alignment explanation
Indices: 10827394--10827432 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
10827384 TGAATCAAAT
10827394 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
10827411 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
10827428 -AATTA
1 TAATTA
10827433 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:10830514 original size:11 final size:10
Alignment explanation
Indices: 10830490--10830527 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
10830480 TGCAAGTTTA
10830490 TTTTC-TTGT
1 TTTTCTTTGT
10830499 TTTTCTTTGTT
1 TTTTCTTTG-T
*
10830510 TTTTCTTTAT
1 TTTTCTTTGT
10830520 TTTTCTTT
1 TTTTCTTT
10830528 TAAAAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 5 0.19
10 12 0.46
11 9 0.35
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTCTTTGT
Found at i:10831317 original size:35 final size:35
Alignment explanation
Indices: 10831278--10831344 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
10831268 TGATGAGTTT
*
10831278 AATAAAGACGATAACGCCTAAGGTTGGGGTAATCC
1 AATAAAGACGATAACGCCTAAGGTTGAGGTAATCC
** *
10831313 AATAAAGGTGATAATGCCTAAGGTTGAGGTAA
1 AATAAAGACGATAACGCCTAAGGTTGAGGTAA
10831345 AATGAGTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (35 bp):
AATAAAGACGATAACGCCTAAGGTTGAGGTAATCC
Found at i:10833100 original size:21 final size:21
Alignment explanation
Indices: 10833075--10833140 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
10833065 GTAATTTGCA
10833075 CCGAAGTGCCACATAATTGTC
1 CCGAAGTGCCACATAATTGTC
*
10833096 CCGAA-TGACCACATAGGTT-TGC
1 CCGAAGTG-CCACATA-ATTGT-C
10833118 ACCGAAGTGCCACATAATTGTC
1 -CCGAAGTGCCACATAATTGTC
10833140 C
1 C
10833141 TTAAGGACCA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 6 0.16
23 13 0.35
24 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (21 bp):
CCGAAGTGCCACATAATTGTC
Found at i:10833119 original size:44 final size:44
Alignment explanation
Indices: 10833069--10833154 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
10833059 TAGCTCGTAA
*
10833069 TTTGCACCGAAGTGCCACATAATTGTCCCGAATGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
**
10833113 TTTGCACCGAAGTGCCACATAATTGTCCTTAAGGACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATA
10833155 AAACCCTCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
Found at i:10833130 original size:23 final size:21
Alignment explanation
Indices: 10833068--10833133 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
10833058 ATAGCTCGTA
10833068 ATTTGCACCGAAGTGCCACAT
1 ATTTGCACCGAAGTGCCACAT
*
10833089 AATTGTC-CCGAA-TGACCACAT
1 ATTTG-CACCGAAGTG-CCACAT
10833110 AGGTTTGCACCGAAGTGCCACAT
1 A--TTTGCACCGAAGTGCCACAT
10833133 A
1 A
10833134 ATTGTCCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 2 0.05
21 16 0.43
22 2 0.05
23 15 0.41
24 2 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (21 bp):
ATTTGCACCGAAGTGCCACAT
Found at i:10838848 original size:21 final size:20
Alignment explanation
Indices: 10838823--10838960 Score: 91
Period size: 21 Copynumber: 6.4 Consensus size: 20
10838813 AGCTGAAGTG
10838823 CCACATAATTGTCCCGAATGA
1 CCACATAATT-TCCCGAATGA
*
10838844 CCACATAGGTTTACACCGAAATG-
1 CCACATA-ATTT-C-CCG-AATGA
*
10838867 CCACATAGGTTTGCACCGAAGTG-
1 CCACATA-ATTT-C-CCGAA-TGA
*
10838890 CCACATAATTGTCCCGAAAGA
1 CCACATAATT-TCCCGAATGA
* *
10838911 CCACATAATTATCCCGGAGGA
1 CCACATAATT-TCCCGAATGA
*
10838932 CCACATAATTATCCCGAAGGA
1 CCACATAATT-TCCCGAATGA
*
10838953 CCAGATAA
1 CCACATAA
10838961 AATCCTCGAC
Statistics
Matches: 101, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.01
21 58 0.57
22 8 0.08
23 30 0.30
24 4 0.04
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (20 bp):
CCACATAATTTCCCGAATGA
Found at i:10838870 original size:23 final size:23
Alignment explanation
Indices: 10838839--10838896 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
10838829 AATTGTCCCG
10838839 AATGACCACATAGGTTTACACCGA
1 AATG-CCACATAGGTTTACACCGA
*
10838863 AATGCCACATAGGTTTGCACCGA
1 AATGCCACATAGGTTTACACCGA
*
10838886 AGTGCCACATA
1 AATGCCACATA
10838897 ATTGTCCCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (23 bp):
AATGCCACATAGGTTTACACCGA
Found at i:10839801 original size:20 final size:20
Alignment explanation
Indices: 10839776--10839827 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10839766 ATGTTAAAAA
*
10839776 GGGTATCAATACCATTCTTC
1 GGGTATCGATACCATTCTTC
10839796 GGGTATCGATACCATTCTTC
1 GGGTATCGATACCATTCTTC
*
10839816 GAGTATCGATAC
1 GGGTATCGATAC
10839828 TACCCTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (20 bp):
GGGTATCGATACCATTCTTC
Found at i:10841276 original size:36 final size:36
Alignment explanation
Indices: 10841231--10841365 Score: 137
Period size: 36 Copynumber: 3.8 Consensus size: 36
10841221 GAAAACGATT
** * * *
10841231 TTTTATCTCACTCAAAAATGTTTTTCTTAAAATAGA
1 TTTTATCTCACTTGAAATTGTTTTTCTTAAAACAAA
* ** * *
10841267 TTTTATCTCACTTGATATTGTTTTT-AAAAAAGATA
1 TTTTATCTCACTTGAAATTGTTTTTCTTAAAACAAA
* *
10841302 TTTTACCTCACTTGAGATTGTTTTTCTTAAAACAAA
1 TTTTATCTCACTTGAAATTGTTTTTCTTAAAACAAA
* *
10841338 TTTTATCTCACTTGAGATTATTTTTCTT
1 TTTTATCTCACTTGAAATTGTTTTTCTT
10841366 TTTTTATTTT
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 29 0.35
36 53 0.65
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.49
Consensus pattern (36 bp):
TTTTATCTCACTTGAAATTGTTTTTCTTAAAACAAA
