Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 305 of 410
Found at i:94373066 original size:23 final size:23
Alignment explanation
Indices: 94373036--94373202 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
94373026 CCTTGCCTCT
*
94373036 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
94373059 TTTAATAAATGGGGCGTAAGCCTT
1 TTTAATAACTGGGGCATAAGCC-C
*
94373083 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
94373106 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
94373130 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
94373154 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
94373177 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
94373200 TTT
1 TTT
94373203 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 67 0.50
24 66 0.50
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:94373095 original size:24 final size:23
Alignment explanation
Indices: 94373034--94373203 Score: 223
Period size: 24 Copynumber: 7.2 Consensus size: 23
94373024 GGCCTTGCCT
*
94373034 CTTTTAATAACTGGGGCAAAAGC
1 CTTTTAATAACTGGGGCATAAGC
* * *
94373057 CCTTTAATAAATGGGGCGTAAGC
1 CTTTTAATAACTGGGGCATAAGC
*
94373080 CTTTTTGATAACTGGGGCATAAGCC
1 C-TTTTAATAACTGGGGCATAAG-C
*
94373105 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
*
94373129 CTTTTGATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
*
94373152 CCTTTAATAACTGGGGCATAAGC
1 CTTTTAATAACTGGGGCATAAGC
*
94373175 CCTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAG-C
94373199 CTTTT
1 CTTTT
94373204 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
23 64 0.48
24 67 0.50
25 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
CTTTTAATAACTGGGGCATAAGC
Found at i:94373104 original size:47 final size:47
Alignment explanation
Indices: 94373030--94373202 Score: 249
Period size: 48 Copynumber: 3.7 Consensus size: 47
94373020 TGGAGGCCTT
* * *
94373030 GCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAAATGGGGCGTAA
1 GCCT-TTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
* *
94373078 GCCTTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAA
1 GCCTTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
* *
94373126 GCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
1 GCCTTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
*
94373173 GCC-CTTTAATAACTGGGGCATAAGCCCTTT
1 GCCTTTTTAATAACTGGGGCATAAGCCCTTT
94373203 TGCACTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 25 0.22
47 43 0.37
48 47 0.41
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
GCCTTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAA
Found at i:94373275 original size:9 final size:9
Alignment explanation
Indices: 94373261--94373317 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
94373251 ATCTCATGTG
94373261 CATATCATA
1 CATATCATA
*
94373270 CATATCATGTG
1 CATATCA--TA
94373281 CATATCATA
1 CATATCATA
* *
94373290 CATGTCATGTG
1 CATATCA--TA
94373301 CATATCATA
1 CATATCATA
94373310 CATATCAT
1 CATATCAT
94373318 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:94373277 original size:20 final size:20
Alignment explanation
Indices: 94373249--94373319 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
94373239 GCATTTATGA
*
94373249 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
94373269 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
94373289 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
94373309 ACATATCATGT
1 ACATATCATGT
94373320 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:94373284 original size:11 final size:11
Alignment explanation
Indices: 94373254--94373308 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
94373244 TATGAACATC
94373254 TCATGTGCATA
1 TCATGTGCATA
*
94373265 TCA--TACATA
1 TCATGTGCATA
94373274 TCATGTGCATA
1 TCATGTGCATA
* *
94373285 TCA--TACATG
1 TCATGTGCATA
94373294 TCATGTGCATA
1 TCATGTGCATA
94373305 TCAT
1 TCAT
94373309 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:94373384 original size:25 final size:25
Alignment explanation
Indices: 94373356--94373403 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
94373346 ATACATAAAC
* *
94373356 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
94373381 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
94373404 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:94376796 original size:41 final size:41
Alignment explanation
Indices: 94376751--94376868 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94376741 TGAAAGATAA
94376751 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94376792 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94376822 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94376863 ATGTAG
1 ATGTAG
94376869 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94376807 original size:71 final size:71
Alignment explanation
Indices: 94376719--94376882 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94376709 GAGATGTATC
94376719 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94376784 AGGACA
66 AGGACA
94376790 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94376855 AGGACA
66 AGGACA
94376861 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94376883 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94384413 original size:41 final size:41
Alignment explanation
Indices: 94384368--94384485 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94384358 TGAAAGATAA
94384368 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94384409 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94384439 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94384480 ATGTAG
1 ATGTAG
94384486 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94384424 original size:71 final size:71
Alignment explanation
Indices: 94384336--94384499 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94384326 GAGATGTATC
94384336 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94384401 AGGACA
66 AGGACA
94384407 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94384472 AGGACA
66 AGGACA
94384478 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94384500 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94394016 original size:15 final size:16
Alignment explanation
Indices: 94393982--94394021 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
94393972 GGATTTTTGA
*
94393982 ATCTTGGGAGTTTCTTT
1 ATCTT-GGAGTTTCTCT
94393999 ATCTTGGA-TTTCTCT
1 ATCTTGGAGTTTCTCT
94394014 ATCTTGGA
1 ATCTTGGA
94394022 CCTCTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (16 bp):
ATCTTGGAGTTTCTCT
Found at i:94396383 original size:38 final size:38
Alignment explanation
Indices: 94396340--94396412 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
94396330 AGTTCGCGTC
94396340 ATTTAATAAGCATATTATTCATGTTACTATTGTTAGTG
1 ATTTAATAAGCATATTATTCATGTTACTATTGTTAGTG
*
94396378 ATTTAATAAGCATATTATTCATGTTATTATTGTTA
1 ATTTAATAAGCATATTATTCATGTTACTATTGTTA
94396413 TACATGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (38 bp):
ATTTAATAAGCATATTATTCATGTTACTATTGTTAGTG
Found at i:94396424 original size:38 final size:38
Alignment explanation
Indices: 94396344--94396424 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
94396334 CGCGTCATTT
* **
94396344 AATAAGCATATTATTCATGTTACTATTGTTAGTGATTT
1 AATAAGCATATTATTCATGTTACTATTGTTAGTCATGA
*
94396382 AATAAGCATATTATTCATGTTATTATTGTTA-TACATGA
1 AATAAGCATATTATTCATGTTACTATTGTTAGT-CATGA
94396420 AATAA
1 AATAA
94396425 TTTTGCTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (38 bp):
