Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 37 of 186
Found at i:11037061 original size:9 final size:9
Alignment explanation
Indices: 11037047--11037078 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
11037037 CCATTTGTCC
11037047 TTGCATCTG
1 TTGCATCTG
11037056 TTGCATCTG
1 TTGCATCTG
11037065 TTGCATC-G
1 TTGCATCTG
11037073 TTGCAT
1 TTGCAT
11037079 GTCTTAGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGCATCTG
Found at i:11038457 original size:30 final size:30
Alignment explanation
Indices: 11038421--11038478 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
11038411 CTTAGCAAGC
11038421 AAATGCCTCTAAAATAATAACAAAATTAAA
1 AAATGCCTCTAAAATAATAACAAAATTAAA
11038451 AAATGCCTCTAAAATAATAACAAAATTA
1 AAATGCCTCTAAAATAATAACAAAATTA
11038479 TCAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAA
Found at i:11038537 original size:22 final size:22
Alignment explanation
Indices: 11038512--11038554 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11038502 TATCCAAACA
11038512 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
11038534 ATAATAATAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11038555 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11044655 original size:19 final size:19
Alignment explanation
Indices: 11044631--11044667 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11044621 AAATTCCTTA
11044631 TTCCA-TTCGCCAACTAACT
1 TTCCATTTC-CCAACTAACT
11044650 TTCCATTTCCCAACTAAC
1 TTCCATTTCCCAACTAAC
11044668 ATGTAGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.27, C:0.38, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCCATTTCCCAACTAACT
Found at i:11044724 original size:1 final size:1
Alignment explanation
Indices: 11044679--11044704 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11044669 TGTAGGAGAA
11044679 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
11044705 AGGAGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11045787 original size:16 final size:16
Alignment explanation
Indices: 11045766--11045833 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
11045756 TTTGGTTCGC
11045766 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
11045782 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
11045797 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
11045814 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
11045830 TGTA
1 TGTA
11045834 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:11045805 original size:32 final size:32
Alignment explanation
Indices: 11045766--11045833 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
11045756 TTTGGTTCGC
11045766 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
11045798 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
11045830 TGTA
1 TGTA
11045834 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:11046157 original size:157 final size:157
Alignment explanation
Indices: 11045963--11046272 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
11045953 CCCTTAGCAT
*
11045963 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
11046028 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
11046093 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
11046120 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
11046185 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
11046250 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
11046273 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:11046269 original size:82 final size:81
Alignment explanation
Indices: 11046026--11046275 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
11046016 TATTATTATC
* * *
11046026 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
11046091 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
11046108 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
11046162 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
11046183 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
11046248 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
11046265 AATAATTAATA
1 AATAATAAATA
11046276 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:11046346 original size:157 final size:155
Alignment explanation
Indices: 11046009--11046330 Score: 349
Period size: 157 Copynumber: 2.0 Consensus size: 155
11045999 TTAAATTTTA
* * * *
11046009 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * * ** *
11046074 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
* * * * *
11046139 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
11046166 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
11046231 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-A
11046296 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
11046327 ATAA
1 ATAA
11046331 TTTGAAATAA
Statistics
Matches: 137, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:11047170 original size:13 final size:13
Alignment explanation
Indices: 11047152--11047181 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11047142 CAATCAGCTA
11047152 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11047165 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11047178 AATT
1 AATT
11047182 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:11047524 original size:49 final size:49
Alignment explanation
Indices: 11047452--11047550 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
11047442 TCTAATGAAA
11047452 CTCTGAGTCAGTTTTGTACACCTCTTCTTAGACTGCCTACGACTCTTTC
1 CTCTGAGTCAGTTTTGTACACCTCTTCTTAGACTGCCTACGACTCTTTC
* *
11047501 CTCTGAGTCGGTTTTGTACACCTCTTCTTAGACTGCCTACGGCTCTTTC
1 CTCTGAGTCAGTTTTGTACACCTCTTCTTAGACTGCCTACGACTCTTTC
11047550 C
1 C
11047551 CATTTGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.14, C:0.31, G:0.16, T:0.38
Consensus pattern (49 bp):
CTCTGAGTCAGTTTTGTACACCTCTTCTTAGACTGCCTACGACTCTTTC
Found at i:11063918 original size:51 final size:51
Alignment explanation
Indices: 11063858--11063959 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
11063848 CCTCCTTCTC
11063858 AATTAAGTAATTTCATCCAATTAG-GTAACTGGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATT-GCGTAACTGGGGATTGGTTTTATGGTAGG
* *
11063909 AATTAAGTAATTTCTTCCAATTGCGTAATTGGGGATTGGTTTTATGGTAGG
1 AATTAAGTAATTTCATCCAATTGCGTAACTGGGGATTGGTTTTATGGTAGG
11063960 TATAGAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 47 0.98
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (51 bp):
AATTAAGTAATTTCATCCAATTGCGTAACTGGGGATTGGTTTTATGGTAGG
Found at i:11064914 original size:12 final size:12
Alignment explanation
Indices: 11064878--11064915 Score: 55
Period size: 10 Copynumber: 3.4 Consensus size: 12
11064868 ATAAAATGAT
11064878 ATTATATTTATA
1 ATTATATTTATA
11064890 A-TAT-TTTAT-
1 ATTATATTTATA
11064899 ATTATATTTATA
1 ATTATATTTATA
11064911 ATTAT
1 ATTAT
11064916 GACAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.35
11 8 0.35
12 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATATTTATA
Found at i:11067079 original size:26 final size:26
Alignment explanation
Indices: 11067043--11067092 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
11067033 AGTAGGTTAA
11067043 TTTTGAAAAATCACCATAAATTTTAG
1 TTTTGAAAAATCACCATAAATTTTAG
11067069 TTTTGAAAAATCACCATAAATTTT
1 TTTTGAAAAATCACCATAAATTTT
11067093 GGAAATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (26 bp):
TTTTGAAAAATCACCATAAATTTTAG
Found at i:11068339 original size:12 final size:12
Alignment explanation
Indices: 11068324--11068354 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11068314 TGGAAAGAGA
*
11068324 ATGATATTTATC
1 ATGACATTTATC
11068336 ATGACATTTATC
1 ATGACATTTATC
11068348 ATGACAT
1 ATGACAT
11068355 GTAAATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (12 bp):
ATGACATTTATC
Found at i:11077883 original size:18 final size:17
Alignment explanation
Indices: 11077860--11077894 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11077850 GGGGGAGCAT
11077860 AGATCACTCATTCCTGC
1 AGATCACTCATTCCTGC
11077877 NAGATCACTCATTCCTGC
1 -AGATCACTCATTCCTGC
11077895 TCAACATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.29
Consensus pattern (17 bp):
AGATCACTCATTCCTGC
Found at i:11085429 original size:40 final size:40
Alignment explanation
Indices: 11085334--11085431 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 40
11085324 CTTTTCAGGT
* * * *
11085334 CAAATCCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * *
11085374 TAAATCCTATTCACTTTAAATTACTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
11085414 CAAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
11085432 TATTCTCGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:11088628 original size:23 final size:22
Alignment explanation
Indices: 11088587--11088629 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11088577 CTTTAGCTAT
*
11088587 TTTTATTTTTATTGCAATTTAA
1 TTTTATTTTTATTACAATTTAA
*
11088609 TTTTGTTTTTATTACTAATTT
1 TTTTATTTTTATTAC-AATTT
11088630 TTCTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTATTTTTATTACAATTTAA
Found at i:11088629 original size:18 final size:19
Alignment explanation
Indices: 11088606--11088644 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
11088596 TATTGCAATT
11088606 TAATTTTGT-TTTTA-TTAC
1 TAATTTT-TCTTTTATTTAC
11088624 TAATTTTTCTTTTATTTAC
1 TAATTTTTCTTTTATTTAC
11088643 TA
1 TA
11088645 CTGGCAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 12 0.63
19 6 0.32
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (19 bp):
TAATTTTTCTTTTATTTAC
Found at i:11089283 original size:25 final size:25
Alignment explanation
Indices: 11089249--11089296 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
11089239 CGGAAAAGTT
11089249 AAGGAATGATATCTCTTCTTTTGCG
1 AAGGAATGATATCTCTTCTTTTGCG