Found at i:10841312 original size:71 final size:71
Alignment explanation
Indices: 10841222--10841362 Score: 183
Period size: 71 Copynumber: 2.0 Consensus size: 71
10841212 ATTTAATATG
* * * * * * *
10841222 AAAACGATTTTTTATCTCACTCAAAAATGTTTTTCTTAAAATAGATTTTATCTCACTTGATATTG
1 AAAAAGATATTTTACCTCACTCAAAAATGTTTTTCTTAAAACAAATTTTATCTCACTTGAGATTA
10841287 TTTTTA
66 TTTTTA
** * *
10841293 AAAAAGATATTTTACCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTATCTCACTTGAGATTA
1 AAAAAGATATTTTACCTCACTCAAAAATGTTTTTCTTAAAACAAATTTTATCTCACTTGAGATTA
10841358 TTTTT
66 TTTTT
10841363 CTTTTTTTAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.47
Consensus pattern (71 bp):
AAAAAGATATTTTACCTCACTCAAAAATGTTTTTCTTAAAACAAATTTTATCTCACTTGAGATTA
TTTTTA
Found at i:10841809 original size:23 final size:22
Alignment explanation
Indices: 10841764--10841810 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
10841754 GCTCTTTTTA
* **
10841764 ATTTTTTTACATTTTACGTTGT
1 ATTTTTTTAAATTTTACAATGT
10841786 ATTTTATTTAAATTTTACAATGT
1 ATTTT-TTTAAATTTTACAATGT
10841809 AT
1 AT
10841811 GAATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (22 bp):
ATTTTTTTAAATTTTACAATGT
Found at i:10870914 original size:16 final size:16
Alignment explanation
Indices: 10870893--10870928 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10870883 TTAGAGAACA
10870893 AAAATAAGATGAA-TAT
1 AAAATAAGAT-AAGTAT
10870909 AAAATAAGATAAGTAT
1 AAAATAAGATAAGTAT
10870925 AAAA
1 AAAA
10870929 CATGATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (16 bp):
AAAATAAGATAAGTAT
Found at i:10874136 original size:20 final size:21
Alignment explanation
Indices: 10874100--10874139 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10874090 TTGACTGGGA
10874100 GTATCGATACATGTTCATTGT
1 GTATCGATACATGTTCATTGT
*
10874121 GTATCGATA-TTGTTCATTG
1 GTATCGATACATGTTCATTG
10874140 CATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (21 bp):
GTATCGATACATGTTCATTGT
Found at i:10876062 original size:181 final size:181
Alignment explanation
Indices: 10875872--10876207 Score: 480
Period size: 181 Copynumber: 1.9 Consensus size: 181
10875862 AATTAAATAA
* * * *
10875872 TAATATTTATTTATTTTTAAATATTAAGAAAGTGGATGTCTTAAAGTAACTAGATGTTC-TTTTC
1 TAATATTTATTTATTTTTAAATATTAAGAAAATGGATGTCTTAAAATAACTAGATG-TCAATTTA
* **
10875936 TGATATTTTTAATTAAATAAATA-CCATGTTTATAAAAAACTAAAAAATATA-TTTATTTTAGTT
65 TGATATTTTTAAATAAATAAATATCC-TACTTATAAAAAACTAAAAAATATATTTTATTTTAGTT
**
10875999 TTATTTAAACTATTTTAATATGATTTTCTCAGGAAAAAAATATCATATTTTTAT
129 TTATAAAAACTATTTTAATAT-ATTTTCTCAGGAAAAAAATATCATATTTTTAT
* * *
10876053 TAATATTTATTTATTTTTTAATATTAAGAAAATGGCTTTCTTAAAATAACTAGATGTCAATTTAT
1 TAATATTTATTTATTTTTAAATATTAAGAAAATGGATGTCTTAAAATAACTAGATGTCAATTTAT
**
10876118 GATATTTTTAAATAAATAAATATCCTACTTATAAAACCCTAAAAAATATATTTTTATTTTAGTTT
66 GATATTTTTAAATAAATAAATATCCTACTTATAAAAAACTAAAAAATATA-TTTTATTTTAGTTT
*
10876183 TATAAAAATTATTTTAATATATTTT
130 TATAAAAACTATTTTAATATATTTT
10876208 TCCTTAGTAT
Statistics
Matches: 136, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
180 2 0.01
181 97 0.71
182 7 0.05
183 30 0.22
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (181 bp):
TAATATTTATTTATTTTTAAATATTAAGAAAATGGATGTCTTAAAATAACTAGATGTCAATTTAT
GATATTTTTAAATAAATAAATATCCTACTTATAAAAAACTAAAAAATATATTTTATTTTAGTTTT
ATAAAAACTATTTTAATATATTTTCTCAGGAAAAAAATATCATATTTTTAT
Found at i:10877321 original size:2 final size:2
Alignment explanation
Indices: 10877314--10877350 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10877304 GGTTAGGATT
10877314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10877351 CATGATAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10877433 original size:17 final size:18
Alignment explanation
Indices: 10877396--10877439 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
10877386 TACTAACCAT
10877396 TTTA-TTTTATTTTTTCAA
1 TTTATTTTTATTTTTT-AA
10877414 TTTATTTTTATTTTTT-A
1 TTTATTTTTATTTTTTAA
10877431 TTTATTTTT
1 TTTATTTTT
10877440 TCTTTTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.40
18 4 0.16
19 11 0.44
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTTTATTTTTTAA
Found at i:10881115 original size:29 final size:29
Alignment explanation
Indices: 10881073--10881130 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
10881063 TCTCGACATG
* *
10881073 ATATGGTCCAAATAGCTTTGTTTGAGATC
1 ATATGGTCCAAATAGCCTTGTTCGAGATC
10881102 ATATGGTCCAAATAGCCTTGTTCGAGATC
1 ATATGGTCCAAATAGCCTTGTTCGAGATC
10881131 CGATTTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (29 bp):
ATATGGTCCAAATAGCCTTGTTCGAGATC
Found at i:10881890 original size:73 final size:73
Alignment explanation
Indices: 10881810--10882000 Score: 321
Period size: 73 Copynumber: 2.6 Consensus size: 73
10881800 CAAAGTAAAG
*
10881810 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGATAAAGTTTCACTTG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGTTTCACTTG
10881875 AAATA-ACA
66 AAATAGA-A
*
10881883 ATTTATCTCACTTGAGATTGTTTTTCTTAAAATAAACTGTTTCTCGCTGGAGAAAGTTTCACTTG
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGTTTCACTTG
10881948 AAATAGAA
66 AAATAGAA
* * *
10881956 ATTTATCTCACTTGATATTGTTTTTCTTAAAACAAATTTTTTCTC
1 ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTC
10882001 ACTTGAGATT
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
73 110 0.99
74 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (73 bp):
ATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTTTCTCGCTGGAGAAAGTTTCACTTG
AAATAGAA
Found at i:10882002 original size:36 final size:36
Alignment explanation
Indices: 10881815--10882025 Score: 172
Period size: 36 Copynumber: 5.8 Consensus size: 36
10881805 TAAAGATTTA
*
10881815 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTT
* * * ** ** * * * *
10881851 TCTCGCTGGATAAAGTTTCACTTGAAATAACAATTTA
1 TCTCACTTGAGATTGTTTTTCTTAAAACAA-ACTTTT
* *
10881888 TCTCACTTGAGATTGTTTTTCTTAAAATAAACTGTT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTT
* * ** ** * *
10881924 TCTCGCTGGAGAAAGTTTCACTTGAAATAGAAA-TTTA
1 TCTCACTTGAGATTGTTTTTCTT-AAA-ACAAACTTTT
* *
10881961 TCTCACTTGATATTGTTTTTCTTAAAACAAATTTTT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTT
10881997 TCTCACTTGAGATTGTTTTTCTTAAAACA
1 TCTCACTTGAGATTGTTTTTCTTAAAACA
10882026 TTTTCAGAAT
Statistics
Matches: 129, Mismatches: 42, Indels: 8
0.72 0.23 0.04
Matches are distributed among these distances:
35 4 0.03
36 75 0.58
37 46 0.36
38 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAACTTTT
Found at i:10882302 original size:124 final size:123
Alignment explanation
Indices: 10882022--10882722 Score: 1012
Period size: 124 Copynumber: 5.7 Consensus size: 123
10882012 TTTTTCTTAA
* * *
10882022 AACATTTTCAGAATGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
1 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
*
10882087 TGAAGAACTTA-TCTAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGAGCAGCATC
66 TGAAGAACTTATTC-AACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATC
* * *
10882145 AAAATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGTGGAAGAAAAATTTCATAATC
1 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
* * * *
10882210 TGAAGAACTTATTCAACCTTTTTGCTCAACTCTATCACAGAAAGAGATAGAGTATCATC
66 TGAAGAACTTATTCAACC-TTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATC
* *
10882269 AACATTTCCAGAAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
1 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
* * *
10882334 TGAAGAACTTATTCAACCTTTTTGCTTGACTCTATCACA-AAAGGAGATAGAGCAGCATT
66 TGAAGAACTTATTCAACC-TTTTGCTCGACTCTATCGCAGAAA-GAGATAGAGCAGCATC
10882393 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
1 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
* * * * * *
10882458 TGAAGAACTTATTCGACATTTTACTCAACTCTATCGTAGAAAGAGATAGAGCAGTATC
66 TGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATC
* * * * * *
10882516 AACATTTCCAATGAAAGAGTTCATAATAAAAAGAATTCATCTGAAGAGGGAA-AAGAAGTTTATA
1 AACATTTCC-A-GAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGA-GGAAGAAAAAGTTCATA
* * * *
10882580 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATTGCATAAAGAGATATAACAGCATC
63 ATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATC
* *
10882641 AACATTTCCAGAAGGAGTTTGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATC
1 AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
10882706 TGAAGAACTTATTCAAC
66 TGAAGAACTTATTCAAC
10882723 ATTGCCTTGA
Statistics
Matches: 516, Mismatches: 54, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
122 4 0.01
123 176 0.34
124 231 0.45
125 101 0.20
126 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (123 bp):
AACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATC
TGAAGAACTTATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATC
Found at i:10883452 original size:13 final size:13
Alignment explanation
Indices: 10883436--10883460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10883426 TTTTTTTCCG
10883436 TTTATTTTTCATC
1 TTTATTTTTCATC
10883449 TTTATTTTTCAT
1 TTTATTTTTCAT
10883461 TTAATTTTGT
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:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTTTCATC
Found at i:10884030 original size:22 final size:22
Alignment explanation
Indices: 10883979--10884039 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 22
10883969 AATTAGCTGA
* *
10883979 TATATTTT-CATTTT-CTTTTT
1 TATATTTTATATTTTACTTTAT
*
10883999 TTTATCTTTATATTTTACTTTAT
1 TATAT-TTTATATTTTACTTTAT
10884022 TATATTTTAGTCATTTTA
1 TATATTTTA-T-ATTTTA
10884040 ATTCTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 3 0.09
22 9 0.28
23 10 0.31
24 6 0.19
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (22 bp):
TATATTTTATATTTTACTTTAT
Found at i:10884740 original size:183 final size:180
Alignment explanation
Indices: 10884485--10884821 Score: 484
Period size: 183 Copynumber: 1.9 Consensus size: 180
10884475 AATTAAATAA
* * *
10884485 TAATATTTATTTATTTTTAAATATTAAGAAAGGGGCTGTCTTAAAGTAACTAGATGTCATTTTCT
1 TAATATTTATTTATTTTTAAATATTAAGAAAGAGGCTGTCTTAAAATAACTAGATGTCAATTTCT
10884550 GATATTTTTAAATAAATAAATACCCTACTTATAAAA-ACTAAAAAATATATATATTTA-CTTTAG
66 GATATTTTTAAATAAATAAATACCCTACTTATAAAACACT-AAAAATATAT-T-TTTATCTTTA-
*
10884613 TTTTATTTAAA-TTATTTTAATATGATTTTCTCAGGAAAAATTATCATATTTATAT
127 TTTTA-TAAAATTTATTTTAATAT-ATTTTCTCAGGAAAAATTATCATATTTATAT
* *
10884668 TAATATTTATTTATTTATT-AATATTAAGAAAGAGGTTGTCTTAAAATAACTAGATGTTAATTTC
1 TAATATTTATTTATTT-TTAAATATTAAGAAAGAGGCTGTCTTAAAATAACTAGATGTCAATTTC
* * * * *
10884732 TTATATTTTTAAATAAATAAATATCTTACTTATAAAACCCTAAAAATATATTTTTATTTTTATTT
65 TGATATTTTTAAATAAATAAATACCCTACTTATAAAACACTAAAAATATATTTTTATCTTTATTT
10884797 TATAAAATTTATTTTAATATATTTT
130 TATAAAATTTATTTTAATATATTTT
10884822 TCCTTAGTAT