AATAAGCATATTATTCATGTTACTATTGTTAGTCATGA
Found at i:94398032 original size:13 final size:13
Alignment explanation
Indices: 94397982--94398032 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
94397972 CTCGGTAGGG
94397982 ACACGCCCGTAG-C
1 ACACGCCCGT-GTC
*
94397995 ACACGCCCGTGGC
1 ACACGCCCGTGTC
94398008 ACACGCCCGTGTC
1 ACACGCCCGTGTC
*
94398021 ACACGCCTGTGT
1 ACACGCCCGTGT
94398033 TCGATTACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
12 1 0.03
13 34 0.97
ACGTcount: A:0.18, C:0.43, G:0.25, T:0.14
Consensus pattern (13 bp):
ACACGCCCGTGTC
Found at i:94403907 original size:14 final size:15
Alignment explanation
Indices: 94403884--94403913 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
94403874 AAGAGAATGG
94403884 AAATGAACAGAGGGA
1 AAATGAACAGAGGGA
94403899 AAATG-ACAGAGGGA
1 AAATGAACAGAGGGA
94403913 A
1 A
94403914 TTTACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.53, C:0.07, G:0.33, T:0.07
Consensus pattern (15 bp):
AAATGAACAGAGGGA
Found at i:94403954 original size:13 final size:13
Alignment explanation
Indices: 94403936--94403960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94403926 TTAAAGAGAA
94403936 GGGAAATGAACAT
1 GGGAAATGAACAT
94403949 GGGAAATGAACA
1 GGGAAATGAACA
94403961 AGTTTACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.32, T:0.12
Consensus pattern (13 bp):
GGGAAATGAACAT
Found at i:94426005 original size:15 final size:15
Alignment explanation
Indices: 94425969--94426055 Score: 95
Period size: 15 Copynumber: 5.8 Consensus size: 15
94425959 GAAAATCGGG
*
94425969 TAAAGAAATCCA-AGA
1 TAAAGAAACCCAGA-A
*
94425984 TAGAGAAACCCAGAA
1 TAAAGAAACCCAGAA
94425999 TAAAGAAACCCAGAA
1 TAAAGAAACCCAGAA
* *
94426014 TAAAGAAATCTAGAA
1 TAAAGAAACCCAGAA
* * *
94426029 TAAAGAGATCCAGGA
1 TAAAGAAACCCAGAA
94426044 TAAAGAAACCCA
1 TAAAGAAACCCA
94426056 AGATATGATA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
15 60 0.98
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (15 bp):
TAAAGAAACCCAGAA
Found at i:94426020 original size:45 final size:45
Alignment explanation
Indices: 94425969--94426055 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
94425959 GAAAATCGGG
*
94425969 TAAAGAAATCCAAG-ATAGAGAAACCCAGAATAAAGAAACCCAGAA
1 TAAAGAAAT-CAAGAATAAAGAAACCCAGAATAAAGAAACCCAGAA
* * * *
94426014 TAAAGAAATCTAGAATAAAGAGATCCAGGATAAAGAAACCCA
1 TAAAGAAATCAAGAATAAAGAAACCCAGAATAAAGAAACCCA
94426056 AGATATGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 3 0.08
45 33 0.92
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.11
Consensus pattern (45 bp):
TAAAGAAATCAAGAATAAAGAAACCCAGAATAAAGAAACCCAGAA
Found at i:94427258 original size:45 final size:45
Alignment explanation
Indices: 94427208--94427297 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
94427198 AACAATTTGA
94427208 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTGTATAT
1 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTGTATAT
94427253 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTGTATAT
1 TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTGTATAT
94427298 CATTAACATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (45 bp):
TAAGTTCATTTCATTATAATCCTTTATCTCATAAAAATTGTATAT
Found at i:94432397 original size:22 final size:21
Alignment explanation
Indices: 94432372--94432412 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
94432362 GATAACCCCA
*
94432372 TCCAACCCTGCACTTGCCTGCG
1 TCCAACCCTACACTT-CCTGCG
*
94432394 TCCATCCCTACACTTCCTG
1 TCCAACCCTACACTTCCTG
94432413 TGGGGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.15, C:0.46, G:0.12, T:0.27
Consensus pattern (21 bp):
TCCAACCCTACACTTCCTGCG
Found at i:94433760 original size:14 final size:14
Alignment explanation
Indices: 94433735--94433777 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
94433725 ACTATAGGGG
*
94433735 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
94433749 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
94433763 AGAAGAAGAGAAAAT
1 AGAAGAAGA-AAAAT
94433778 GAAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:94434941 original size:3 final size:3
Alignment explanation
Indices: 94434933--94434964 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
94434923 AAACATACTA
94434933 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
94434965 CTTTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:94437893 original size:60 final size:60
Alignment explanation
Indices: 94437815--94437951 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
94437805 CAGTGTTAAC
* *
94437815 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
94437876 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
94437936 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
94437952 TAACACAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:94437915 original size:28 final size:27
Alignment explanation
Indices: 94437814--94437915 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
94437804 TCAGTGTTAA
* *
94437814 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
94437842 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
94437874 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
94437902 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
94437916 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:94438052 original size:22 final size:21
Alignment explanation
Indices: 94438027--94438067 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
94438017 GATAACCCCA
*
94438027 TCCAACCCTGCACTTGCCTGCG
1 TCCAACCCTACACTT-CCTGCG
*
94438049 TCCATCCCTACACTTCCTG
1 TCCAACCCTACACTTCCTG
94438068 TGGGGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.15, C:0.46, G:0.12, T:0.27
Consensus pattern (21 bp):
TCCAACCCTACACTTCCTGCG
Found at i:94439177 original size:14 final size:14
Alignment explanation
Indices: 94439152--94439194 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
94439142 GCTATAGGGG
*
94439152 AGAA-AAGAAAAACA
1 AGAAGAAGAAAAA-T
94439166 AGAAGAAGAAAAAT
1 AGAAGAAGAAAAAT
94439180 AGAAGAAGAGAAAAT
1 AGAAGAAGA-AAAAT
94439195 GAAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAGAAGAAAAAT
Found at i:94440347 original size:3 final size:3
Alignment explanation
Indices: 94440339--94440390 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
94440329 TAAACATACT
*
94440339 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94440387 TAA T
1 TAA T
94440391 TTTAAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:94440523 original size:19 final size:18
Alignment explanation
Indices: 94440486--94440529 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
94440476 ATACATGCAG
94440486 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
94440503 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
94440522 TACTAATT
1 TAATAATT
94440530 AAAAGTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:94448416 original size:22 final size:20
Alignment explanation
Indices: 94448374--94448416 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
94448364 AATTTAGCCC
* *
94448374 TATATATTTATTTTTATTAT
1 TATATATATATTTTCATTAT
94448394 TATATATATATATTTCATATAT
1 TATATATATAT-TTTCAT-TAT
94448416 T
1 T
94448417 GTAATTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 5 0.26
22 4 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATATATATTTTCATTAT
Found at i:94448481 original size:25 final size:23
Alignment explanation
Indices: 94448450--94448500 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