11089274 AAGGAATGATATCTCTTCTTTTG
1 AAGGAATGATATCTCTTCTTTTG
11089297 TGCAAATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (25 bp):
AAGGAATGATATCTCTTCTTTTGCG
Found at i:11092191 original size:35 final size:35
Alignment explanation
Indices: 11092140--11092210 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
11092130 GCTTTTTAGG
*
11092140 TCATACTGGATTTTATAGAAGGTTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
*
11092175 TCATGCTGGATTTTATAGAAGATTTATTAAAGATT
1 TCATACTGGATTTTATAGAAGATTTATTAAAGATT
11092210 T
1 T
11092211 TTCTAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.44
Consensus pattern (35 bp):
TCATACTGGATTTTATAGAAGATTTATTAAAGATT
Found at i:11099684 original size:13 final size:13
Alignment explanation
Indices: 11099666--11099691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11099656 GTATGAACTT
11099666 AGTGGTATTTCTA
1 AGTGGTATTTCTA
11099679 AGTGGTATTTCTA
1 AGTGGTATTTCTA
11099692 TAAACCGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
AGTGGTATTTCTA
Found at i:11101477 original size:22 final size:22
Alignment explanation
Indices: 11101421--11101477 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
11101411 TTCTTCACTG
* *
11101421 TTTCTTTTGCTTTGTTTCTCTT
1 TTTCATTTGTTTTGTTTCTCTT
*
11101443 TTTCATTTCTTTTGTTTCAT-TT
1 TTTCATTTGTTTTGTTTC-TCTT
11101465 ATTT-ATTTGTTTT
1 -TTTCATTTGTTTT
11101478 TATTATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (22 bp):
TTTCATTTGTTTTGTTTCTCTT
Found at i:11103403 original size:20 final size:21
Alignment explanation
Indices: 11103378--11103421 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11103368 ACACCTATTA
*
11103378 TTTATTTTTA-CTTTTTTTAT
1 TTTATTTTTATCTTTATTTAT
11103398 TTTATTTTTATCTTTATTTAT
1 TTTATTTTTATCTTTATTTAT
11103419 TTT
1 TTT
11103422 TTGAAATTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTTTTATCTTTATTTAT
Found at i:11103413 original size:12 final size:12
Alignment explanation
Indices: 11103378--11103416 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
11103368 ACACCTATTA
11103378 TTTATTTTTA-C
1 TTTATTTTTATC
11103389 -TT-TTTTTAT-
1 TTTATTTTTATC
11103398 TTTATTTTTATC
1 TTTATTTTTATC
11103410 TTTATTT
1 TTTATTT
11103417 ATTTTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 7 0.29
12 7 0.29
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTTATC
Found at i:11105826 original size:13 final size:13
Alignment explanation
Indices: 11105808--11105838 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11105798 TTACCAAAGG
11105808 GACACGACCATGT
1 GACACGACCATGT
*
11105821 GACACGGCCATGT
1 GACACGACCATGT
11105834 GACAC
1 GACAC
11105839 ACCCGTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.32, G:0.26, T:0.13
Consensus pattern (13 bp):
GACACGACCATGT
Found at i:11114031 original size:11 final size:11
Alignment explanation
Indices: 11114015--11114039 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11114005 TGTGAGAAGA
11114015 CAAAATTTTCT
1 CAAAATTTTCT
11114026 CAAAATTTTCT
1 CAAAATTTTCT
11114037 CAA
1 CAA
11114040 TTCTATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (11 bp):
CAAAATTTTCT
Found at i:11114839 original size:46 final size:46
Alignment explanation
Indices: 11114779--11115098 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
11114769 TTTGACATGA
* * * * * *
11114779 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
11114825 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11114871 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11114917 TGCCATGGTATCTTTCAACCATGGTCTTACAAATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11114963 TGCCATGGTATCTTTCAACCATGGTATTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11115009 TGCCATGGTATCTTTCAACCATGGTCTTAAACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11115055 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11115099 AGAGCACACT
Statistics
Matches: 254, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 250 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11116796 original size:46 final size:46
Alignment explanation
Indices: 11116746--11117699 Score: 1784
Period size: 46 Copynumber: 20.7 Consensus size: 46
11116736 TGCCACAGTG
* * * * *
11116746 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
*** * *
11116792 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
* *
11116838 TCTTTCAACCATGGTCTTACAAATTTCATATCATGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11116884 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11116930 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11116976 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117022 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117068 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117114 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117160 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117206 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117252 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117298 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117344 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117390 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117436 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117482 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117528 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117574 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117620 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
11117666 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
11117700 AGAGCACACT
Statistics
Matches: 894, Mismatches: 13, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
45 4 0.00
46 890 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:11122094 original size:3 final size:3
Alignment explanation
Indices: 11122086--11122111 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11122076 ATTTTAAGAG
11122086 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11122112 AACAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11128607 original size:41 final size:40
Alignment explanation
Indices: 11128546--11128632 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
11128536 TATAATCACT
* *
11128546 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAATATATTTTTAATTTGTGTATTATTTTAAGAATTG
* * * * *
11128586 TTTTAATATAGTTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAATATA-TTTTTAATTTGTGTATTATTTTAAGAATTG
11128627 TTTTAA
1 TTTTAA
11128633 ATGTATTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.24, C:0.01, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTAATATATTTTTAATTTGTGTATTATTTTAAGAATTG
Found at i:11131223 original size:46 final size:44
Alignment explanation
Indices: 11131170--11131293 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
11131160 GTGATAAGTG
*
11131170 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAGCCT-A
* *
11131216 GCTACACTTATCTGATTAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAGCCTA
*
11131261 GCTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
11131294 AGGTCATATG
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
43 11 0.15
45 20 0.28
46 39 0.55
47 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAGCCTA
Found at i:11135310 original size:9 final size:9
Alignment explanation
Indices: 11135296--11135321 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11135286 TTGTGTTGAA
11135296 GTTATTTAG
1 GTTATTTAG
11135305 GTTATTTAG
1 GTTATTTAG
11135314 GTTATTTA
1 GTTATTTA
11135322 ATACTTGTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
GTTATTTAG
Found at i:11136647 original size:16 final size:16
Alignment explanation
Indices: 11136623--11136656 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11136613 ATTACATACC
11136623 ATTGAATCAGTCAGTT
1 ATTGAATCAGTCAGTT
* *
11136639 ATTGCATCATTCAGTT
1 ATTGAATCAGTCAGTT
11136655 AT
1 AT
11136657 CTTTCTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (16 bp):
ATTGAATCAGTCAGTT
Found at i:11140859 original size:18 final size:19
Alignment explanation
Indices: 11140819--11140859 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
11140809 TGTTTACCTT
*
11140819 TATTTTTTTAAAAAATTAA
1 TATTATTTTAAAAAATTAA
*
11140838 -ATTATTTTAAAAGA-TAA
1 TATTATTTTAAAAAATTAA
11140855 TATTA
1 TATTA
11140860 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTATTTTAAAAAATTAA
Found at i:11143797 original size:23 final size:21
Alignment explanation
Indices: 11143740--11143798 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
11143730 AAATATTAGT
*
11143740 TTATATAAAATATTTTAATTT
1 TTATATAAAATATTTTAATTA
* *
11143761 TTCATGTAAGAATATTTTTATTAA
1 TT-ATATAA-AATATTTTAATT-A
11143785 TTATATAATAATAT
1 TTATATAA-AATAT
11143799 ATATCTGACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 21 0.70
24 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
TTATATAAAATATTTTAATTA
Found at i:11147008 original size:17 final size:18
Alignment explanation
Indices: 11146975--11147011 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11146965 AAAGATAAGA
11146975 TTAAATACAAATAAAAAT
1 TTAAATACAAATAAAAAT
11146993 TTAAA-ACAATATAAAAAT
1 TTAAATACAA-ATAAAAAT
11147011 T
1 T
11147012 ATACTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAATACAAATAAAAAT
Found at i:11147244 original size:29 final size:29
Alignment explanation
Indices: 11147185--11147254 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
11147175 ACATAGTGAT
*
11147185 AAATAA-ATAATAATATAATATATAATGA
1 AAATAATATAATAATAAAATATATAATGA
* *
11147213 AAATGATATAATGAATAAAATATAT-ATTA
1 AAATAATATAAT-AATAAAATATATAATGA
11147242 AAATAATATAATA
1 AAATAATATAATA
11147255 TATATATGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.17