Statistics
Matches: 139, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
180 9 0.06
181 21 0.15
182 5 0.04
183 100 0.72
184 4 0.03
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (180 bp):
TAATATTTATTTATTTTTAAATATTAAGAAAGAGGCTGTCTTAAAATAACTAGATGTCAATTTCT
GATATTTTTAAATAAATAAATACCCTACTTATAAAACACTAAAAATATATTTTTATCTTTATTTT
ATAAAATTTATTTTAATATATTTTCTCAGGAAAAATTATCATATTTATAT
Found at i:10889235 original size:134 final size:132
Alignment explanation
Indices: 10888980--10889235 Score: 406
Period size: 134 Copynumber: 1.9 Consensus size: 132
10888970 ACAAAAAATC
* * *
10888980 TATATCTTTAACATCTCCAAAACGTATCAATATAAAAGCTTATCATAGATATCCAAGTTCAAGGG
1 TATATCTTTAACATCTCCAAAACGTAACAATATAAAAGCTAATCATAGATATCCAAGGTCAAGGG
* *
10889045 ACCATTGTTACTATTTTTTCAGCGTCGTAGATAAAAAGGATGGAAGAATGATAAAAAAAATTGTA
66 ACCACTGTTACTATTTTTTCAGCGTCGCAGATAAAAAGGATGGAAGAATGATAAAAAAAATTGTA
10889110 GT
131 GT
* * *
10889112 TATATCTTTTACTTCTCCAATACGTAACAAAATATAAAAGCTAATCATAGATATCCAAGGTCAAG
1 TATATCTTTAACATCTCCAAAACGTAAC--AATATAAAAGCTAATCATAGATATCCAAGGTCAAG
*
10889177 GGACCACTGTTACT-TTTTTTCAGCGTCGCAGATAAAAAGGATGGAAGAATGGTAAAAAA
64 GGACCACTGTTACTATTTTTTCAGCGTCGCAGATAAAAAGGATGGAAGAATGATAAAAAA
10889236 TTGTGGTTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 24 0.21
133 43 0.38
134 46 0.41
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (132 bp):
TATATCTTTAACATCTCCAAAACGTAACAATATAAAAGCTAATCATAGATATCCAAGGTCAAGGG
ACCACTGTTACTATTTTTTCAGCGTCGCAGATAAAAAGGATGGAAGAATGATAAAAAAAATTGTA
GT
Found at i:10889811 original size:2 final size:2
Alignment explanation
Indices: 10889804--10889843 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10889794 ATTTGTAATA
10889804 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
10889844 GATTAATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10897808 original size:16 final size:15
Alignment explanation
Indices: 10897780--10897852 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
10897770 ACATATTATT
10897780 ATATTATTAAAAATA
1 ATATTATTAAAAATA
10897795 ATATTATGTAAAAATA
1 ATATTAT-TAAAAATA
* * *
10897811 TTTTTATTAAATTATTAA
1 ATATTATTAAA--AAT-A
10897829 ATATTATTAATAAAT-
1 ATATTATTAA-AAATA
10897844 ATATT-TTAA
1 ATATTATTAA
10897853 CAATTAGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
14 4 0.09
15 16 0.34
16 13 0.28
17 4 0.09
18 9 0.19
19 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
ATATTATTAAAAATA
Found at i:10897831 original size:21 final size:22
Alignment explanation
Indices: 10897806--10897848 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10897796 TATTATGTAA
* *
10897806 AAATATTTTTATTAAAT-TATT
1 AAATATTATTAATAAATATATT
10897827 AAATATTATTAATAAATATATT
1 AAATATTATTAATAAATATATT
10897849 TTAACAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATATTATTAATAAATATATT
Found at i:10898223 original size:22 final size:21
Alignment explanation
Indices: 10898176--10898217 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10898166 GAAAACTTCA
* *
10898176 AAAAATATTTTATGAAAATTG
1 AAAAATACTTTATGAAAAATG
10898197 AAAAATACTTTATAGAAAAAT
1 AAAAATACTTTAT-GAAAAAT
10898218 ACAAAAGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAATACTTTATGAAAAATG
Found at i:10903015 original size:29 final size:30
Alignment explanation
Indices: 10902900--10903031 Score: 160
Period size: 30 Copynumber: 4.5 Consensus size: 30
10902890 AATAGGGATA
** **
10902900 TAATCCCATGCAGA-AACAGAACGATGAAT
1 TAATCCCATGCAGATGTCAGAACGGGGAAT
* *
10902929 TAATCCTATGCAGATGTCAGAATGGGGAAT
1 TAATCCCATGCAGATGTCAGAACGGGGAAT
* *
10902959 TAATCCCTTGTAGATGTCAGAACGGGGAAT
1 TAATCCCATGCAGATGTCAGAACGGGGAAT
*
10902989 TAATCCCATGCA-ATGTCAGAACAGGGAAT
1 TAATCCCATGCAGATGTCAGAACGGGGAAT
*
10903018 TAATCTCATGCAGA
1 TAATCCCATGCAGA
10903032 ATCGAAAATG
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
29 40 0.46
30 47 0.54
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (30 bp):
TAATCCCATGCAGATGTCAGAACGGGGAAT
Found at i:10908679 original size:2 final size:2
Alignment explanation
Indices: 10908674--10908700 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10908664 TTTAAAAAAT
10908674 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 T
10908701 TTCAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10908735 original size:22 final size:20
Alignment explanation
Indices: 10908706--10908745 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10908696 TATATTTCAA
10908706 AATAATATGTTTTCAAAAACT
1 AATAATATG-TTTCAAAAACT
10908727 AATATATATGTTTCAAAAA
1 AATA-ATATGTTTCAAAAA
10908746 AACCGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (20 bp):
AATAATATGTTTCAAAAACT
Found at i:10908746 original size:22 final size:21
Alignment explanation
Indices: 10908706--10908806 Score: 65
Period size: 22 Copynumber: 5.0 Consensus size: 21
10908696 TATATTTCAA
10908706 AATAATATGTTTTCAAAAACT
1 AATAATATGTTTTCAAAAACT
10908727 AATATATATG-TTTC--AAA--
1 AATA-ATATGTTTTCAAAAACT
**
10908744 AA-AA-CCGTTTT-AAAAACT
1 AATAATATGTTTTCAAAAACT
*
10908762 ATATTATATGTTTTCAAAAACT
1 A-ATAATATGTTTTCAAAAACT
*
10908784 ATATTATATATGTTTTCGAAAAC
1 A-A-TA-ATATGTTTTCAAAAAC
10908807 CATTTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 21
0.69 0.08 0.24
Matches are distributed among these distances:
14 1 0.02
15 4 0.07
16 4 0.07
17 2 0.03
18 1 0.02
19 4 0.07
20 1 0.02
21 13 0.21
22 15 0.25
23 1 0.02