94448440 CTTACTTTTA
94448450 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
94448473 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
94448495 TATTAT
1 TATTAT
94448501 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:94448558 original size:17 final size:17
Alignment explanation
Indices: 94448538--94448593 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
94448528 TTTACATCAT
94448538 TTTTTATTATTATTATA
1 TTTTTATTATTATTATA
94448555 TTTTTACTTGTATTA-TATA
1 TTTTTA--T-TATTATTATA
*
94448574 TATTTATTAATTATTTATA
1 TTTTTATT-ATTA-TTATA
94448593 T
1 T
94448594 ATATTGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
19 15 0.47
20 5 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTATTATTATTATA
Found at i:94448577 original size:21 final size:22
Alignment explanation
Indices: 94448545--94448598 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
94448535 CATTTTTTAT
* *
94448545 TATTAT-TATATTT-TTACTTG
1 TATTATATATATTTATTAATTA
94448565 TATTATATATATTTATTAATTA
1 TATTATATATATTTATTAATTA
94448587 T-TTATATATATT
1 TATTATATATATT
94448599 GTTTTTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 6 0.20
21 18 0.60
22 6 0.20
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TATTATATATATTTATTAATTA
Found at i:94448709 original size:31 final size:32
Alignment explanation
Indices: 94448667--94448746 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
94448657 TATATTTAAA
*
94448667 TTATATTTTATTATATAACATTTATTATATTT-
1 TTAT-TTTTATTATATAACACTTATTATATTTC
* ** *
94448699 TTATTTTTATTCTATATTACTTATTATTTTTC
1 TTATTTTTATTATATAACACTTATTATATTTC
* *
94448731 TTTTTTTTTTTATATA
1 TTATTTTTATTATATA
94448747 TGTTATGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 22 0.56
32 17 0.44
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (32 bp):
TTATTTTTATTATATAACACTTATTATATTTC
Found at i:94448811 original size:12 final size:12
Alignment explanation
Indices: 94448758--94448813 Score: 51
Period size: 12 Copynumber: 4.3 Consensus size: 12
94448748 GTTATGTATA
94448758 TCATATATATTA-
1 TCAT-TATATTAT
94448770 TCTATTATATTAT
1 TC-ATTATATTAT
*
94448783 TTATGTTTATATTAT
1 TCA---TTATATTAT
94448798 TCATTATATTAT
1 TCATTATATTAT
94448810 TCAT
1 TCAT
94448814 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 23 0.62
13 3 0.08
15 11 0.30
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (12 bp):
TCATTATATTAT
Found at i:94457277 original size:39 final size:39
Alignment explanation
Indices: 94457167--94457350 Score: 260
Period size: 39 Copynumber: 4.7 Consensus size: 39
94457157 TCGTTCAAAC
* * * * * *
94457167 GCCTTCGGGACATAGCCCGGCTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
94457207 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
94457247 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* *
94457286 GCCTTCGGGCTTAGCCTGGATATCACAATTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
94457325 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
94457351 TCGAACATTC
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.68
40 42 0.32
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:94459443 original size:13 final size:13
Alignment explanation
Indices: 94459421--94459454 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
94459411 CTTTCTTCAG
*
94459421 ACTTTTACGGATT
1 ACTTTCACGGATT
94459434 ACTTTCACGGATT
1 ACTTTCACGGATT
94459447 ACTTTCAC
1 ACTTTCAC
94459455 TTTCTGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (13 bp):
ACTTTCACGGATT
Found at i:94461093 original size:46 final size:46
Alignment explanation
Indices: 94461043--94461218 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94461033 ATGGTTGGCA
94461043 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94461089 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94461136 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94461182 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94461219 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94461198 original size:93 final size:93
Alignment explanation
Indices: 94461039--94461210 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94461029 TAGGATGGTT
* *
94461039 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94461104 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94461132 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94461197 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94461211 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94464188 original size:15 final size:15
Alignment explanation
Indices: 94464168--94464236 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
94464158 GTATCTTGGG
94464168 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
94464183 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
94464198 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
94464213 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
94464228 TTTCTTTAT
1 TTTCTTTAT
94464237 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:94464237 original size:30 final size:30
Alignment explanation
Indices: 94464159--94464246 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
94464149 CATAGTATCG
* * * *
94464159 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
94464189 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
94464219 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
94464247 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:94466668 original size:46 final size:46
Alignment explanation
Indices: 94466618--94466793 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94466608 ATGGTTGGCA
94466618 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94466664 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94466711 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94466757 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94466794 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94466773 original size:93 final size:93
Alignment explanation
Indices: 94466614--94466785 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94466604 TAGGATGGTT
* *
94466614 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94466679 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94466707 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94466772 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94466786 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94473572 original size:39 final size:39
Alignment explanation
Indices: 94473462--94473645 Score: 242
Period size: 39 Copynumber: 4.7 Consensus size: 39
94473452 TCGTTCAAAC
* * * * * *
94473462 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
94473502 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
* *
94473542 GCCTTCGAGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
* * *
94473581 GCCTTCGGGCTTAGCCCGAATATCACAATTCGTACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
94473620 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
94473646 TCGAACATTC
Statistics
Matches: 128, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:94480937 original size:205 final size:205
Alignment explanation
Indices: 94480172--94481080 Score: 1268
Period size: 206 Copynumber: 4.4 Consensus size: 205
94480162 TAGGCCGCAG
* * *
94480172 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGTAGATCCAGGATGGTTTGGTATCCTTGTA
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * *
94480237 CTTACAAGGAATAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATGATGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