29 19 0.53
30 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AAATAATATAATAATAAAATATATAATGA
Found at i:11167581 original size:13 final size:13
Alignment explanation
Indices: 11167565--11167597 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11167555 TTTAATTAAA
*
11167565 TTAGTTAATTAGT
1 TTAGATAATTAGT
11167578 TTAGATAATTAGT
1 TTAGATAATTAGT
11167591 TTA-ATAA
1 TTAGATAA
11167598 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11172922 original size:15 final size:15
Alignment explanation
Indices: 11172902--11172932 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11172892 CTGTATCAGT
11172902 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
11172917 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
11172932 A
1 A
11172933 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:11174183 original size:6 final size:6
Alignment explanation
Indices: 11174172--11174251 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
11174162 AATCCTCCTA
* * * *
11174172 TTTTAT TTTTA- -TTTAT TCTTAT TCTTAT TCTTAT TTTATTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* * * *
11174220 TCTTAT TTTTCT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
11174252 CAATTTTCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
4 4 0.07
6 48 0.81
7 4 0.07
8 3 0.05
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:11174231 original size:9 final size:10
Alignment explanation
Indices: 11174173--11174245 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
11174163 ATCCTCCTAT
*
11174173 TTTATTTTTA
1 TTTATTCTTA
11174183 TTTATTCTTA
1 TTTATTCTTA
11174193 TTCTTATTCTTA
1 -T-TTATTCTTA
11174205 TTT-TAT-TTA
1 TTTAT-TCTTA
11174214 TTTTATTCTTA
1 -TTTATTCTTA
11174225 TTT-TTCTT-
1 TTTATTCTTA
* *
11174233 TTGATTTTTA
1 TTTATTCTTA
11174243 TTT
1 TTT
11174246 TCATTTCAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 21 0.41
11 6 0.12
12 9 0.18
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.75
Consensus pattern (10 bp):
TTTATTCTTA
Found at i:11174244 original size:38 final size:43
Alignment explanation
Indices: 11174170--11174251 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
11174160 TGAATCCTCC
* *
11174170 TATTTTATTTTTATTTATTCTTATTCTTATTCTTATTTT-ATT
1 TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
*
11174212 TATTTTATTCTTATTT-TTC-T-TT-TGATTTTTATTTTCATT
1 TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
11174251 T
1 T
11174252 CAATTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 11 0.31
39 6 0.17
40 1 0.03
41 3 0.08
42 15 0.42
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.74
Consensus pattern (43 bp):
TATTTTATTCTTATTTATTCTTATTCTGATTCTTATTTTCATT
Found at i:11176041 original size:21 final size:22
Alignment explanation
Indices: 11176001--11176041 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11175991 TACTTAGCAT
11176001 ATTTATGGATGTTTACTGCTAG
1 ATTTATGGATGTTTACTGCTAG
* *
11176023 ATTTGTGGAT-TTTAGTGCT
1 ATTTATGGATGTTTACTGCT
11176042 TTTAATCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.20, C:0.07, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTTATGGATGTTTACTGCTAG
Found at i:11177167 original size:13 final size:13
Alignment explanation
Indices: 11177151--11177183 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11177141 TTTAATTAAA
*
11177151 TTAGTTAATTAGT
1 TTAGATAATTAGT
11177164 TTAGATAATTAGT
1 TTAGATAATTAGT
11177177 TTA-ATAA
1 TTAGATAA
11177184 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11183727 original size:42 final size:42
Alignment explanation
Indices: 11183668--11183751 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
11183658 TTCTCTTTTT
11183668 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
1 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
11183710 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
1 TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
11183752 GAGCACTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (42 bp):
TTTTTCTTCTTTTGTTTATATTCGGCTATGGTGATATTATAA
Found at i:11183924 original size:14 final size:14
Alignment explanation
Indices: 11183905--11183955 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
11183895 CATAACTTAT
11183905 ATTATATACATATA
1 ATTATATACATATA
* *
11183919 ATTATATACATTTT
1 ATTATATACATATA
11183933 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
11183949 TATTATA
1 -ATTATA
11183956 CATATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 3 0.10
16 7 0.23
17 4 0.13
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:11183952 original size:17 final size:17
Alignment explanation
Indices: 11183904--11183954 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
11183894 TCATAACTTA
11183904 TATTATATACATATA-AT
1 TATTATA-ACATATATAT
*
11183921 TA-TAT-ACAT-TTTAT
1 TATTATAACATATATAT
11183935 TATTATAACATATATAT
1 TATTATAACATATATAT
11183952 TAT
1 TAT
11183955 ACATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.04
14 8 0.29
15 3 0.11
16 7 0.25
17 9 0.32
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTATAACATATATAT
Found at i:11185899 original size:26 final size:26
Alignment explanation
Indices: 11185870--11185977 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11185860 TGGTACAAAT
11185870 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11185896 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11185922 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11185948 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11185974 TGAT
1 TGAT
11185978 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11200917 original size:281 final size:277
Alignment explanation
Indices: 11200403--11200960 Score: 985
Period size: 281 Copynumber: 2.0 Consensus size: 277
11200393 CCCTTAGGAG
* * *
11200403 TTTTGGGTTTTCTTATGTTTTGTTATCTTTATTCTTTTGAGATGTTTTCTTCCATAAGTATGAAC
1 TTTTGGGTTTTCTTATGTTTTGTTATCATTATTCTTCTGAGATGTTTCCTT-CATAAGTATGAAC
*
11200468 TAAAACCCTTAAATACCTAGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATCTGAATTGT
65 TAAAACCCCTAAATACCTAGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATCTGAATTGT
11200533 ATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTTTTTTTAATATTTCGGGATA
130 ATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTTTTTTTAATATTTCGGGATA
11200598 TTGATTCAAGTTAACGCTCTTATTCAGAGTAGGAATAGACCCTGTATAAGAGTAAATTTGTCGTA
195 TTGATTCAAGTTAACGCTCTTATTCAGAGTAGGAATAGACCCTGTATAAGAGTAAATTTGTCGTA
11200663 ATTAAGCGGAGTTGATTA
260 ATTAAGCGGAGTTGATTA
* *
11200681 TTTTGGGTTTTTCTTTATGTTTTG-TATTCATTATTCTTCTGAGATGTTTACCTT-TTTAGTTAT
1 TTTTGGG-TTTTC-TTATGTTTTGTTA-TCATTATTCTTCTGAGATGTTT-CCTTCATAAG-TAT
11200744 GAACTAAAACCCCTAAATACCTAAGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATCTGA
61 GAACTAAAACCCCTAAATACCT-AGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATCTGA
11200809 ATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTTTTTTTAATATTTCG
125 ATTGTATGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTTTTTTTAATATTTCG
11200874 GGATATTGATTCAAGTTAACGCTCTTATTCAGAGTAGGAATAGACCCTGTATAAGAGTAAATTTG
190 GGATATTGATTCAAGTTAACGCTCTTATTCAGAGTAGGAATAGACCCTGTATAAGAGTAAATTTG
11200939 TCGTAATTAAGCGGAGTTGATT
255 TCGTAATTAAGCGGAGTTGATT
11200961 GCGCGCCTAG
Statistics
Matches: 268, Mismatches: 6, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
278 7 0.03
279 10 0.04
280 54 0.20
281 197 0.74
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (277 bp):
TTTTGGGTTTTCTTATGTTTTGTTATCATTATTCTTCTGAGATGTTTCCTTCATAAGTATGAACT
AAAACCCCTAAATACCTAGGGGAATGAAACCTAAGATAGATCTTGTTATTATTATCTGAATTGTA
TGATAAATATTTGACTTGTTCTTAATTATGTGTTCTTAATTCTTTTTTTTAATATTTCGGGATAT
TGATTCAAGTTAACGCTCTTATTCAGAGTAGGAATAGACCCTGTATAAGAGTAAATTTGTCGTAA
TTAAGCGGAGTTGATTA
Found at i:11203990 original size:60 final size:62
Alignment explanation
Indices: 11203919--11204062 Score: 199
Period size: 60 Copynumber: 2.4 Consensus size: 62
11203909 ATATCTCAAC
11203919 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCT-AGGCCCAG-TATACTCTGATA
1 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTA-ACTCTGATA
* *
11203980 TTGTAA-AGGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGAT-
1 TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATA
*
11204040 TTCTGAATAGGGCTTA-GGCCCAG
1 TTGT-AATAGGGC-TACGGCCCAG
11204063 TAAAGCTTGA
Statistics
Matches: 75, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
60 35 0.47
61 24 0.32
62 14 0.19
63 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (62 bp):
TTGTAATAGGGCTACGGCCCAGATTAATACTGATATGGGCTAAGGCCCAGTTAACTCTGATA
Found at i:11204018 original size:28 final size:27
Alignment explanation
Indices: 11203927--11204032 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 27
11203917 ACTTGTAATA
*
11203927 GGGCTACGGCCCAGATTAATACTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
* *
11203955 GGGCTAGGCCCAGTATACTCTGATATTG-TAAA
1 GGGCTAGGCCCAG---A-T-TAATATTGAT-AT
11203987 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTAATATTGATAT
11204015 GGGCTAAGGCCCAG-TTAA
1 GGGCT-AGGCCCAGATTAA
11204033 CTCTGATTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
27 11 0.17
28 26 0.41
29 3 0.05
30 2 0.03
31 2 0.03
32 13 0.20
33 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTAATATTGATAT
Found at i:11207005 original size:26 final size:26
Alignment explanation
Indices: 11206969--11207028 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11206959 GAAGCTCTGG
*
11206969 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * * *
11206995 GGAGCCTTTAATCGGGAAGTTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
11207021 AGAGCCAT
1 AGAGCCAT
11207029 ATATCGAGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:11207684 original size:53 final size:53
Alignment explanation