24 15 0.25
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.40
Consensus pattern (21 bp):
AATAATATGTTTTCAAAAACT
Found at i:10908759 original size:35 final size:35
Alignment explanation
Indices: 10908690--10908781 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
10908680 TATATATATA
* *
10908690 TATATATATATTTCAAAATAATATGTTTTCAAAAAC
1 TATATATATGTTTCAAAA-AATACGTTTTCAAAAAC
10908726 TAATATATATGTTTCAAAAAA-ACCGTTTT-AAAAAC
1 T-ATATATATGTTTCAAAAAATA-CGTTTTCAAAAAC
10908761 TATATTATATGTTTTCAAAAA
1 TATA-TATATG-TTTCAAAAA
10908782 CTATATTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
34 3 0.06
35 14 0.28
36 17 0.34
37 16 0.32
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (35 bp):
TATATATATGTTTCAAAAAATACGTTTTCAAAAAC
Found at i:10908798 original size:24 final size:22
Alignment explanation
Indices: 10908750--10908867 Score: 81
Period size: 24 Copynumber: 5.5 Consensus size: 22
10908740 CAAAAAAACC
10908750 GTTTT-AAAAACTATATTATAT
1 GTTTTCAAAAACTATATTATAT
10908771 GTTTTCAAAAACTATATTATATAT
1 GTTTTCAAAAACTATA-T-TATAT
* *
10908795 GTTTTCGAAAAC--CA-T-T-T
1 GTTTTCAAAAACTATATTATAT
** *
10908812 -TTTAAAAACTA-TATATTATAT
1 GTTTTCAAA-AACTATATTATAT
*
10908833 GTTTTCAAAAACTATATAATACAT
1 GTTTTCAAAAACTATAT--TATAT
10908857 GTTTTCAAAAA
1 GTTTTCAAAAA
10908868 TATCTTTTCA
Statistics
Matches: 73, Mismatches: 11, Indels: 23
0.68 0.10 0.21
Matches are distributed among these distances:
16 5 0.07
17 2 0.03
18 2 0.03
19 2 0.03
20 1 0.01
21 7 0.10
22 22 0.30
23 1 0.01
24 31 0.42
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.43
Consensus pattern (22 bp):
GTTTTCAAAAACTATATTATAT
Found at i:10908832 original size:38 final size:38
Alignment explanation
Indices: 10908772--10908844 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
10908762 ATATTATATG
*
10908772 TTTTCAAAAACTATATTATATATGTTTTCGAAAACCAT
1 TTTTCAAAAACTATATTATATATGTTTTCAAAAACCAT
*
10908810 TTTTTAAAAACTATA-TATTATATGTTTTCAAAAAC
1 TTTTCAAAAACTATATTA-TATATGTTTTCAAAAAC
10908845 TATATAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 2 0.06
38 30 0.94
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTTCAAAAACTATATTATATATGTTTTCAAAAACCAT
Found at i:10908841 original size:62 final size:60
Alignment explanation
Indices: 10908710--10908928 Score: 241
Period size: 62 Copynumber: 3.6 Consensus size: 60
10908700 TTTCAAAATA
** **
10908710 ATATGTTTTCAAAAACTA-A-TATATATG-TTTCAAAAAAACCGTTTTAAAAAC-TATATT
1 ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCA-TTTTTTAAAAACTTATATT
10908767 ATATGTTTTCAAAAACTATATTATATATGTTTTCGAAAACCATTTTTTAAAAACTATATATT
1 ATATGTTTTCAAAAACTATATTATATATGTTTTC-AAAACCATTTTTTAAAAACT-TATATT
* * ** *
10908829 ATATGTTTTCAAAAACTATATAATACATGTTTTCAAAAATATCTTTTCAAAAA-TTATATT
1 ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCAT-TTTTTAAAAACTTATATT
* * *
10908889 ATATATTTTCAAAAACTATATATATTATATATTTTTAAAA
1 ATATGTTTTCAAAAACTATAT-TA-TATATGTTTTCAAAA
10908929 TTATTATATA
Statistics
Matches: 139, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
57 18 0.13
58 1 0.01
59 8 0.06
60 40 0.29
61 13 0.09
62 59 0.42
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (60 bp):
ATATGTTTTCAAAAACTATATTATATATGTTTTCAAAACCATTTTTTAAAAACTTATATT
Found at i:10908876 original size:38 final size:36
Alignment explanation
Indices: 10908829--10908903 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
10908819 ACTATATATT
* *
10908829 ATATGTTTTCAAAAACTATATAATACATGTTTTCAAAA
1 ATATCTTTTCAAAAA-T-TATAATACATATTTTCAAAA
* *
10908867 ATATCTTTTCAAAAATTATATTATATATTTTCAAAA
1 ATATCTTTTCAAAAATTATAATACATATTTTCAAAA
10908903 A
1 A
10908904 CTATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 18 0.55
37 1 0.03
38 14 0.42
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (36 bp):
ATATCTTTTCAAAAATTATAATACATATTTTCAAAA
Found at i:10908897 original size:22 final size:22
Alignment explanation
Indices: 10908867--10908944 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 22
10908857 GTTTTCAAAA
*
10908867 ATATCTTTTCAAAAATTATATT
1 ATATATTTTCAAAAATTATATT
10908889 ATATATTTTCAAAAACTATATATATT
1 ATATATTTTC-AAAA--AT-TATATT
*
10908915 ATATATTTT-TAAAATTATTATAT
1 ATATATTTTCAAAAATTA-TAT-T
10908938 ATATATT
1 ATATATT
10908945 ATCATATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.04
22 14 0.29
23 12 0.25
24 3 0.06
25 2 0.04
26 15 0.31
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATTTTCAAAAATTATATT
Found at i:10908936 original size:28 final size:26
Alignment explanation
Indices: 10908883--10908944 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
10908873 TTTCAAAAAT
10908883 TATATTATATATTTTCAAAAACTATA
1 TATATTATATATTTTCAAAAACTATA
* *
10908909 TATATTATATATTTT-TAAAATTAT-
1 TATATTATATATTTTCAAAAACTATA
10908933 TATA-TATATATT
1 TATATTATATATT
10908945 ATCATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 8 0.24
24 4 0.12
25 7 0.21
26 15 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
TATATTATATATTTTCAAAAACTATA
Found at i:10911360 original size:2 final size:2
Alignment explanation
Indices: 10911355--10911409 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
10911345 TGTTCAAAAG
10911355 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
10911397 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
10911410 CAGCTTGTTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10912358 original size:134 final size:134