* * * * *
94480302 AAGATAATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATC-TCTACTTCAATG
131 AAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCAAAGTCTGGCATCTTC-ACTTTAATG
94480366 GAGAGCAGATA
195 GAGAGCAGATA
* * * * * *
94480377 CATAGTAGATCTGACCTTCAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
1 CATAGCAGATCTCACCTTCAGATGTTTATG-CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTG
* * *
94480441 TGTTTACAAGGAACAAATCGAAGACATAGTTGATTTGGCTTTCACGTGCTTACGGTGAAGCAAAT
64 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
* * *
94480506 CTAAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCGAAGTCTGGTATCTCCA-TTTCAA
129 CTAAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCAAAGTCTGGCATCTTCACTTT-AA
94480570 TGGAGAGCAGATA
193 TGGAGAGCAGATA
* * * * * *
94480583 CATAGCAGATCTGACCTTTAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
1 CATAGCAGATCTCACCTTCAGATGTTTATG-CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTG
* * * *
94480647 TGTTTACAAGGAACAAATCGAAGACATAGTTGGTTTGGCTTTCACATGCTTACGATGAAGCAAAT
64 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAAT
** * *
94480712 CTAAGATGATTTCACATCTCTGTATTGTCAGAGAACGAATCAAAGTCTGGCATCTTCACTTTGAT
129 CTAAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCAAAGTCTGGCATCTTCACTTTAAT
94480777 GGAGAGCAGATA
194 GGAGAGCAGATA
* * *
94480789 TATAGCAGATCTCACCTTCGGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
* * * * *
94480854 CTTACAAGGAACAAGTCGAAGACATAGCAGATTTGGCTTTGACGTGTTTACGCTGAAGCAAATCT
66 CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
* * * *
94480919 AAGATGATTTGGCATCTCTATATTGTCAGAGAATGAATCGAAGTCTGGCTTCTTCACTTTGATGG
131 AAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCAAAGTCTGGCATCTTCACTTTAATGG
94480984 AGAGCAGATA
196 AGAGCAGATA
* *
94480994 CATAGCAGATCTCACCTTCAGATGTTTATGCCGAAGCAGATCCAAGATGGTTTGGTACCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
*
94481059 CTTACAAAGAACAAATCGAAGA
66 CTTACAAGGAACAAATCGAAGA
94481081 AGCAGATTTG
Statistics
Matches: 634, Mismatches: 64, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
204 1 0.00
205 264 0.42
206 364 0.57
207 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTG
CTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTATATTGTCAGAGAACGAATCAAAGTCTGGCATCTTCACTTTAATGG
AGAGCAGATA
Found at i:94482809 original size:25 final size:23
Alignment explanation
Indices: 94482773--94482828 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
94482763 TTAACCTTAC
94482773 TTTTA-TATTATATAGTGTAAGATTA
1 TTTTATTA-TATATA-T-TAAGATTA
*
94482798 TTTTATTATATATATTAATATTA
1 TTTTATTATATATATTAAGATTA
94482821 -TTTATTAT
1 TTTTATTAT
94482829 CTATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 7 0.24
24 1 0.03
25 11 0.38
26 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTTATTATATATATTAAGATTA
Found at i:94482902 original size:21 final size:22
Alignment explanation
Indices: 94482867--94482928 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
94482857 ATCATTTTTT
* *
94482867 TATTATGATTATATTT-TTACTTG
1 TATTAT-A-TATATTTATTAATTA
94482890 TATTATATATATTTATTAATTA
1 TATTATATATATTTATTAATTA
94482912 T-TTATATATATTGTATT
1 TATTATATATATT-TATT
94482929 TACATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 18 0.51
22 11 0.31
23 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTATATATATTTATTAATTA
Found at i:94483035 original size:31 final size:30
Alignment explanation
Indices: 94482993--94483069 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
94482983 TATATTTAAA
*
94482993 TTATATTTTATTATATAACATTTATTATATTT
1 TTAT-TTTTATTATATAACACTTATTAT-TTT
* **
94483025 TTATTTTTATTCTATATTACTTATTATTTT
1 TTATTTTTATTATATAACACTTATTATTTT
94483055 TCT-TTTTT-TTATATA
1 T-TATTTTTATTATATA
94483070 TGTTATGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 6 0.15
30 9 0.23
31 20 0.51
32 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (30 bp):
TTATTTTTATTATATAACACTTATTATTTT
Found at i:94483103 original size:12 final size:12
Alignment explanation
Indices: 94483086--94483133 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
94483076 GTATATCATA
94483086 TATATTATTTAT
1 TATATTATTTAT
94483098 TATATTATTTATGTT
1 TATATTATTTA---T
*
94483113 TATATTATTCAT
1 TATATTATTTAT
94483125 TATATTATT
1 TATATTATT
94483134 CATAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 21 0.66
15 11 0.34
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:94483134 original size:12 final size:12
Alignment explanation
Indices: 94483081--94483136 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
94483071 GTTATGTATA
94483081 TCATATATATTAT
1 TCAT-TATATTAT
*
94483094 TTATTATATTAT
1 TCATTATATTAT
*
94483106 TTATGTTTATATTAT
1 TCA---TTATATTAT
94483121 TCATTATATTAT
1 TCATTATATTAT
94483133 TCAT
1 TCAT
94483137 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 24 0.63
13 3 0.08
15 11 0.29
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (12 bp):
TCATTATATTAT
Found at i:94483506 original size:32 final size:31
Alignment explanation
Indices: 94483465--94483565 Score: 104
Period size: 32 Copynumber: 3.3 Consensus size: 31
94483455 TATTATATGT
94483465 TTTATTTTGTTAATATATATATTTTATTTTA
1 TTTATTTTGTTAATATATATATTTTATTTTA
*
94483496 TTTCATTTTGTTAATATAT-TATTGTTA--ATA
1 TTT-ATTTTGTTAATATATATATT-TTATTTTA
* *
94483526 -ATATTTTGTTAA-ATATCATGTTTTATTTTA
1 TTTATTTTGTTAATATAT-ATATTTTATTTTA
94483556 TTTTATTTTG
1 -TTTATTTTG
94483566 ATATTACATT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
27 4 0.07
28 13 0.23
29 4 0.07
30 4 0.07
31 7 0.12
32 25 0.44
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (31 bp):
TTTATTTTGTTAATATATATATTTTATTTTA
Found at i:94483522 original size:14 final size:13
Alignment explanation
Indices: 94483500--94483541 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
94483490 ATTTTATTTC
94483500 ATTTTGTTAATAT
1 ATTTTGTTAATAT
94483513 ATTATTGTTAATAAT
1 ATT-TTGTTAAT-AT
94483528 ATTTTGTTAA-AT
1 ATTTTGTTAATAT
94483540 AT
1 AT
94483542 CATGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 3 0.11
14 15 0.56
15 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
ATTTTGTTAATAT
Found at i:94492834 original size:39 final size:39
Alignment explanation
Indices: 94492786--94492907 Score: 154
Period size: 39 Copynumber: 3.1 Consensus size: 39
94492776 TTAAGCCTGA
** * *
94492786 ATATATTTCCAGCACGTAGCCTGCGGACCTGAAGTCCGG
1 ATATATTTCCAGCATATAGCCTGTGGACCTTAAGTCCGG
* * *
94492825 ATATATTTCCCGCATATAGCCTGTAGACCTTAAGTCCGA
1 ATATATTTCCAGCATATAGCCTGTGGACCTTAAGTCCGG
* * *
94492864 ATATATTTCCTGCATATAGCCTGTGGACTTTAAGTCCAG
1 ATATATTTCCAGCATATAGCCTGTGGACCTTAAGTCCGG
94492903 ATATA
1 ATATA
94492908 ATTTTCAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (39 bp):
ATATATTTCCAGCATATAGCCTGTGGACCTTAAGTCCGG
Found at i:94493769 original size:2 final size:2
Alignment explanation
Indices: 94493762--94493796 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
94493752 CAATATTACC
94493762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94493797 CCAATTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94496472 original size:29 final size:29
Alignment explanation
Indices: 94496411--94496511 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
94496401 GTGACGAGAT
* *
94496411 TGGCACTGAGTGTGTGAGCTTGAAATGTA
1 TGGCACTAAGTGTGTGAGCTTGAAATATA
* * *
94496440 TGGCACTAAGTGTGTGAGCTTGGACTATC
1 TGGCACTAAGTGTGTGAGCTTGAAATATA
* ** *
94496469 TGGCACTATGTGTGCAAGCTT-AAATCACA