Indices: 11207620--11207725 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
11207610 ATTAAATTTA
11207620 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
1 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
11207673 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
1 ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
11207726 TTTCATGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (53 bp):
ATCCTTATTCCAAGTAACATTTGCAGCTCATGTAATTCATAAAATTCAAAATT
Found at i:11208949 original size:21 final size:21
Alignment explanation
Indices: 11208914--11208968 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
11208904 AAATTAGTAT
*
11208914 AAAAAATTTTG-GGGGAAT-A
1 AAAAAATTATGAGGGGAATCA
* *
11208933 GCAAAAATTATGAGGGGTATCA
1 -AAAAAATTATGAGGGGAATCA
11208955 AAAAAATTATGAGG
1 AAAAAATTATGAGG
11208969 AAGTACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.31
21 19 0.66
22 1 0.03
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.24
Consensus pattern (21 bp):
AAAAAATTATGAGGGGAATCA
Found at i:11208982 original size:20 final size:21
Alignment explanation
Indices: 11208935--11208980 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11208925 GGGGAATAGC
*
11208935 AAAAATTATGAGGGGTATCAA
1 AAAAATTATGAGGAGTATCAA
11208956 AAAAATTATGAGGAAGTA-CAA
1 AAAAATTATGAGG-AGTATCAA
11208977 AAAA
1 AAAA
11208981 TTTCTAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.57, C:0.04, G:0.20, T:0.20
Consensus pattern (21 bp):
AAAAATTATGAGGAGTATCAA
Found at i:11211768 original size:29 final size:29
Alignment explanation
Indices: 11211726--11211782 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
11211716 TTTCTGGATT
11211726 ATGACCATTGGTGCCATCTCTACTCCAAA
1 ATGACCATTGGTGCCATCTCTACTCCAAA
11211755 ATGACCATTGGTGCCATCTCTACTCCAA
1 ATGACCATTGGTGCCATCTCTACTCCAA
11211783 CTTCATTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ATGACCATTGGTGCCATCTCTACTCCAAA
Found at i:11214059 original size:33 final size:32
Alignment explanation
Indices: 11214022--11214086 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
11214012 TACCCAAATG
* *
11214022 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGAAAAGGTTAGGTACACTTAGTGT
* * *
11214055 GTACACTTGGAAATGTTAGGTATACTTAGTGT
1 GTACACTTGAAAAGGTTAGGTACACTTAGTGT
11214087 CTACTATATG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTAGGTACACTTAGTGT
Found at i:11214132 original size:33 final size:33
Alignment explanation
Indices: 11214046--11214134 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
11214036 GGTTATGTAC
* **
11214046 ACTTTGTGTGTA-CACTTGGAAATGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* * * *
11214078 ACTTAGTGTCTACTA-TATGGAAAGGAAAGTTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
11214111 ACTTTGTGTGTACCACTTGGAAAG
1 ACTTTGTGTGTACCACTTGGAAAG
11214135 AAATGTACAC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
32 11 0.25
33 32 0.73
34 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.36
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:11218388 original size:3 final size:3
Alignment explanation
Indices: 11218382--11218428 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
11218372 TATGTAAATA
* *
11218382 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
11218428 A
1 A
11218429 TATATACAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:11218397 original size:18 final size:17
Alignment explanation
Indices: 11218377--11218427 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
11218367 AAAAATATGT
11218377 AAATAAATAATAATAGATA
1 AAAT-AATAATAAT-GATA
11218396 AAATAATAATAATGATA
1 AAATAATAATAATGATA
*
11218413 GTAATAATAAATAAT
1 -AAATAAT-AATAAT
11218428 ATATATACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.14
18 15 0.52
19 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATAATAATAATGATA
Found at i:11220270 original size:53 final size:53
Alignment explanation
Indices: 11220203--11220308 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
11220193 AATTCAGTCA
*
11220203 ACTTAAATAGTAGCGATTAAATTGTAAATTTTGCTATTTCGAAAATCATATGC
1 ACTTAAATAGTAGCGATTAAATTGTAAATTTTGCTATTTCGAAAACCATATGC
* *
11220256 ACTTAAATGGTAGCGGTTAAATTGTAAATTTTGCTATTTCGAAAACCATATGC
1 ACTTAAATAGTAGCGATTAAATTGTAAATTTTGCTATTTCGAAAACCATATGC
11220309 GTCGAAAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (53 bp):
ACTTAAATAGTAGCGATTAAATTGTAAATTTTGCTATTTCGAAAACCATATGC
Found at i:11221773 original size:27 final size:27
Alignment explanation
Indices: 11221743--11221796 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11221733 CATTCATGTC
11221743 CCATGTACCCTTCTAATGCTCATTTCT
1 CCATGTACCCTTCTAATGCTCATTTCT
11221770 CCATGTACCCTTCTAATGCTCATTTCT
1 CCATGTACCCTTCTAATGCTCATTTCT
11221797 TACTTACCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.33, G:0.07, T:0.41
Consensus pattern (27 bp):
CCATGTACCCTTCTAATGCTCATTTCT
Found at i:11223444 original size:7 final size:7
Alignment explanation
Indices: 11223432--11223460 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11223422 AGATTGACAA
11223432 AGAACAG
1 AGAACAG
11223439 AGAACAG
1 AGAACAG
11223446 AGAACAG
1 AGAACAG
11223453 AGAACAG
1 AGAACAG
11223460 A
1 A
11223461 AAGAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAACAG
Found at i:11226111 original size:46 final size:46
Alignment explanation
Indices: 11226061--11226236 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
11226051 TGGTTGAGCA
11226061 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11226107 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11226152 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
11226200 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11226237 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11226217 original size:93 final size:93
Alignment explanation
Indices: 11226058--11226228 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
11226048 GGATGGTTGA
* *
11226058 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11226123 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11226151 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11226216 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
11226229 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11228443 original size:17 final size:18
Alignment explanation
Indices: 11228421--11228455 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11228411 GATATGATAC
*
11228421 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
11228438 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11228456 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11228744 original size:22 final size:21
Alignment explanation
Indices: 11228709--11228784 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
11228699 AAAAGGTATC
* *
11228709 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
11228730 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11228753 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11228772 TGC-AATCATATCT
1 TACAAATCATATCT
11228785 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11228801 original size:35 final size:37
Alignment explanation
Indices: 11228738--11228835 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
11228728 ATTACAAAAT
11228738 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
11228774 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
11228809 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
11228836 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:11228843 original size:17 final size:19
Alignment explanation
Indices: 11228745--11228835 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
11228735 AATCATATCT
11228745 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11228764 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11228782 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11228799 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11228818 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11228836 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11228991 original size:21 final size:20
Alignment explanation
Indices: 11228954--11228992 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11228944 TTGGACTTCG
**
11228954 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
11228974 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
11228993 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:11229303 original size:44 final size:45
Alignment explanation
Indices: 11229185--11229502 Score: 344
Period size: 45 Copynumber: 7.1 Consensus size: 45
11229175 GGAAGGTGAT
* *
11229185 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
* * *
11229230 ATCTGTTATCTTCGATCTGCT-CCTCGTCTAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCT-GTCTAATACAGAGATGCCAA
*
11229275 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
* * *
11229319 ATCTGTTATCTTCGATCTGCT-CCTCGTCTAATATAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCT-GTCTAATACAGAGATGCCAA
*
11229364 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
* ** * * * *
11229408 ATCTG-TCATCTTAGATCTGCTTCGATGT-AAACACATGA-AGGTCAA
1 ATCTGCT-ATCTTCGATCTGC-TCCCTGTCTAATACA-GAGATGCCAA
* **
11229453 ATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
11229500 ATC
1 ATC
11229503 ATCTTGGATC
Statistics
Matches: 224, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.00
44 76 0.34
45 111 0.50
46 13 0.06
47 23 0.10
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
Found at i:11229307 original size:89 final size:89
Alignment explanation
Indices: 11229185--11229428 Score: 434
Period size: 89 Copynumber: 2.7 Consensus size: 89
11229175 GGAAGGTGAT
** *
11229185 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