Alignment explanation
Indices: 10912050--10912757 Score: 797
Period size: 134 Copynumber: 5.3 Consensus size: 134
10912040 ATGAGAAACA
* * * *
10912050 TTGATTTATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAAACTTGTTCCACTGTTACTCTG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
* * * * * *
10912115 GGAATATTAAATCTTGAAAACGAG-GGTTTGTT-TCGCTTCTT-TCTAAGGGAAAATCATATATG
66 GGAATATCAAATCTTGAAAAAGAGAGATTTGTTCT-GCTTCTTCT-TGAGGGAAAATCAGATCTG
*
10912177 GGGACG
129 GGGATG
* * *
10912183 TTGATTCATTCCACTGTTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTGTCACTCAG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
* * * * * * *
10912248 GGAATATCAAATCTTGAAAATGATAGATTTATTCTGCTTCTTCTTAAGAGAAAATAAGATATGGG
66 GGAATATCAAATCTTGAAAAAGAGAGATTTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTGGG
10912313 GATG
131 GATG
* * * * ** * *
10912317 TTGATTCATTCCACTGTTCCTGAGGGAAAATGGAATTGAGGTAGACTTGTTCCACTATCACTCA-
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
*
10912381 AGATATATCAAATCTTGAAAGAGAGAGAGATCTAT-TTCT-CTTCTTCTTGAGGGAAAATCAGAT
66 GGA-ATATCAAATCTTGAAA-A-AGAGAGAT-T-TGTTCTGCTTCTTCTTGAGGGAAAATCAGAT
** *
10912444 CTAAGGACG
126 CTGGGGATG
*
10912453 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTATACTTGTTCCACTATTACTCAG
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
* * * * *
10912518 GGAATATCAAATCTTGAAAAAGAGAGATATGTTCCGCTTCTTTTTGAGGAAAAATCAGATCTGAG
66 GGAATATCAAATCTTGAAAAAGAGAGATTTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTGGG
10912583 GACT-
131 GA-TG
* * * *
10912587 TTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACTTATTCCACTATTACTCAT
1 TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
* * *
10912652 GGAATATCAACTATT--TAAAGAGATGCATTTGTTCCT-CTTCTTCTTGAGGGAAAATCAGATCT
66 GGAATATCAAATCTTGAAAAAGAGA-G-ATTTGTT-CTGCTTCTTCTTGAGGGAAAATCAGATCT
*
10912714 GGGTATG
128 GGGGATG
* *
10912721 TTGATTCATTCCATTATTCCTCAGGGAAGATTGAAAT
1 TTGATTCATTCCACTATTCTTCAGGGAAGATT-AAAT
10912758 GAGTTCGATT
Statistics
Matches: 493, Mismatches: 65, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
132 8 0.02
133 88 0.18
134 278 0.56
135 8 0.02
136 103 0.21
137 7 0.01
138 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (134 bp):
TTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTAGACTTGTTCCACTATTACTCAG
GGAATATCAAATCTTGAAAAAGAGAGATTTGTTCTGCTTCTTCTTGAGGGAAAATCAGATCTGGG
GATG
Found at i:10912535 original size:270 final size:267
Alignment explanation
Indices: 10912160--10912757 Score: 770
Period size: 270 Copynumber: 2.2 Consensus size: 267
10912150 CTTCTTTCTA
* * *
10912160 AGGGAAAATCATATATGGGGACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTAAATCGAGGT
1 AGGGAAAATCAGATCT-GGGACGTTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGT
* * * * *
10912225 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAATGATAGATTTATTCTGCTTCTT
65 AGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGAAAAAGAGAGATATATTCCGCTTCTT
* *
10912290 CTTAA-GAGAAAATAAGATATGGGGA-TGTTGATTCATTCCACTGTTCCTGAGGGAAAATGGAAT
130 CTTAAGGA-AAAATAAGATATGAGGACT-TTGATTCATTCCACTGTTCCTCAGGGAAAATGGAAT
* * * *
10912353 TGAGGTAGACTTGTTCCACTATCACTCA-AGATATATCAAATCTTGAAAGAGAGAGAGATCTATT
193 CGAGGTAGACTTATTCCACTATCACTCATAGA-ATATCAAATATTGAAAGAGA-AG-CATCTATT
*
10912417 TCTCTTCTTCTTG
255 CCTCTTCTTCTTG
*
10912430 AGGGAAAATCAGATCTAAGGACGTTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGT
1 AGGGAAAATCAGATCT-GGGACGTTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGT
* * *
10912495 ATACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAAAGAGAGATATGTTCCGCTTCTT
65 AGACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGAAAAAGAGAGATATATTCCGCTTCTT
* * * * * * *
10912560 TTTGAGGAAAAATCAGATCTGAGGACTTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCG
130 CTTAAGGAAAAATAAGATATGAGGACTTTGATTCATTCCACTGTTCCTCAGGGAAAATGGAATCG
* * * * * * *
10912625 AGGTAGACTTATTCCACTATTACTCATGGAATATCAACTATTTAAAGAGATGCATTTGTTCCTCT
195 AGGTAGACTTATTCCACTATCACTCATAGAATATCAAATATTGAAAGAGAAGCATCTATTCCTCT
10912690 TCTTCTTG
260 TCTTCTTG
* * *
10912698 AGGGAAAATCAGATCTGGGTATGTTGATTCATTCCATTATTCCTCAGGGAAGATTGAAAT
1 AGGGAAAATCAGATCTGGG-ACGTTGATTCATTCCACTATTCTTCAGGGAAGATT-AAAT
10912758 GAGTTCGATT
Statistics
Matches: 285, Mismatches: 38, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
267 2 0.01
268 65 0.23
269 5 0.02
270 208 0.73
271 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (267 bp):
AGGGAAAATCAGATCTGGGACGTTGATTCATTCCACTATTCTTCAGGGAAGATTAAATCGAGGTA
GACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGAAAAAGAGAGATATATTCCGCTTCTTC
TTAAGGAAAAATAAGATATGAGGACTTTGATTCATTCCACTGTTCCTCAGGGAAAATGGAATCGA
GGTAGACTTATTCCACTATCACTCATAGAATATCAAATATTGAAAGAGAAGCATCTATTCCTCTT
CTTCTTG
Found at i:10913590 original size:236 final size:236
Alignment explanation
Indices: 10913018--10914543 Score: 2070
Period size: 236 Copynumber: 6.5 Consensus size: 236
10913008 TTTTTTTCGG
* * * *
10913018 AAAA-ATTCAAATTTCATATTTAAATGAGAAACTTTTCTTATTTTTCAAAAAAACATGTGAAAAC
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTC-GAAAAACATGTGAAAAC
* ** * * * ** * ** * *
10913082 ATCATGCCCGAAGGTCTGATAGATAGCTAGAAGGACTTATCATCTTGCTTAAAAGGCTTATAGAT
65 ATCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGAT
* ** * * *
10913147 GACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