1 TGGCACTAAGTGTGTGAGCTTGAAAT-ATA
94496498 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
94496512 CGTGAACGAT
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 2 0.03
29 56 0.97
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGTGAGCTTGAAATATA
Found at i:94504529 original size:29 final size:29
Alignment explanation
Indices: 94504497--94504599 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
94504487 GTGACGAGAT
* *
94504497 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
94504526 TGGCACTAAGTGTGCGAGCTTGGACTATC
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* *
94504555 TGGCACTATGTGTGCGAGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
94504584 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
94504600 TGAACGATTA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:94507380 original size:20 final size:20
Alignment explanation
Indices: 94507357--94507395 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
94507347 TAAACATGGT
94507357 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
94507377 ATGTATGCTATGCACATGA
1 ATGTATGATATGCACATGA
94507396 TGTATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:94507477 original size:23 final size:23
Alignment explanation
Indices: 94507447--94507519 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
94507437 AGGAAGTGCA
*
94507447 AAAGGGCTTATGCTCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
94507470 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
94507493 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
94507517 AAA
1 AAA
94507520 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 25 0.53
24 22 0.47
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:94507536 original size:25 final size:24
Alignment explanation
Indices: 94507446--94507540 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
94507436 GAGGAAGTGC
*
94507446 AAAAGGGCTTATGCTCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94507470 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94507493 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94507517 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94507541 ATGATCAAGC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
23 22 0.34
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:94515380 original size:20 final size:20
Alignment explanation
Indices: 94515357--94515413 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
94515347 TAAACATAGT
94515357 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
94515377 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAC
94515397 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
94515414 TATGTATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:94515497 original size:23 final size:23
Alignment explanation
Indices: 94515467--94515539 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
94515457 AGGAAGTGCA
94515467 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
94515490 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
94515513 AAAAGGGCTTTTGCCCCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
94515537 AAA
1 AAA
94515540 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.55
24 21 0.45
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:94515560 original size:25 final size:24
Alignment explanation
Indices: 94515466--94515560 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
94515456 GAGGAAGTGC
94515466 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
94515490 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
94515513 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
94515537 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94515561 ATGAACAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.37
24 30 0.48
25 10 0.16
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:94518082 original size:25 final size:25
Alignment explanation
Indices: 94518054--94518114 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
94518044 AATTAGTAGC
94518054 CTAAAATTGAATAAAACAAAAATAA
1 CTAAAATTGAATAAAACAAAAATAA
* * *
94518079 CTAAAATTAAATTAAATAAAAATAA
1 CTAAAATTGAATAAAACAAAAATAA
94518104 CTAAAATTGAA
1 CTAAAATTGAA
94518115 ATTCATTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.66, C:0.07, G:0.03, T:0.25
Consensus pattern (25 bp):
CTAAAATTGAATAAAACAAAAATAA
Found at i:94520782 original size:21 final size:21
Alignment explanation
Indices: 94520758--94520804 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
94520748 ACATGTATTG
94520758 GCTTCGGGCCATAATATTAGC
1 GCTTCGGGCCATAATATTAGC
*
94520779 GCTTCGGGCCATGATATTAGC
1 GCTTCGGGCCATAATATTAGC
*
94520800 ACTTC
1 GCTTC
94520805 AGGTGCGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (21 bp):
GCTTCGGGCCATAATATTAGC
Found at i:94524632 original size:43 final size:43
Alignment explanation
Indices: 94524462--94524633 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
94524452 ACATAGGATC
*
94524462 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACATTGGCAT
* * * * *
94524505 TGACT-TATGATTTACGTGTAAGACCATGTATGGGACATCGGCAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGTCTGGGACATTGGCAT
* * * * * *
94524549 C-CTATTTGATTTCGTGTAAGACC-CTGTTTGAGATAGTGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCAT
* *
94524591 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
94524634 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
42 27 0.27
43 40 0.40
44 29 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACATTGGCAT
Found at i:94532999 original size:23 final size:23
Alignment explanation
Indices: 94532968--94533011 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
94532958 GTAATGAATC
94532968 TTATGTTTTGGGTATGATTTTGGA
1 TTATGTTTTGGGTATG-TTTTGGA
*
94532992 TTAT-TTTTTGGTATGTTTTG
1 TTATGTTTTGGGTATGTTTTG
94533012 ATTTAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.14, C:0.00, G:0.25, T:0.61
Consensus pattern (23 bp):
TTATGTTTTGGGTATGTTTTGGA
Found at i:94537720 original size:13 final size:13
Alignment explanation
Indices: 94537702--94537726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94537692 TTAAAGAGAA
94537702 GGGAAATGAACAT
1 GGGAAATGAACAT
94537715 GGGAAATGAACA
1 GGGAAATGAACA
94537727 AGTTTACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.32, T:0.12
Consensus pattern (13 bp):
GGGAAATGAACAT
Found at i:94543114 original size:37 final size:37
Alignment explanation
Indices: 94543064--94543136 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
94543054 AGCACAGTCT
*
94543064 GATTAATCTCTATTTAAATATAAATATTATAATTTTG
1 GATTAACCTCTATTTAAATATAAATATTATAATTTTG
*
94543101 GATTAACCTCTATTTAAATTTAAATATTATAATTTT
1 GATTAACCTCTATTTAAATATAAATATTATAATTTT
94543137 TAGTGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (37 bp):
GATTAACCTCTATTTAAATATAAATATTATAATTTTG
Found at i:94544386 original size:20 final size:21
Alignment explanation
Indices: 94544348--94544388 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
94544338 ATAAATCATT
94544348 TAAATATAAATTAAATTTTAA
1 TAAATATAAATTAAATTTTAA
* *
94544369 TAAA-ATAAATTTACTTTTAA
1 TAAATATAAATTAAATTTTAA
94544389 CTTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATATAAATTAAATTTTAA
Found at i:94551493 original size:18 final size:18
Alignment explanation
Indices: 94551459--94551493 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94551449 AAATAAATAC
**
94551459 ATAACTATTCATTTAATT
1 ATAACTATTCAAATAATT
94551477 ATAACTATTCAAATAAT
1 ATAACTATTCAAATAAT