11229250 TCCTCGTCTAATATAGAGACGCCAA
65 TCCTCGTCTAATATAGAGACGCCAA
11229275 ATCTGCTTCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
1 ATCTGCTTCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
11229340 CCTCGTCTAATATAGAGACGCCAA
66 CCTCGTCTAATATAGAGACGCCAA
* *
11229364 ATCTGCTTCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATCTGCT
1 ATCTGCTTCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
11229429 TCGATGTAAA
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 142 0.95
90 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (89 bp):
ATCTGCTTCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCT
CCTCGTCTAATATAGAGACGCCAA
Found at i:11229454 original size:89 final size:89
Alignment explanation
Indices: 11229185--11229502 Score: 419
Period size: 89 Copynumber: 3.5 Consensus size: 89
11229175 GGAAGGTGAT
**
11229185 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
11229250 TCCTCGTCTAATATAGAGACGCCAA
66 T-CTCGTCTAATATAGAGACGCCAA
*
11229275 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
11229339 TCCTCGTCTAATATAGAGACGCCAA
66 T-CTCGTCTAATATAGAGACGCCAA
* * *
11229364 ATCTGCT-TCTTCAATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTCATCTTAGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
* * * * *
11229428 T-TCGATGTAA-ACACATGAAGGTCAA
66 TCTCG-TCTAATATAGA-G-ACGCCAA
* * *
11229453 ATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATC
1 ATCTGCTA--TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
11229503 ATCTTGGATC
Statistics
Matches: 208, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
87 6 0.03
88 5 0.02
89 154 0.74
90 7 0.03
92 36 0.17
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (89 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATCTGC
TCTCGTCTAATATAGAGACGCCAA
Found at i:11229571 original size:78 final size:78
Alignment explanation
Indices: 11229442--11229736 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
11229432 ATGTAAACAC
* * *
11229442 ATGAAGGTCAAATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11229507 TGGATCTGCTTTA
66 TGGATCTGCTTCA
* ** *
11229520 ATGAAGGTCCA-ATCTGTTATGTCTTTAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATT
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
11229584 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
11229598 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
11229663 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
11229676 ATGAAGGTTAGATCTGCTATGTCTTCGATCTGTTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
11229737 TGTTTCTTTG
Statistics
Matches: 194, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11238929 original size:18 final size:18
Alignment explanation
Indices: 11238908--11238943 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11238898 GCTTCTCAAT
11238908 CCTCTTTTCAATCTCTGA
1 CCTCTTTTCAATCTCTGA
11238926 CCTCTTTTCAATCTCTGA
1 CCTCTTTTCAATCTCTGA
11238944 ATTCTTTCTC
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:0.17, C:0.33, G:0.06, T:0.44
Consensus pattern (18 bp):
CCTCTTTTCAATCTCTGA
Found at i:11238949 original size:18 final size:18
Alignment explanation
Indices: 11238909--11238950 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11238899 CTTCTCAATC
*
11238909 CTCTTTTCAATCTCTGAC
1 CTCTTTTCAATCTCTGAA
11238927 CTCTTTTCAATCTCTGAA
1 CTCTTTTCAATCTCTGAA
*
11238945 TTCTTT
1 CTCTTT
11238951 CTCTCGAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.29, G:0.05, T:0.50
Consensus pattern (18 bp):
CTCTTTTCAATCTCTGAA
Found at i:11241638 original size:128 final size:128
Alignment explanation
Indices: 11241406--11241660 Score: 449
Period size: 128 Copynumber: 2.0 Consensus size: 128
11241396 AAAACTTTTG
* *
11241406 GATAAAATATGACAATTAAATGAAATATATTTTTTTAAAATAATGATTTGAGTAAAATTTAAAAA
1 GATAAAATATGACAATTAAATAAAATATATATTTTTAAAATAATGATTTGAGTAAAATTTAAAAA
11241471 ATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAATTTGATATGATACT
66 ATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAATTTGATATGATACT
* *
11241534 GATAAAATATGTCAATTAAATAAAATATATATTTTTAAAATAATGATTTGTGTAAAATTTAAAAA
1 GATAAAATATGACAATTAAATAAAATATATATTTTTAAAATAATGATTTGAGTAAAATTTAAAAA
* *
11241599 ATAATTTACTAAGAGTAATACT-AAAAAAATTATTAAAAAATGAAAGAGTTTGATGTGATACT
66 ATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAATTTGATATGATACT
11241661 AAAAATTATT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
127 38 0.31
128 83 0.69
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (128 bp):
GATAAAATATGACAATTAAATAAAATATATATTTTTAAAATAATGATTTGAGTAAAATTTAAAAA
ATAATTTACTAAGAGTAATACTAAAAAAAATTATTAAAAAATGAAAGAATTTGATATGATACT
Found at i:11241691 original size:17 final size:18
Alignment explanation
Indices: 11241660--11241694 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11241650 GATGTGATAC
*
11241660 TAAAAATTATTAAAAAAT
1 TAAAAATTATAAAAAAAT
11241678 TAAAAA-TATAAAAAAAT
1 TAAAAATTATAAAAAAAT
11241695 CCGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAATTATAAAAAAAT
Found at i:11241911 original size:23 final size:22
Alignment explanation
Indices: 11241867--11241924 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
11241857 AAAAGGTATC
* *
11241867 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
11241888 TACAAAATCATATCTTCTATGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11241911 TGCATATCATATCT
1 TACAAATCATATCT
11241925 AAGATTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.60
23 9 0.30
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11241930 original size:19 final size:19
Alignment explanation
Indices: 11241903--11241975 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11241893 AATCATATCT
*
11241903 TCTATGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11241922 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
11241939 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
11241958 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11241976 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11241982 original size:36 final size:36
Alignment explanation
Indices: 11241908--11241983 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
11241898 TATCTTCTAT
*
11241908 GATTGCATATCATATCTAAGATTGTATCATATCTAA
1 GATTGCATATCATATCTAAGATTGTATCATATCGAA
*
11241944 GATTGTATATCATATCTAAGATTGCATATCAT-T-GAA
1 GATTGCATATCATATCTAAGATTG--TATCATATCGAA
11241980 GATT
1 GATT
11241984 ATATTTCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
36 29 0.81
37 1 0.03
38 6 0.17
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (36 bp):
GATTGCATATCATATCTAAGATTGTATCATATCGAA
Found at i:11241983 original size:17 final size:19
Alignment explanation
Indices: 11241908--11241983 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
11241898 TATCTTCTAT
*
11241908 GATTGCATATCATATCTAA
1 GATTGCATATCATATCGAA
*
11241927 GATTG--TATCATATCTAA
1 GATTGCATATCATATCGAA
* *
11241944 GATTGTATATCATATCTAA
1 GATTGCATATCATATCGAA
11241963 GATTGCATATCAT-T-GAA
1 GATTGCATATCATATCGAA
11241980 GATT
1 GATT
11241984 ATATTTCCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 23 0.43
18 1 0.02
19 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (19 bp):
GATTGCATATCATATCGAA
Found at i:11242132 original size:21 final size:20
Alignment explanation
Indices: 11242094--11242133 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11242084 TTGGACTTCG
* *
11242094 TTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTGGGCTTATTA
11242114 TTTTTGTTTTGGGACTTATT
1 TTTTTGTTTTGGG-CTTATT
11242134 TCTGGGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (20 bp):
TTTTTGTTTTGGGCTTATTA
Found at i:11242328 original size:17 final size:18
Alignment explanation
Indices: 11242295--11242329 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11242285 TTGAATTCTA
11242295 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
11242313 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
11242330 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:11245618 original size:12 final size:11
Alignment explanation
Indices: 11245594--11245623 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11245584 CATTTTGTTC
11245594 TTTAGTTTCTTT
1 TTTA-TTTCTTT
11245606 TTTATTTCTTT
1 TTTATTTCTTT
11245617 TTTATTT
1 TTTATTT
11245624 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:11246533 original size:62 final size:61
Alignment explanation
Indices: 11246436--11246570 Score: 252
Period size: 62 Copynumber: 2.2 Consensus size: 61
11246426 AGAAATAAGA
11246436 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTG-TTTTTTTTTATGT
11246498 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
1 GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
*
11246559 GCATATTTTTTT
1 GCATATTATTTT
11246571 TTCTTTTTTC
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 24 0.33
62 48 0.67
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (61 bp):
GCATATTATTTTAGCATATAATCTTGTATTGTTTTGATGATTTCGTTGTTTTTTTTTATGT
Found at i:11248661 original size:24 final size:21
Alignment explanation
Indices: 11248634--11248706 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 21
11248624 TTTCTTTCCT
11248634 TTGCATTCATCCCATGCATTTGCA
1 TTGCATTCAT--CATGCA-TTGCA
11248658 TTGCATTGCATCATGTGCATTGCA
1 TTGCATT-CATCA--TGCATTGCA
11248682 TTGCA-TCAT-ATGCATTGCA
1 TTGCATTCATCATGCATTGCA
11248701 TTGCAT
1 TTGCAT
11248707 CATGTGCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
19 14 0.31
21 1 0.02
22 3 0.07
23 3 0.07
24 17 0.38
25 7 0.16
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TTGCATTCATCATGCATTGCA
Found at i:11248663 original size:5 final size:5
Alignment explanation
Indices: 11248648--11248706 Score: 63
Period size: 5 Copynumber: 12.0 Consensus size: 5
11248638 ATTCATCCCA