130 GACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTT
* * *
10913212 G-GAAACATTTTACTAGGTAAGAAACCTTTT-TTACTTTT--GA
195 GAG-AATAGTTTACTAGGTAAGAAA-CTTTTCTTACTTTTCAAA
** * * *
10913252 AAAAT-TTTTATTTTCAAATTTAAATAAGAAACCTTTCTCATTTTTCGAAAAACTTGTGAAAACA
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
* **
10913316 TCCTATCCGAAGGTTTTATGGATTTCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
66 TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
* *
10913381 ACCTGAAAGATTTAAACATCATGCTCAAATAACTTACTGATGGCCCGAAGGACTTACCAAATTTG
131 ACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTG
* *
10913446 ATAATAGTTTACTAGGTAAGAAACGTTTCTTACTTTTCAAA
196 AGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
*
10913487 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
10913552 TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
66 TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
* * * *
10913617 ACCCGAAGGATTTAAGCATCATGCTAAAAAAACTTACTGATGTCCCGAAGGACTTACCAAATTTG
131 ACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTG
*
10913682 AGAATAGTTCACTAGGTAAGAAACTTTTCTTACTTTTCAAAA
196 AGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTC-AAA
*
10913724 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTTTGAAAAACATGTGAAAAC
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCA-TTTTTCGAAAAACATGTGAAAAC
* *
10913789 ATCCTATCCAAAGGTCTTATGGATGGTCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGAT
65 ATCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGAT
* * *
10913854 GA-CTCGAAGGATTTAAACATCATGCTAAAAAAACTTACTGATGTCCCAAAGGACTTACCAAATT
130 GACCT-GAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATT
*
10913918 TGAGAATAGTTCACTAGGTAAGAAACTTTTCTTACTTTTCAAA
194 TGAGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
10913961 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTTTCGAAAAACATGTGAAAA
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCA--TTTTTCGAAAAACATGTGAAAA
* * ** * * * * * *
10914026 AATCATGCCCGAATGTCTTATGGATGGCCCGAAAGACTTATCATCTTGGTTGAAAGAATTACAGA
64 CATCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGA
* * * * * ** *
10914091 TGACC-AAAGGATTTAAGCATCATGCTCAAAAGACTTATTGATGGCCTGAAGGACTTATTAATTT
129 TGACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATT
* * * *
10914155 TG-GAAACAATTTACTAGGTAAGAAACCTTTCTTAGTTTTC---
194 TGAG-AATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
* * * * *
10914195 AAAATTTTCAATTTTCAGATTAAAATGAGAAACATTTC-CAATTTTTCGAAAAACATGTGAAAAC
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTC-ATTTTTCGAAAAACATGTGAAAAC
*
10914259 ATCCTATCCGAAGGTATTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGAT
65 ATCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGAT
*
10914324 GACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTAATGGCCCGAAGGACTTACCAAATTT
130 GACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTT
10914389 GAGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
195 GAGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
* * *
10914431 AAAATATTCAAATTTCAGATATAAATGAGAAACCTTTTTCATTTTTCGAAAAACATGTGAAAACA
1 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
** * * * *
10914496 TCCTGCCCGAATGTCTTATGGATGGCCTGAAGGACTTATCGTCTTGCT
66 TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCT
10914544 GGAGCATCAG
Statistics
Matches: 1140, Mismatches: 133, Indels: 36
0.87 0.10 0.03
Matches are distributed among these distances:
232 85 0.07
233 235 0.21
234 73 0.06
235 6 0.01
236 308 0.27
237 170 0.15
238 262 0.23
239 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (236 bp):
AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
ACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTG
AGAATAGTTTACTAGGTAAGAAACTTTTCTTACTTTTCAAA
Found at i:10914375 original size:42 final size:41
Alignment explanation
Indices: 10914280--10914380 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
10914270 AGGTATTATG
* * * *
10914280 GATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACA
1 GATGGCCCGAAGGACTTAACATCATGCTCAAAAAACTTACA
* * *
10914321 GATGACCTGAAGGATTTAAACATCATGCTCAAAAAACTTACTA
1 GATGGCCCGAAGGACTT-AACATCATGCTCAAAAAACTTAC-A
10914364 -ATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
10914381 CCAAATTTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
41 15 0.31
42 32 0.67
43 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAACATCATGCTCAAAAAACTTACA
Found at i:10914378 original size:470 final size:470
Alignment explanation
Indices: 10913018--10914543 Score: 2247
Period size: 470 Copynumber: 3.2 Consensus size: 470
10913008 TTTTTTTCGG
* * * *
10913018 AAAA-ATTCAAATTTCATATTTAAATGAGAAACTTTTCTTATTTTTCAAAAAAACATGTGAAAAC
1 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTC-GAAAAACATGTGAAAAC
* * * ** * * *
10913082 ATCATGCCCGAAGGTCTGATAGATAGCTAGAAGGACTTATCATCTTGCTTAAAAGGCTTATAGAT
65 ATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTACAGAT
** *
10913147 GACCCGAAGGATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
130 GACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTT
* * * *
10913212 GGAAACATTTTACTAGGTAAGAAACCTTTTTTACTTTTGAAAAATTTT-TATTTTCAAATTTAAA
195 GGAAACAATTTACTAGGTAAGAAACCTTTCTTACTTTT-CAAAATTTTCAATTTTCAAATTTAAA
* * * *
10913276 TAAGAAACCTTTCTC-ATTTTTCGAAAAACTTGTGAAAACATCCTATCCGAAGGTTTTATGGATT
259 TGAGAAACCTTTCTCAATTTTTCGAAAAACATGTGAAAACATCCTATCCGAAGGTATTATGGATG