94551494 ATTATTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAACTATTCAAATAATT
Found at i:94553350 original size:20 final size:20
Alignment explanation
Indices: 94553316--94553358 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
94553306 CCAAAGATTA
*
94553316 TTTATTTTTCTAAAA-TATT
1 TTTATTTTTCAAAAATTATT
94553335 TTTATTTTTCGAAAAATTATT
1 TTTATTTTTC-AAAAATTATT
94553356 TTT
1 TTT
94553359 TGATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTATTTTTCAAAAATTATT
Found at i:94554225 original size:27 final size:23
Alignment explanation
Indices: 94554172--94554266 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 23
94554162 TAAAAAATAT
94554172 ATTTTTATAAATTATTATAATTATTTAA
1 ATTTTTAT-AATT-TT-T-ATT-TTTAA
94554200 ATATTTTATAATTTTATGAGTTTTTAA
1 AT-TTTTATAATTTT-T-A-TTTTTAA
94554227 ATTCTTTATAATTTTTATTTTTAA
1 ATT-TTTATAATTTTTATTTTTAA
94554251 ATTTTT-TAACTTTTTA
1 ATTTTTATAA-TTTTTA
94554267 ATTAATTATT
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
22 3 0.05
23 9 0.15
24 10 0.16
25 1 0.02
26 2 0.03
27 23 0.37
28 8 0.13
29 6 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTATAATTTTTATTTTTAA
Found at i:94554234 original size:9 final size:8
Alignment explanation
Indices: 94554174--94554267 Score: 57
Period size: 9 Copynumber: 10.9 Consensus size: 8
94554164 AAAAATATAT
94554174 TTTTATAAA
1 TTTT-TAAA
*
94554183 TTATTATAA
1 TTTTTA-AA
94554192 TTATTTAAA
1 TT-TTTAAA
94554201 TATTTTATAA
1 T-TTTTA-AA
* *
94554211 TTTTATGAG
1 TTTT-TAAA
94554220 TTTTTAAA
1 TTTTTAAA
94554228 TTCTTTATAA
1 TT-TTTA-AA
94554238 TTTTT--A
1 TTTTTAAA
94554244 TTTTTAAA
1 TTTTTAAA
*
94554252 TTTTTTAAC
1 -TTTTTAAA
94554261 TTTTTAA
1 TTTTTAA
94554268 TTAATTATTG
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
6 6 0.09
8 14 0.21
9 36 0.53
10 12 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TTTTTAAA
Found at i:94557984 original size:105 final size:107
Alignment explanation
Indices: 94557696--94557986 Score: 329
Period size: 105 Copynumber: 2.7 Consensus size: 107
94557686 TTCAAACAAT
* * * *
94557696 AGAGTTTATGAAATTTTAAATAAACCAAACAAAACCAATCACTCATTTACAACTTTTTAGTCTTG
1 AGAGTTCACGAAATTTTAAATAAACCAAACAAAACCAATCACTTATTTACAAC-TTTTAGTCTTC
* * * * *
94557761 CTTTCAGAATATATCAAACCATGGAGTATGCAATTGCAATGTC
65 CTTTCAGAATGTATCAAACCATGGAATATGCAAATACAATATC
* * * * *
94557804 AGAGTTGATGAAATTTTAAATAAACCAAACAAAACCAACCACTTATTTACTAC-ATTAGTCTTCC
1 AGAGTTCACGAAATTTTAAATAAACCAAACAAAACCAATCACTTATTTACAACTTTTAGTCTTCC
* * * *
94557868 ATCCAGTATGTATC-AACCATGGAATCA-GCAAATACAATATT
66 TTTCAGAATGTATCAAACCATGGAAT-ATGCAAATACAATATC
* * * * *
94557909 ATAGTTCACGAAATTTTAAATAAACCAAGC-AAACCCATCACTTATTCACAACTTTTAGTCTTTC
1 AGAGTTCACGAAATTTTAAATAAACCAAACAAAACCAATCACTTATTTACAACTTTTAGTCTTCC
94557973 TTTCAGAATGTATC
66 TTTCAGAATGTATC
94557987 GGCCATGTAG
Statistics
Matches: 153, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
104 18 0.12
105 66 0.43
106 20 0.13
108 49 0.32
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (107 bp):
AGAGTTCACGAAATTTTAAATAAACCAAACAAAACCAATCACTTATTTACAACTTTTAGTCTTCC
TTTCAGAATGTATCAAACCATGGAATATGCAAATACAATATC
Found at i:94570566 original size:21 final size:21
Alignment explanation
Indices: 94570542--94570584 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
94570532 TTGCTTTTTG
*
94570542 CCTTTAAACCTTTGTTTTATA
1 CCTTTAAACCCTTGTTTTATA
94570563 CCTTTAAACCCTTGTTTTATA
1 CCTTTAAACCCTTGTTTTATA
94570584 C
1 C
94570585 TTTTTGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (21 bp):
CCTTTAAACCCTTGTTTTATA
Found at i:94573729 original size:30 final size:30
Alignment explanation
Indices: 94573695--94573755 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
94573685 ATCAACAACT
94573695 AGAATTATATAGTAATATTTTATGAAA-CAC
1 AGAATTATATAGTAATATTTTA-GAAAGCAC
*
94573725 AGAATTATATGGTAATATTTTAGAAAGCAC
1 AGAATTATATAGTAATATTTTAGAAAGCAC
94573755 A
1 A
94573756 TTTGTTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (30 bp):
AGAATTATATAGTAATATTTTAGAAAGCAC
Found at i:94577026 original size:48 final size:48
Alignment explanation
Indices: 94576892--94577030 Score: 188
Period size: 48 Copynumber: 2.9 Consensus size: 48
94576882 GGGGTTACAT
* ** * *
94576892 TGAGTTGGCTTCGGGCCATAATATTGGCACTTAGGGTGCAAGATTTAT
1 TGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGTGAGATTCAC
* *
94576940 TGGGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGAGATTCAC
1 TGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGTGAGATTCAC
** *
94576988 TGAGTTTTCTTCGGGCCATGATATTAGCACTTAGGGTGTGAGA
1 TGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGTGAGA
94577031 CTTTGAAGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (48 bp):
TGAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGTGAGATTCAC
Found at i:94582225 original size:140 final size:140
Alignment explanation
Indices: 94581973--94582405 Score: 677
Period size: 140 Copynumber: 3.1 Consensus size: 140
94581963 CAAAACAGTG
* * *
94581973 CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGCTGGGATAGACTGACCAACATATGCTTT
1 CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAACATACGCTTT
*
94582038 GGCCAACTCTTTGTATAAAGGTTGGGATATGCATGACTAAGGCAACACTTAAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAGGCAACACTTAAATAAGAGTTGGCT
94582103 TTGTCTAGTC
131 TTGTCTAGTC
*
94582113 CTAAGACGACACTTATGGGGCGACACTTTTCTAAGTGTTGGGATAGACTGGCCAACATACGCTTT
1 CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAACATACGCTTT
*
94582178 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAGGAAACACTTAAATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAGGCAACACTTAAATAAGAGTTGGCT
94582243 TTGTCTAGTC
131 TTGTCTAGTC
* * * * * *
94582253 CTAAGACGACACTTTTAGGGCGGCACTTTCCTAAGTGTTGGGATAGAGTTGCGAACATACGCTTT
1 CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAACATACGCTTT
* * * * * **
94582318 GGCCAACTCTTTGTATAAGAGTTGGGATATGTATGCCTAAGGCAACGCCTGTATAAGAGTTGGCT
66 GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAGGCAACACTTAAATAAGAGTTGGC-
*
94582383 TTTGTGTAGTC
130 TTTGTCTAGTC
94582394 CTAAGACGACAC
1 CTAAGACGACAC
94582406 ATTGGGATAG
Statistics
Matches: 270, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
140 248 0.92
141 22 0.08
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (140 bp):
CTAAGACGACACTTATGGGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAACATACGCTTT
GGCCAACTCTTTGTATAAGGGTTGGGATATGCATGACTAAGGCAACACTTAAATAAGAGTTGGCT
TTGTCTAGTC
Found at i:94582464 original size:117 final size:117
Alignment explanation
Indices: 94582290--94582521 Score: 340
Period size: 117 Copynumber: 2.0 Consensus size: 117
94582280 TTCCTAAGTG
* * * * *
94582290 TTGGGATAGAGTTGCGAACATACGCTTTGGCCAACTCTTTGTATAAGAGTTGGGATATGTATGCC
1 TTGGGATAGACTTGCCAACATACGCTTTGGACAACTCTTTGCATAAGAGTTGAGATATGTATGCC
** ** *
94582355 TAAGGCAACGCCTGTATAAGAGTTGGCTTTTGTGTAGTCCTAAGACGACACA
66 TAAAACAACGCCTAAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACA
*
94582407 TTGGGATAGACTTGCCAACATACGCTTTGGACAACTCTTTGCGTAAG-GTTTGAGATATGTATGC
1 TTGGGATAGACTTGCCAACATACGCTTTGGACAACTCTTTGCATAAGAG-TTGAGATATGTATGC
*
94582471 CTAAAACAACGCTTAAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACA
65 CTAAAACAACGCCTAAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACA
94582522 ATTTTGGGGT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 1 0.01
117 101 0.99
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (117 bp):
TTGGGATAGACTTGCCAACATACGCTTTGGACAACTCTTTGCATAAGAGTTGAGATATGTATGCC
TAAAACAACGCCTAAATAAGAGTTGGCTTTTGTCTAGTCCTAAGACGACACA