11248648 TGCATT TGCAT TGCAT TGCA- T-CAT GTGCAT TGCAT TGCA- T-CAT ATGCAT
1 TGCA-T TGCAT TGCAT TGCAT TGCAT -TGCAT TGCAT TGCAT TGCAT -TGCAT
11248697 TGCAT TGCAT
1 TGCAT TGCAT
11248707 CATGTGCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
3 4 0.09
4 2 0.04
5 31 0.66
6 10 0.21
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (5 bp):
TGCAT
Found at i:11248676 original size:19 final size:19
Alignment explanation
Indices: 11248654--11248716 Score: 117
Period size: 19 Copynumber: 3.3 Consensus size: 19
11248644 CCCATGCATT
11248654 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
11248673 TGCATTGCATTGCATCATA
1 TGCATTGCATTGCATCATG
11248692 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
11248711 TGCATT
1 TGCATT
11248717 AGCTTTTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:11252817 original size:138 final size:138
Alignment explanation
Indices: 11252638--11254092 Score: 2356
Period size: 138 Copynumber: 10.6 Consensus size: 138
11252628 CGGTGAATTC
* * * *
11252638 ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11252703 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11252768 TCGAAGTT
131 TCGAAGTT
* * * * *
11252776 ACAAGTCATATCTCCCTGAAGTTGCAGTAGAGCATATTGAAGATAGCAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
* *
11252841 GTTGCAGTGGAACATATTGAAGCTAAATTACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
*
11252906 TCAAAGTT
131 TCGAAGTT
* * * * *
11252914 ACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11252979 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253044 TCGAAGTT
131 TCGAAGTT
* *
11253052 ACCAGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11253117 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253182 TCGAAGTT
131 TCGAAGTT
* *
11253190 ACCAGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11253255 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253320 TCGAAGTT
131 TCGAAGTT
* *
11253328 ACCAGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11253393 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253458 TCGAAGTT
131 TCGAAGTT
* *
11253466 ACCAGTCTTATCTCCCTGAAGTTGCAGTTGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
* * *
11253531 GTTGCAGTGGAACAGATTGAAGCTAAGTTACA-AGTCTTATCTCTCTGAAATTGCAATAGAGCAG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGA-TCTTATCTCTCTGAAGTTGCAGTAGAGCAG
11253595 GTCGAAGTT
130 GTCGAAGTT
* * * *
11253604 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
* *
11253669 GTTGCAGTGGAATAGATTTAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253734 TCGAAGTT
131 TCGAAGTT
* * *
11253742 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGTAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
* * * *
11253807 GTTACAGTAGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11253872 TCGAAGTT
131 TCGAAGTT
* * * *
11253880 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCATATTTCCCTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
*
11253945 GTTGCAGTGGAACAAATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11254010 TCGAAGTT
131 TCGAAGTT
* * * * * * * *
11254018 ACAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTA-TAAGTCTTATCTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
11254082 GTTGCAGTGGA
66 GTTGCAGTGGA
11254093 GTAGACTGAA
Statistics
Matches: 1241, Mismatches: 74, Indels: 5
0.94 0.06 0.00
Matches are distributed among these distances:
137 26 0.02
138 1214 0.98
139 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (138 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGAAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTT
Found at i:11254363 original size:138 final size:138
Alignment explanation
Indices: 11254023--11254355 Score: 567
Period size: 138 Copynumber: 2.4 Consensus size: 138
11254013 AAGTTACAAG
* * *
11254023 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTATAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTGAAGTTACA
* *
11254088 GTGGAGTAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTGAAGCTAA
66 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAA
11254153 ATTACAGA
131 ATTACAGA
* *
11254161 TCTTATCTCTCTCAAGTTACAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTGAAGTTACA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTGAAGTTACA
**
11254226 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGATTCTAA
66 GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAA
11254291 ATTACAGA
131 ATTACAGA
* *
11254299 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCTTG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTG
11254356 TGCTTACAAG
Statistics
Matches: 182, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 182 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (138 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTAAAAGTCTTATCTCCTTGAAGTTACA
GTGGAGTAAACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAA
ATTACAGA
Found at i:11254504 original size:47 final size:46
Alignment explanation
Indices: 11254367--11254514 Score: 116
Period size: 47 Copynumber: 3.3 Consensus size: 46
11254357 GCTTACAAGG
11254367 AGCAGATCAGAGACATAGCTGATTTGGCTTTCACGTGTTTAC-TTCGA
1 AGCAGATCA-AGACATAGCTGATTTGGCTTTCACGTGTTTACGTT-GA
* * * * *
11254414 AGCAGATC----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCG-GGA
1 AGCAGATCAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
11254455 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATC-AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
*
11254502 AGCAAATCCAAGA
1 AGCAGAT-CAAGA
11254515 TGATTTGGCG
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 21 0.28
42 3 0.04
46 4 0.05
47 31 0.41
48 6 0.08
49 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (46 bp):
AGCAGATCAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:11254516 original size:88 final size:87
Alignment explanation
Indices: 11254366--11254554 Score: 285
Period size: 88 Copynumber: 2.2 Consensus size: 87
11254356 TGCTTACAAG
*
11254366 GAGCAGATC-AGAGACATAGCTGATTTGGCTTTCACGTGTTTACTTCGAAGCAGATCCAAGATGA
1 GAGCAGATCGA-AGACATAGCTGATTTGGCTTTCACGTGTTTACTTCGAAGCAAATCCAAGATGA
*
11254430 TTTGGCATCTCTGTATCAGGCGG-
65 TTTGGCATCTCTGTAGC-GGCGGA
11254453 GAAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTT-GAAGCAAATCCAAGATG
1 G-AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTAC-TTCGAAGCAAATCCAAGATG
* *
11254517 ATTTGGCGTCTTTGTAGCGGCGGA
64 ATTTGGCATCTCTGTAGCGGCGGA
11254541 GAGCAGATCGAAGA
1 GAGCAGATCGAAGA
11254555 TAACAGATTT
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
87 19 0.20
88 72 0.77
89 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACTTCGAAGCAAATCCAAGATGAT
TTGGCATCTCTGTAGCGGCGGA
Found at i:11254707 original size:172 final size:172
Alignment explanation
Indices: 11254501--11254836 Score: 530
Period size: 172 Copynumber: 2.0 Consensus size: 172
11254491 GTTTACGTTG
* * *
11254501 AAGCAAATCCAAGATGATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTG
1 AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACAGATTTG
*
11254566 GCATCTCTGTAGCAGCT-GAGAGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
66 GCATCTCTGTAGC-GCTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* *
11254630 AGTAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGA
130 AGCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGA
* * * *
11254673 AAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAAATAGCAGATTTG
1 AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACAGATTTG
* *
11254738 GCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
66 GCATCTCTGTAGCGCTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
* *
11254803 GCAAATCGAAGATAACGGATTTGGCGTTTCTGTA
131 GCAAATCGAAGATAACAGATTTGGCGTCTCTGTA
11254837 TTGTCAAGAG
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
171 2 0.01
172 147 0.99
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.24
Consensus pattern (172 bp):
AAGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAACAGATTTG
GCATCTCTGTAGCGCTGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
GCAAATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGA
Found at i:11254911 original size:44 final size:44
Alignment explanation
Indices: 11254516--11254881 Score: 479
Period size: 44 Copynumber: 8.4 Consensus size: 44
11254506 AATCCAAGAT
*
11254516 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
11254560 GATTTGGCATCTCTGTAGCAGCTGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
11254604 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
11254648 GATTTGGCGTCTCTGTAGCGGCAGAAAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
11254688 GATTTGGCATCTCTGTAGCGGCGGAGAGTAGATCGAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
11254732 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
11254776 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAAATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** * * * ** *
11254820 GATTTGGCGTTTCTGTATTGTCAAGAGAACAGATTAAAGATGACA
1 GATTTGGCGTCTCTGTAGCGGC-GGAGAGCAGATCGAAGATAACA
11254865 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
11254882 TTTGCAGAGA
Statistics
Matches: 281, Mismatches: 36, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
40 35 0.12
44 215 0.77
45 31 0.11
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:11258797 original size:30 final size:30
Alignment explanation
Indices: 11258761--11258863 Score: 91
Period size: 30 Copynumber: 3.3 Consensus size: 30
11258751 AAACATGTAA
11258761 TATAAAATATTATGAGGGAGTACCAAAATT
1 TATAAAATATTATGAGGGAGTACCAAAATT
* *** * * *
11258791 TATAAAATAGTAT-AAAAATTTTCGAAACATGT
1 TATAAAATATTATGAGGGA-GTACCAAA-AT-T
11258823 AATATAAAATATTATGAGGGAGTACCAAAATT
1 --TATAAAATATTATGAGGGAGTACCAAAATT