* *
10913340 TCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCTGAAAGATTTAAACATCATGC
324 GCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAACATCATGC
* *
10913405 TCAAATAACTTACTGATGGCCCGAAGGACTTACCAAATTTGATAATAGTTTACTAGGTAAGAAAC
389 TCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTGAGAATAGTTTACTAGGTAAGAAAC
*
10913470 GTTTCTTACTTTTCAAA
454 TTTTCTTACTTTTCAAA
10913487 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
1 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
* ** * *
10913552 TCCTATCCGAAGGTCTTATGGATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATG
66 TCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTACAGATG
* * * *
10913617 ACCCGAAGGATTTAAGCATCATGCTAAAAAAACTTACTGATGTCCCGAAGGACTTACCAAATTT-
131 ACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTG
* * * * * *
10913681 GAGAATAGTTCACTAGGTAAGAAACTTTTCTTACTTTTCAAAAAAAATATTCAAATTTCAAATTT
196 GA-AACAATTTACTAGGTAAGAAACCTTTCTTACTTTTC----AAAATTTTCAATTTTCAAATTT
* * * *
10913746 AAATGAGAAACCTTTCTCATTTTTTTGAAAAACATGTGAAAACATCCTATCCAAAGGTCTTATGG
256 AAATGAGAAACCTTTCTCAATTTTTCGAAAAACATGTGAAAACATCCTATCCGAAGGTATTATGG
*
10913811 ATGGTCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGA-CTCGAAGGATTTAAACATC
321 ATGGCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCT-GAAGGATTTAAACATC
* * * *
10913875 ATGCTAAAAAAACTTACTGATGTCCCAAAGGACTTACCAAATTTGAGAATAGTTCACTAGGTAAG
385 ATGCTCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTGAGAATAGTTTACTAGGTAAG
10913940 AAACTTTTCTTACTTTTCAAA
450 AAACTTTTCTTACTTTTCAAA
*
10913961 AAAATATTCAAATTTCAAATTTAAATGAGAAACCTTTCTCATTTTTTTCGAAAAACATGTGAAAA
1 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCA--TTTTTCGAAAAACATGTGAAAA
* * * * *
10914026 AATCATGCCCGAATGTCTTATGGATGGCCCGAAAGACTTATCATCTTGGTTGAAAGAATTACAGA
64 CATCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTACAGA
* * * **
10914091 TGA-CCAAAGGATTTAAGCATCATGCTCAAAAGACTTATTGATGGCCTGAAGGACTTATTAATTT
129 TGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTT
* * *
10914155 TGGAAACAATTTACTAGGTAAGAAACCTTTCTTAGTTTTCAAAATTTTCAATTTTCAGATTAAAA
194 TGGAAACAATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATTTTCAATTTTCAAATTTAAA
*
10914220 TGAGAAACATTTC-CAATTTTTCGAAAAACATGTGAAAACATCCTATCCGAAGGTATTATGGATG
259 TGAGAAACCTTTCTCAATTTTTCGAAAAACATGTGAAAACATCCTATCCGAAGGTATTATGGATG
10914284 GCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAACATCATGC
324 GCCCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAACATCATGC
*
10914349 TCAAAAAACTTACTAATGGCCCGAAGGACTTACCAAATTTGAGAATAGTTTACTAGGTAAGAAAC
389 TCAAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTGAGAATAGTTTACTAGGTAAGAAAC
10914414 TTTTCTTACTTTTCAAA
454 TTTTCTTACTTTTCAAA
* *
10914431 AAAATATTCAAATTTCAGATATAAATGAGAAACCTTTTTCATTTTTCGAAAAACATGTGAAAACA
1 AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
* * * *
10914496 TCCTGCCCGAATGTCTTATGGATGGCCTGAAGGACTTATCGTCTTGCT
66 TCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCT
10914544 GGAGCATCAG
Statistics
Matches: 945, Mismatches: 99, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
468 68 0.07
469 160 0.17
470 262 0.28
471 35 0.04
472 7 0.01
473 30 0.03
474 217 0.23
475 84 0.09
476 82 0.09
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (470 bp):
AAAATATTCAAATTTCAGATTTAAATGAGAAACCTTTCTCATTTTTCGAAAAACATGTGAAAACA
TCATGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTACAGATG
ACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTG
GAAACAATTTACTAGGTAAGAAACCTTTCTTACTTTTCAAAATTTTCAATTTTCAAATTTAAATG
AGAAACCTTTCTCAATTTTTCGAAAAACATGTGAAAACATCCTATCCGAAGGTATTATGGATGGC
CCGAAGGACTTACCATCTTGCTCGAAAGACTTACAGATGACCTGAAGGATTTAAACATCATGCTC
AAAAAACTTACTGATGGCCCGAAGGACTTACCAAATTTGAGAATAGTTTACTAGGTAAGAAACTT
TTCTTACTTTTCAAA
Found at i:10917586 original size:30 final size:30
Alignment explanation
Indices: 10917538--10917610 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
10917528 GAAATTGACT
10917538 TGAACTATGTGAAAAGAAGCTACG-TGATTATA
1 TGAA-TATGTG-AAAGAAGCTACGAT-ATTATA
* *
10917570 TGTATATGTGAAAGAAGCTATGATATTATA
1 TGAATATGTGAAAGAAGCTACGATATTATA
10917600 TGAATATGTGA
1 TGAATATGTGA
10917611 TATGAATGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 27 0.73
31 7 0.19
32 3 0.08
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (30 bp):
TGAATATGTGAAAGAAGCTACGATATTATA
Found at i:10917734 original size:18 final size:18
Alignment explanation
Indices: 10917711--10917764 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
10917701 AGGGCTCTAC
10917711 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
10917729 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
10917747 GTGGTCCTTCGGAACATA
1 GTGGTCCTTCGGGACATA
10917765 TATGATATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:10921726 original size:30 final size:30
Alignment explanation
Indices: 10921680--10921752 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
10921670 GAAAGTAACT
*
10921680 TGAACTATGTGGAAAGAAGCTACGTGATTACA
1 TGAA-TATGT-GAAAGAAGCTACGAGATTACA
* * *
10921712 TGTATATGTGAAAGAAGCTATGAGATTATA
1 TGAATATGTGAAAGAAGCTACGAGATTACA
10921742 TGAATATGTGA
1 TGAATATGTGA
10921753 TATGAATGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 28 0.78
31 5 0.14
32 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TGAATATGTGAAAGAAGCTACGAGATTACA
Done.