Found at i:94582768 original size:125 final size:126
Alignment explanation
Indices: 94582537--94582773 Score: 316
Period size: 125 Copynumber: 1.9 Consensus size: 126
94582527 GGGGTGACAC
* * * *
94582537 TTTCCTAAGTGTTGTGATAGACTTGTCAACATATGCTCTAGCCAACTCTTTGTATAAAGGTTGAG
1 TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTCTAGCCAACTCTTTGTATAAAGGTTGAG
*
94582602 GTATGCATACCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGACAATAT
66 GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCTAGTCCTAAGACAATAT
* * * * * *
94582663 TTTCCTAA-TGTTGGGACAGACTTGCCGACATACGCTTTGGTCAACTTTTTGTATAAGGGTTG-G
1 TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTCTAGCCAACTCTTTGTATAAAGGTTGAG
* * * *
94582726 GATATGCATGCTTAAGGTAATGCTTAAATAAGAGTCGGCTTTGTCTAG
66 G-TATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCTAG
94582774 CACTATGCCT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
124 2 0.02
125 85 0.89
126 8 0.08
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (126 bp):
TTTCCTAAGTGTTGGGACAGACTTGCCAACATACGCTCTAGCCAACTCTTTGTATAAAGGTTGAG
GTATGCATACCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCTAGTCCTAAGACAATAT
Found at i:94582924 original size:7 final size:7
Alignment explanation
Indices: 94582882--94582960 Score: 59
Period size: 7 Copynumber: 11.0 Consensus size: 7
94582872 CATGCCTAAG
94582882 GGGTTTA
1 GGGTTTA
*
94582889 GGATTTTA
1 GG-GTTTA
*
94582897 TGGTTTTA
1 -GGGTTTA
*
94582905 TGGTTTA
1 GGGTTTA
**
94582912 TAGTTTA
1 GGGTTTA
94582919 GGGTTTA
1 GGGTTTA
94582926 GGGTTTA
1 GGGTTTA
*
94582933 AGGTTTA
1 GGGTTTA
*
94582940 GTGTTTA
1 GGGTTTA
* *
94582947 TGATTTA
1 GGGTTTA
94582954 GGGTTTA
1 GGGTTTA
94582961 AGAATTAGCT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
7 45 0.80
8 9 0.16
9 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (7 bp):
GGGTTTA
Found at i:94582968 original size:14 final size:14
Alignment explanation
Indices: 94582922--94582968 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
94582912 TAGTTTAGGG
*
94582922 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGA
* *
94582936 TTTAGTGTTTATGA
1 TTTAGGGTTTAAGA
94582950 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGA
*
94582964 ATTAG
1 TTTAG
94582969 CTTTGTCCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAAGA
Found at i:94583907 original size:31 final size:31
Alignment explanation
Indices: 94583867--94583941 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
94583857 TATTTTAATT
* *
94583867 AAATCTAATTCTTAAT-CTTTTAAAAAGAGTG
1 AAATCTAATTATT-ATCCTTTTAAAAAAAGTG
* *
94583898 AAATTTAATTATTATCCTTTTAAAAAAAGTT
1 AAATCTAATTATTATCCTTTTAAAAAAAGTG
94583929 AAATC--ATTATTAT
1 AAATCTAATTATTAT
94583942 TTTAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 8 0.21
30 2 0.05
31 28 0.74
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (31 bp):
AAATCTAATTATTATCCTTTTAAAAAAAGTG
Found at i:94595416 original size:13 final size:13
Alignment explanation
Indices: 94595398--94595424 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94595388 TAAATATGCA
94595398 AGTTATTTTTAAG
1 AGTTATTTTTAAG
94595411 AGTTATTTTTAAG
1 AGTTATTTTTAAG
94595424 A
1 A
94595425 TTTACATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTATTTTTAAG
Found at i:94597296 original size:17 final size:17
Alignment explanation
Indices: 94597274--94597306 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
94597264 TATTACCTTA
94597274 TGCTGGTATTTATTCTC
1 TGCTGGTATTTATTCTC
94597291 TGCTGGTATTTATTCT
1 TGCTGGTATTTATTCT
94597307 TTCTTTGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.15, G:0.18, T:0.55
Consensus pattern (17 bp):
TGCTGGTATTTATTCTC
Found at i:94597321 original size:18 final size:18
Alignment explanation
Indices: 94597294--94597328 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94597284 TATTCTCTGC
*
94597294 TGGTATTTATTCTTTCTT
1 TGGTACTTATTCTTTCTT
94597312 TGGTACTTATTCTTTCT
1 TGGTACTTATTCTTTCT
94597329 CTGATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.63
Consensus pattern (18 bp):
TGGTACTTATTCTTTCTT
Found at i:94600899 original size:2 final size:2
Alignment explanation
Indices: 94600892--94600932 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94600882 TATTATGTAT
94600892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94600933 GTTATAGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:94601133 original size:75 final size:75
Alignment explanation
Indices: 94600994--94601179 Score: 257
Period size: 75 Copynumber: 2.5 Consensus size: 75
94600984 AATCAAGTCG
* * *
94600994 ACAACTTGTTGACTGCTTCTATTAGGATTTTGTATAATTTTTTGATATTATGGGAATCAAGTTGA
1 ACAACTTGTTGACTGCTTCTATTAGGATTTTGTATAATTTTTTGACATCATGGAAATCAAGTTGA
*
94601059 CAACATGTTT
66 CAACATGTTC
* * * * * *
94601069 GCAACGTGTTGACTGCTTCTACTAGGATTTTGTATAATTTTTTTACGTCATGTGAAAT-AGGTTG
1 ACAACTTGTTGACTGCTTCTATTAGGATTTTGTATAATTTTTTGACATCATG-GAAATCAAGTTG
94601133 ACAACATGTTC
65 ACAACATGTTC
*
94601144 ACAACTTGTTGACTACTTCTATTAGGATTTTGTATA
1 ACAACTTGTTGACTGCTTCTATTAGGATTTTGTATA
94601180 TAAATTACTA
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 92 0.96
76 4 0.04
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (75 bp):
ACAACTTGTTGACTGCTTCTATTAGGATTTTGTATAATTTTTTGACATCATGGAAATCAAGTTGA
CAACATGTTC
Found at i:94601690 original size:37 final size:37
Alignment explanation
Indices: 94601362--94602084 Score: 497
Period size: 35 Copynumber: 19.7 Consensus size: 37
94601352 ATTAGACATG
* *
94601362 AGACAAAGATCTATCCCAACC-TTTTT-AAGTTTGTCTT
1 AGAC-AAG-TCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
94601399 AGACGAGTTTA-CCCTAA-CTTTTTT-AAGGTTGCCTT
1 AGACAAGTCTATCCC-AACCTTTTTTAAAGGTTGCCTT
*** * *
94601434 AGATGGGTTTATCCCAA-ATTTTTT-AA-GTTGCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * * *
94601468 CGAAAAGGTCTATCCCAACC-TTTTT-AGGGTT-ACTGT
1 AGACAA-GTCTATCCCAACCTTTTTTAAAGGTTGCCT-T
* ** * * * *
94601504 AAACGGGTTTATCCCAA-CATTTTT-AATGTTGTCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * * * ** *
94601539 AAACAGGTCAATCCCAACCTTTTCTAAAATTTTCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
*
94601576 AGACAAGATCTATCCCAACC-TTTTT-AAGGTTACCTT
1 AGACAAG-TCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * * *
94601612 AGATGAA-TCTATCTCAAAC-TTTTT-AAGGTTGCATT
1 AGA-CAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
94601647 AAACAAGTCTATCCCAACCTTTTTTTAAGGTTGCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * * * *
94601684 TGACAAGGTCTGTCCTAACATTTTTAAAAGGTTGCCTT
1 AGACAA-GTCTATCCCAACCTTTTTTAAAGGTTGCCTT
*
94601722 AGACAGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
94601759 AGACAAGGTCTAT-CCAAACTATTTTAAAAGGTTGCCTT
1 AGACAA-GTCTATCCCAACCT-TTTTTAAAGGTTGCCTT
* * *
94601797 AGATAAGGTCTATCCCACCCTTTTTTTAAAGGTTACCTT
1 AGACAA-GTCTATCCCAACC-TTTTTTAAAGGTTGCCTT
* * * * *
94601836 AGACAAGGTTTATACCAACC-TATTT-AATGTTGCGTT
1 AGACAA-GTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * *
94601872 AGACGATTCTATCCCAATCTTTTTTAAAGGTTGCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* * ** * *
94601909 AGATAAGGTTTATCGTAACTTTTTTTAAATGTTGCCTT
1 AGACAA-GTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* **
94601947 AGATAAGGTCTATCCCAA-CTTTTTTAAAAGGTTATCTT
1 AGACAA-GTCTATCCCAACCTTTTTT-AAAGGTTGCCTT
** *
94601985 AGACTGGTCTATCCCAACC-TTTTT-AAGGTTGTCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
94602020 AGACAAGTCTATCCCAACCTTGTTCAAAGGTTGGCCTT
1 AGACAAGTCTATCCCAACCTTTTTTAAAGGTT-GCCTT
*
94602058 -GACTAGGTCTATCCCAACCTTTTTTAA