11258855 TATAAAATA
1 TATAAAATA
11258864 GTATAAAATT
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
29 2 0.04
30 26 0.49
31 2 0.04
32 2 0.04
33 2 0.04
34 17 0.32
35 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (30 bp):
TATAAAATATTATGAGGGAGTACCAAAATT
Found at i:11258818 original size:64 final size:63
Alignment explanation
Indices: 11258746--11258875 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 63
11258736 CAAAACATAA
11258746 TTTCGAAACATGTAATATAAAATATTATGAGGGAGTACCAAAATTTATAAAATAGTATAAAAAT
1 TTTCGAAACATGTAATATAAAATATTATGAGGGAGTACCAAAATTTATAAAATAGTAT-AAAAT
11258810 TTTCGAAACATGTAATATAAAATATTATGAGGGAGTACCAAAATTTATAAAATAGTATAAAAT
1 TTTCGAAACATGTAATATAAAATATTATGAGGGAGTACCAAAATTTATAAAATAGTATAAAAT
11258873 TTT
1 TTT
11258876 GGGGGGGAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
63 8 0.12
64 58 0.88
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (63 bp):
TTTCGAAACATGTAATATAAAATATTATGAGGGAGTACCAAAATTTATAAAATAGTATAAAAT
Found at i:11260998 original size:32 final size:33
Alignment explanation
Indices: 11260949--11261020 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
11260939 ATATATATAT
*
11260949 ATAAA-TTTAGTGCTGTACTCTTGAGAAAGAAG
1 ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
*
11260981 ATAAATTTTA-TGTTGTACTCCTGAGAAAGAAG
1 ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
11261013 -TCAAATTT
1 AT-AAATTT
11261021 GTTCGTCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 1 0.03
32 31 0.86
33 4 0.11
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (33 bp):
ATAAATTTTAGTGCTGTACTCCTGAGAAAGAAG
Found at i:11261423 original size:163 final size:164
Alignment explanation
Indices: 11261148--11261560 Score: 749
Period size: 163 Copynumber: 2.5 Consensus size: 164
11261138 GCTTTTTTAA
* *
11261148 TTTATTTTTGTATTTTTCAAAGATTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAG
1 TTTA-TTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAG
11261213 AATTTAAAAATTTGCAGATAGATAGATTATTAGGTAAATTAAAC-TTTTTTTTTAGTTTTATTAA
65 AATTTAAAAATTTGCAGATAGATAGATTATTAGGTAAATTAAACTTTTTTTTTTAGTTTTATTAA
11261277 CATTTATTGATGATTCTATCTTTTTCTTCAAATTT
130 CATTTATTGATGATTCTATCTTTTTCTTCAAATTT
11261312 TTTATTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAGA
1 TTTATTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAGA
11261377 ATTTAAAAATTTGCAGATAGATAGATTATTAGGTAAATTAAACTTTTTTTTTTAGTTTTATTAAC
66 ATTTAAAAATTTGCAGATAGATAGATTATTAGGTAAATTAAACTTTTTTTTTTAGTTTTATTAAC
11261442 ATTTATTGATGATTCTATCTTTTTCTTCAAATTT
131 ATTTATTGATGATTCTATCTTTTTCTTCAAATTT
* *
11261476 TTTATTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGATTC-AGGAAAAAAAGA
1 TTTATTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAGA
**
11261540 ATTTAAAAATTTATAGATAGA
66 ATTTAAAAATTTGCAGATAGA
11261561 CAGAAAGATA
Statistics
Matches: 242, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
163 132 0.55
164 110 0.45
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (164 bp):
TTTATTTTGTATTTTTGAAAGGTTTTTCTATCATTTTGATTGATGTTGGTTCAAGGAAAAAGAGA
ATTTAAAAATTTGCAGATAGATAGATTATTAGGTAAATTAAACTTTTTTTTTTAGTTTTATTAAC
ATTTATTGATGATTCTATCTTTTTCTTCAAATTT
Found at i:11262369 original size:17 final size:18
Alignment explanation
Indices: 11262336--11262370 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11262326 TTGAATTCTA
11262336 TTTGAAAAGAAACATCAT
1 TTTGAAAAGAAACATCAT
*
11262354 TTTGAATAGAAA-ATCAT
1 TTTGAAAAGAAACATCAT
11262371 GAAGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
TTTGAAAAGAAACATCAT
Found at i:11273132 original size:253 final size:253
Alignment explanation
Indices: 11272615--11273463 Score: 1586
Period size: 253 Copynumber: 3.4 Consensus size: 253
11272605 TTTGATAATT
* * * *
11272615 TAAATTTTATGTTTCACCAAAAAAAAACAAAGATTGACAGAGAACAGAAAGC--AAAA-AC--AA
1 TAAATTTTATGTTTCACC-CAACAAAAC--TGATTGACGGAGAACAGAAAGCAAAAAACACAAAA
11272675 AAACACAC-C-CACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGT
63 AAACACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGT
11272738 ACCACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACT
128 ACCACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACT
11272803 CATCATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
193 CATCATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
11272864 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
1 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
11272929 CACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGTACC
66 CACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGTACC
11272994 ACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACTCAT
131 ACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACTCAT
11273059 CATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
196 CATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
11273117 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
1 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
11273182 CACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGTACC
66 CACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGTACC
11273247 ACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACTCAT
131 ACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACTCAT
11273312 CATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
196 CATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
11273370 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
1 TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
11273435 CACACACACACTTTCATGAACTGTCCATT
66 CACACACACACTTTCATGAACTGTCCATT
11273464 TACCCTCAGC
Statistics
Matches: 589, Mismatches: 4, Indels: 10
0.98 0.01 0.02
Matches are distributed among these distances:
246 20 0.03
248 11 0.02
249 20 0.03
251 10 0.02
252 1 0.00
253 527 0.89
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (253 bp):
TAAATTTTATGTTTCACCCAACAAAACTGATTGACGGAGAACAGAAAGCAAAAAACACAAAAAAA
CACACACACACTTTCATGAACTGTCCATTAAATCCTTTTAACCAATCATATTTTAAAGAAGTACC
ACGTCAGCAAATACCCTCAACATTTCAACACTCTTTTCTAAAGGCTCCCTTCTTTTTGTACTCAT
CATTTATTTTTCCCTTGAAATATATATAAACTCAGTGTTGTACTCCTGAGGAAAAAAA
Found at i:11273578 original size:32 final size:31
Alignment explanation
Indices: 11273542--11273613 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
11273532 ATATATATAT
*
11273542 ATAAATTTAGTGCTGTACTCTTGAGAAAGAAG
1 ATAAATTTA-TGCTGTACTCCTGAGAAAGAAG
*
11273574 ATAAATTTTATGTTGTACTCCTGAGAAAGAAG
1 ATAAA-TTTATGCTGTACTCCTGAGAAAGAAG
11273606 -TCAAATTT
1 AT-AAATTT
11273614 GTTCGTCACT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 4 0.11
32 28 0.78
33 4 0.11
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (31 bp):
ATAAATTTATGCTGTACTCCTGAGAAAGAAG
Found at i:11286474 original size:3 final size:3
Alignment explanation
Indices: 11286466--11286494 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11286456 AAAAGGTAAA
11286466 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11286495 AAGCTTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11287295 original size:44 final size:44
Alignment explanation
Indices: 11287214--11287572 Score: 328
Period size: 44 Copynumber: 8.0 Consensus size: 44
11287204 TCATATTAAC
* * *
11287214 CCACTGCAACTTCAAAG-GTATAGGATTTGTCA-CTTCAATCTGCT
1 CCACTGCAACTTCAGAGAG-ATAAGATTCGT-AGCTTCAATCTGCT
* * *
11287258 CCACTGCAACTTCAGAGAGATAAGATTAGTAGATTCAATCTGTT
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
**
11287302 CCACTGCAACTTCA-AGGAGATAAGATTTATAGCTTCAATCTGCT
1 CCACTGCAACTTCAGA-GAGATAAGATTCGTAGCTTCAATCTGCT
* * * * * *
11287346 CTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAGCTTTAATATGTT
1 CCACTGCAACTTCAGAGAGATAAGATTC--G---T--AGCTTCAATCTGCT
* * *
11287397 CCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAGAGAGATAAGATTCG-TAGCTTCAATCTGCT
* * *
11287442 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
* * * * * *
11287486 CTACTACAACTTCAGAGAGATAAGATTCGATATCTACAATTTACT
1 CCACTGCAACTTCAGAGAGATAAGATTCG-TAGCTTCAATCTGCT
* * *
11287531 CCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
1 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTG
11287573 TTCTACCATA
Statistics
Matches: 260, Mismatches: 43, Indels: 24
0.80 0.13 0.07
Matches are distributed among these distances:
43 2 0.01
44 142 0.55
45 77 0.30
47 1 0.00
49 2 0.01
51 36 0.14
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGAGAGATAAGATTCGTAGCTTCAATCTGCT
Found at i:11287461 original size:140 final size:139
Alignment explanation
Indices: 11287257--11287514 Score: 399
Period size: 140 Copynumber: 1.8 Consensus size: 139
11287247 TTCAATCTGC
* *
11287257 TCCACTGCAACTTCAGAGAGATAAGATTAGTAGATTCAATCTGTTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTGCTCCACTGCAACTTCAAGGAGA
* * *
11287322 TAAGATTTATAGCTTCAATCTGCTCTACTGCAACTTCAGAGAAATAGGATTCGTGACTTGAAGCT
66 TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
11287387 TTAATATGT
131 TTAATATGT
* * ** *
11287396 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGAGAAATAAGATTAG-TAGATTCAATCTGCTCCACTGCAACTTCAAGGAG
* *
11287461 ATAAGATTTGTAGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCG
65 ATAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCG
11287515 ATATCTACAA
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
139 27 0.25
140 79 0.75
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (139 bp):
TCCACTGCAACTTCAGAGAAATAAGATTAGTAGATTCAATCTGCTCCACTGCAACTTCAAGGAGA
TAAGATTTATAGCTTCAATCTACTCTACTACAACTTCAGAGAAATAAGATTCGTGACTTGAAGCT
TTAATATGT
Found at i:11287578 original size:89 final size:89
Alignment explanation
Indices: 11287383--11287578 Score: 275
Period size: 89 Copynumber: 2.2 Consensus size: 89
11287373 CGTGACTTGA
* * * * * * * * *
11287383 AGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTG
1 AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
11287448 CAACTTCAGGGAGATAAGATTTGT
66 CAACTTCAGGGAGATAAGATTTGT
** * *
11287472 AGCTTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTCGATATCTACAATTTACTCCACTA
1 AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
11287537 CAACTTCAGGGAGATAAGATTTGT
66 CAACTTCAGGGAGATAAGATTTGT
11287561 AGCTTCAATCTGTTCTAC
1 AGCTTCAATCTGTTCTAC
11287579 CATACAGCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 92 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (89 bp):
AGCTTCAATCTGTTCTACTACAACTTCAGAGAAATAAGATTCGATATCTACAATCTACTCCACTA
CAACTTCAGGGAGATAAGATTTGT
Found at i:11292208 original size:21 final size:21
Alignment explanation
Indices: 11292183--11292225 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11292173 GCCTAATTAT
*
11292183 TTCAATAGTTAGATTATTAGG
1 TTCAATAGATAGATTATTAGG
* *
11292204 TTCAATTGATAGATTGTTAGG
1 TTCAATAGATAGATTATTAGG
11292225 T
1 T
11292226 AAATTCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
TTCAATAGATAGATTATTAGG
Found at i:11292997 original size:52 final size:52
Alignment explanation
Indices: 11292919--11293020 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
11292909 CGTGTGGGGT
11292919 CCCATGTGAAGGCCTGGAAGGTCCCAAGACAGACAGACAGATAGCCGGGTTG
1 CCCATGTGAAGGCCTGGAAGGTCCCAAGACAGACAGACAGATAGCCGGGTTG
*
11292971 CCCATGTGAAGG-CTGGGAAGGTCCCAAGACAGACAGACAGATAGCGGGGT
1 CCCATGTGAAGGCCT-GGAAGGTCCCAAGACAGACAGACAGATAGCCGGGT
11293021 CATCCATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.29, C:0.24, G:0.34, T:0.13
Consensus pattern (52 bp):
CCCATGTGAAGGCCTGGAAGGTCCCAAGACAGACAGACAGATAGCCGGGTTG
Found at i:11301317 original size:23 final size:23
Alignment explanation
Indices: 11301291--11301334 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11301281 CAAAATGGTG
11301291 TTTGTGAGAGGAAAAACAGGATA
1 TTTGTGAGAGGAAAAACAGGATA
* *
11301314 TTTGTGAGATGAGAAACAGGA
1 TTTGTGAGAGGAAAAACAGGA
11301335 CTGTTCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.23
Consensus pattern (23 bp):
TTTGTGAGAGGAAAAACAGGATA
Found at i:11307409 original size:23 final size:22
Alignment explanation
Indices: 11307366--11307423 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11307356 AAAAGGTATC
* *
11307366 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11307387 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11307410 TGCATATCATATCT
1 TACAAATCATATCT
11307424 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11307426 original size:19 final size:19
Alignment explanation
Indices: 11307402--11307473 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
11307392 AATCATATCT
11307402 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11307421 TCTAAGATTGCAT-TTATA
1 TCTAAGATTGCATATCATA
11307439 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11307456 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11307474 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.02
17 14 0.29
18 14 0.29
19 19 0.40
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11307630 original size:21 final size:20
Alignment explanation
Indices: 11307592--11307631 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11307582 TTGGACTTCG
**
11307592 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
11307612 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
11307632 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:11309776 original size:22 final size:22
Alignment explanation
Indices: 11309751--11309794 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11309741 ACATGAACAA
11309751 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11309773 AGCAAGTGCAACCAAACACTCT
1 AGCAAGTGCAACCAAACACTCT
11309795 TAGGTGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (22 bp):
AGCAAGTGCAACCAAACACTCT
Found at i:11312022 original size:3 final size:3
Alignment explanation
Indices: 11312014--11312253 Score: 169
Period size: 3 Copynumber: 81.0 Consensus size: 3
11312004 ATAAACAAGA
* * * *
11312014 AAT AAT AAT AGT AA- AA- AAT AAT AGT AAT AAT AAT GAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
11312060 AGA- AAT AGA- AAT AGA- AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 A-AT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
11312105 GAA- AAT AAT AA- AAT AAGG AAT AAT AAT AAT AAC AAC AAT AAT -AT
1 -AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
11312149 AAAT AAT AA- AAA AAC AAT AAT AGT AAT AAT AAT AAT AAT GAT AGT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
11312194 AA- AAT AAT AGT AAT AAT AGAA AAT AAT AGT AAT AGT AA- AATT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT
*
11312239 AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT
11312254 TAATTAATTA
Statistics
Matches: 187, Mismatches: 32, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
2 19 0.10
3 155 0.83
4 13 0.07
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11312177 original size:32 final size:30
Alignment explanation
Indices: 11312141--11312221 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 30
11312131 TAATAACAAC
11312141 AATAATATAAATAATAAAAAAACAATAATAGT
1 AATAATA-AAATAATAAAAAAA-AATAATAGT
* **
11312173 AATAATAATAATAATGATAGTAAAATAATAGT
1 AATAATAA-AATAAT-AAAAAAAAATAATAGT
11312205 AATAATAGAAAATAATA
1 AATAAT--AAAATAATA
11312222 GTAATAGTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 1 0.02
32 29 0.69
33 10 0.24
34 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.27
Consensus pattern (30 bp):
AATAATAAAATAATAAAAAAAAATAATAGT
Found at i:11313794 original size:45 final size:46
Alignment explanation
Indices: 11313722--11314040 Score: 151
Period size: 45 Copynumber: 7.1 Consensus size: 46
11313712 TTTCAGGGAG
* *
11313722 AAGAGATTTGTAACTTCGATCTACTCCACTG-AATCTTCAAGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAA-CTTCAAGGAGAT
* * *
11313768 AAGA-ATTGGTAATTTCGACCTGCTCCACTGCAACTTCAGGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * ** * *
11313813 AAG-GTTTGTGT-ATTTTTATCCTGCTCTACTGCAACTTC-AGAGAGAT
1 AAGAGATTG-GTAACTTCGA-CCTACTCCACTGCAACTTCAAG-GAGAT
** * ** * ** ** *
11313859 AAG-GATT-GTGGCTTCGATCTGTTCCAATATAA-TTTTAGG-GAG
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * * * *
11313901 AAGAGATTTGTAACTTCGATCTACTCTACTGGAACTTCATA-GAGGT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCA-AGGAGAT
* ** *
11313947 AAGA-ATTGGTAATTTTAACCTGCTCCACTGCAACTTCAAGGAGAT
1 AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
* * ** * *
11313992 AA-AGTTTGTGT-ATTTTTATCCTACTCTACTGCAACTTCAAAGAGAT
1 AAGAGATTG-GTAACTTCGA-CCTACTCCACTGCAACTTCAAGGAGAT
11314038 AAG
1 AAG
11314041 GATGGTGCTG
Statistics
Matches: 207, Mismatches: 49, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
42 5 0.02
43 7 0.03
44 32 0.15
45 92 0.44
46 71 0.34
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (46 bp):
AAGAGATTGGTAACTTCGACCTACTCCACTGCAACTTCAAGGAGAT
Found at i:11313846 original size:46 final size:46
Alignment explanation
Indices: 11313786--11314041 Score: 157
Period size: 46 Copynumber: 5.7 Consensus size: 46
11313776 GTAATTTCGA
* *
11313786 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * * **
11313832 CCTGCTCTACTGCAACTTCAGAGAGATAAGGATTGTG-GCTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* * ** * * * * * **
11313877 -CTGTTCCAATATAATTTTAGGGAGA-AGAGATTTGT-AACTTCGAT
1 CCTGCTCCACTGCAACTTCAGAGAGATA-AGGTTTGTGTACTTTTAT
* * * * * ** * *
11313921 -CTACTCTACTGGAACTTCATAGAGGTAAGAATTG-GTAATTTTAA
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
* *
11313965 CCTGCTCCACTGCAACTTCA-AGGAGATAAAGTTTGTGTATTTTTAT
1 CCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTGTGTACTTTTAT
* * *
11314011 CCTACTCTACTGCAACTTCAAAGAGATAAGG
1 CCTGCTCCACTGCAACTTCAGAGAGATAAGG
11314042 ATGGTGCTGC
Statistics
Matches: 155, Mismatches: 47, Indels: 16
0.71 0.22 0.07
Matches are distributed among these distances:
43 1 0.01
44 55 0.35
45 30 0.19
46 68 0.44
47 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (46 bp):
CCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGTACTTTTAT
Found at i:11313970 original size:179 final size:178
Alignment explanation
Indices: 11313686--11314129 Score: 613
Period size: 179 Copynumber: 2.5 Consensus size: 178
11313676 GTATAGGAAT
* *
11313686 TGGTGCTTCGATCCGTTCCAATATAATTTCAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
* * *
11313751 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCGACCTGCTCCACTGCAACTTCAGGGAGATAAG
66 TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAA
* *
11313816 GTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGAGAGATAAGGA
131 GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
* * *
11313864 TTGTGGCTTCGATCTGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCTA
1 TGGT-GCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCA
* *
11313929 CTGGAA-CTTCATA-GAGGTAAGAATTGGTAATTTTAACCTGCTCCACTGCAACTTCAAGGAGAT
65 CT-GAATCTTCA-AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGAT
11313992 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
128 AAAGTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
* * ** * * * * * *
11314043 TGGTGCTGCGGTCAACTCTAATGTAATTTTAGGAAGAAGAGATTTGTAGCTTCGATCTATTCCGC
1 TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
* * * *
11314108 CGAAACTTCATGAAGATAAGAA
66 TGAATCTTCAAGGAGATAAGAA
11314130 CCACTGTCTT
Statistics
Matches: 233, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
177 3 0.01
178 65 0.28
179 161 0.69
180 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (178 bp):
TGGTGCTTCGATCAGTTCCAATATAATTTTAGGGAGAAGAGATTTGTAACTTCGATCTACTCCAC
TGAATCTTCAAGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAA
GTTTGTGTATTTTTATCCTACTCTACTGCAACTTCAAAGAGATAAGGA
Done.