1 AGAC-AAGTCTATCCCAACCTTTTTTAA
94602085 TGGTCGGCAT
Statistics
Matches: 541, Mismatches: 115, Indels: 59
0.76 0.16 0.08
Matches are distributed among these distances:
34 17 0.03
35 162 0.30
36 53 0.10
37 122 0.23
38 151 0.28
39 35 0.06
40 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (37 bp):
AGACAAGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
Found at i:94601717 original size:38 final size:37
Alignment explanation
Indices: 94601362--94602081 Score: 424
Period size: 38 Copynumber: 19.6 Consensus size: 37
94601352 ATTAGACATG
* * *
94601362 AGACAAAGATCTATCCCAACCTTTTT--AAGTTTGTCTT
1 AGAC-AAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* * *
94601399 AGACGA-GTTTA-CCCTAACTTTTT-TAAGGTTGCCTT
1 AGACAAGGTCTATCCC-AACTTTTTAAAAGGTTGCCTT
** * * *
94601434 AGA-TGGGTTTATCCCAAATTTTT-TAA-GTTGCCTT
1 AGACAAGGTCTATCCCAACTTTTTAAAAGGTTGCCTT
* * * *
94601468 CGAAAAGGTCTATCCCAACCTTTTT--AGGGTT-ACTGT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCT-T
* * * * *
94601504 AAAC-GGGTTTATCCCAACATTTTT--AATGTTGTCTT
1 AGACAAGGTCTATCCCAAC-TTTTTAAAAGGTTGCCTT
* * * *
94601539 AAAC-AGGTCAATCCCAACCTTTTCTAAAA-TTTTCCTT
1 AGACAAGGTCTATCCCAA-CTTTT-TAAAAGGTTGCCTT
* *
94601576 AGACAAGATCTATCCCAACCTTTTT--AAGGTTACCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* * *
94601612 AGATGAA--TCTATCTCAAACTTTTT--AAGGTTGCATT
1 AGA-CAAGGTCTATC-CCAACTTTTTAAAAGGTTGCCTT
* **
94601647 AAACAA-GTCTATCCCAACCTTTTTTTAAGGTTGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* * *
94601684 TGACAAGGTCTGTCCTAACATTTTTAAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAAC-TTTTTAAAAGGTTGCCTT
*
94601722 AGAC-AGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
*
94601759 AGACAAGGTCTATCCAAACTATTTTAAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAACT-TTTTAAAAGGTTGCCTT
* * * *
94601797 AGATAAGGTCTATCCCACCCTTTTTTTAAAGGTTACCTT
1 AGACAAGGTCTATCCCA-AC-TTTTTAAAAGGTTGCCTT
* * * * *
94601836 AGACAAGGTTTATACCAACCTATTT--AATGTTGCGTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* * *
94601872 AGACGA-TTCTATCCCAATCTTTTTTAAAGGTTGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* * ** * *
94601909 AGATAAGGTTTATCGTAACTTTTTTTAAATGTTGCCTT
1 AGACAAGGTCTATCCCAAC-TTTTTAAAAGGTTGCCTT
* **
94601947 AGATAAGGTCTATCCCAACTTTTTTAAAAGGTTATCTT
1 AGACAAGGTCTATCCCAAC-TTTTTAAAAGGTTGCCTT
* *
94601985 AGAC-TGGTCTATCCCAACCTTTTT--AAGGTTGTCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTTGCCTT
* *
94602020 AGACAA-GTCTATCCCAACCTTGTTCAAAGGTTGGCCTT
1 AGACAAGGTCTATCCCAA-CTTTTTAAAAGGTT-GCCTT
*
94602058 -GACTAGGTCTATCCCAACCTTTTT
1 AGACAAGGTCTATCCCAA-CTTTTT
94602082 TAATGGTCGG
Statistics
Matches: 546, Mismatches: 97, Indels: 79
0.76 0.13 0.11
Matches are distributed among these distances:
34 25 0.05
35 166 0.30
36 43 0.08
37 105 0.19
38 175 0.32
39 31 0.06
40 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
AGACAAGGTCTATCCCAACTTTTTAAAAGGTTGCCTT
Found at i:94601732 original size:75 final size:74
Alignment explanation
Indices: 94601371--94602081 Score: 545
Period size: 73 Copynumber: 9.7 Consensus size: 74
94601361 GAGACAAAGA
* * * * *
94601371 TCTATCCCAACC-TTTTT-AAGTTTGTCTTAGACGA-GTTTA-CCCTAA-CTTTTTTAAGGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCC-AACCTTTTTAAAGGTTGC
**
94601431 CTTAGATGGG
65 CTTAGACAGG
* * * * * *
94601441 TTTATCCCAA-ATTTTTT-AA-GTTGCCTTCGAAAAGGTCTATCCCAACCTTTTT-AGGGTT-AC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCC
* *
94601501 TGTAAACGGG
66 T-TAGACAGG
* * * * * * ** *
94601511 TTTATCCCAA-CATTTTT-AATGTTGTCTTAAAC-AGGTCAATCCCAACCTTTTCTAAAATTTTC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTT-TAAAGGTTGC
*
94601573 CTTAGACAAGA
65 CTTAGAC-AGG
* * * *
94601584 TCTATCCCAACC-TTTTT-AAGGTTACCTTAGATGAA--TCTATCTCAAACTTTTT-AAGGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGA-CAAGGTCTATCCCAACCTTTTTAAAGGTTGC
* * *
94601644 ATTAAACAAG
65 CTTAGACAGG
* * * * *
94601654 TCTATCCCAACCTTTTTTTAAGGTTGCCTTTGACAAGGTCTGTCCTAACATTTTTAAAAGGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTT-AAAGGTTGC
94601719 CTTAGACAGG
65 CTTAGACAGG
*
94601729 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTAT-CCAAACTATTTTAAAAGGTTG
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCT-TTTT-AAAGGTTG
*
94601793 CCTTAGATAAGG
64 CCTTAGA-CAGG
* * * * * *
94601805 TCTATCCCACCCTTTTTTTAAAGGTTACCTTAGACAAGGTTTATACCAACCTATTT-AATGTTGC
1 TCTATCCCAACC-TTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGC
* *
94601869 GTTAGAC-GAT
65 CTTAGACAG-G
* * * ** * *
94601879 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGATAAGGTTTATCGTAACTTTTTTTAAATGTTGC
1 TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAC-CTTTTTAAAGGTTGC
*
94601944 CTTAGATAAGG
65 CTTAGA-CAGG
** * *
94601955 TCTATCCCAA-CTTTTTTAAAAGGTTATCTTAGAC-TGGTCTATCCCAACCTTTTT-AAGGTTGT
1 TCTATCCCAACCTTTTTT-AAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGC
*
94602017 CTTAGACAAG
65 CTTAGACAGG
* * *
94602027 TCTATCCCAACCTTGTTCAAAGGTTGGCCTT-GACTAGGTCTATCCCAACCTTTTT
1 TCTATCCCAACCTTTTTTAAAGGTT-GCCTTAGACAAGGTCTATCCCAACCTTTTT
94602082 TAATGGTCGG
Statistics
Matches: 511, Mismatches: 98, Indels: 61
0.76 0.15 0.09
Matches are distributed among these distances:
69 11 0.02
70 81 0.16
71 35 0.07
72 42 0.08
73 124 0.24
74 24 0.05
75 118 0.23
76 37 0.07
77 33 0.06
78 6 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (74 bp):
TCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTAAAGGTTGCC
TTAGACAGG
Found at i:94603018 original size:35 final size:33
Alignment explanation
Indices: 94602959--94603023 Score: 94
Period size: 35 Copynumber: 1.9 Consensus size: 33
94602949 GAAAATATAT
*
94602959 TATATAAATTTATATTTAAAAAATAATAATTCA
1 TATATAAATTTACATTTAAAAAATAATAATTCA
*
94602992 TATATAAAATTTACATTTTAAGAAATAATAAT
1 TATAT-AAATTTACA-TTTAAAAAATAATAAT
94603024 ATTTAGAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.18
34 8 0.29
35 15 0.54
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (33 bp):
TATATAAATTTACATTTAAAAAATAATAATTCA
Found at i:94611490 original size:864 final size:863
Alignment explanation
Indices: 94609823--94611549 Score: 3220
Period size: 864 Copynumber: 2.0 Consensus size: 863
94609813 TTTCCCGACA
94609823 TGTGAAGTTTGATGAAACGTGTTTTCCTTTTTCTGCCCGCTCGAACAATGGTTCTGCTCTCCATG
1 TGTGAAGTTTGATGAAACGTGTTTTCCTTTTTCTGCCCGCTCGAACAATGGTTCTGCTCTCCATG
*
94609888 GGATTCGCCCTCATTTTTTGCATCAACAAACTCATGTCCCAATACTGGTGCCTGCTGTTCGCCTA
66 GGATTCGCCCTCATTTTTTGCATCAACAAACTCATGTCCCAATACTGGTGCCTGCTGATCGCCTA
* * *
94609953 CAAGTCTGGTTACTTCTACTCCATCTGTTGCTTGTAATTCTCCTGCCTTGCAGCCTGGATTCACT
131 CAAGTCTGGTTACCTCTACTCCATCTGTTGCTTGTAATTCACCTACCTTGCAGCCTGGATTCACT
*
94610018 GGTGCTTCTGTTTCAACTGATGAAGCTAGTTGTAGTCGTTCTGCCTCTTTGTCTACATCACATTC
196 GGTGCTTCTGTTTCAACTGATGAAGCTAGTTGCAGTCGTTCTGCCTCTTTGTCTACATCACATTC
94610083 TTCTCCAGCTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTGATTATTCTC
261 TTCTCCAGCTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTGATTATTCTC
94610148 CAGCTGCTGCATGTTCAGATTCCCATTCAGCTCCTGGCAGTACTCAGGTTGTGGAGGAGGTGGCT
326 CAGCTGCTGCATGTTCAGATTCCCATTCAGCTCCTGGCAGTACTCAGGTTGTGGAGGAGGTGGCT
94610213 ACTCCTCTTTTCAATGCATCCTATGCAAACCAGGGCCAAAAGTGGCACTTTCAAACCTCGTATTT
391 ACTCCTCTTTTCAATGCATCCTATGCAAACCAGGGCCAAAAGTGGCACTTTCAAACCTCGTATTT
* *
94610278 TTTCAGCTGAACTGCATGATACTGAACCTGTCACAATTGCTGAGGCCTTTTCTTCCAAGGAGTGG
456 TTTCAGCTGAACTGCATGATACTAAACCTGTCACAATTGCTGAGGCATTTTCTTCCAAGGAGTGG
94610343 ACTCTTGCTGCCCAACTGGAATATGATGCTTTGATGGAAAACAATACATGAGATTTGGTTCTTCT
521 ACTCTTGCTGCCCAACTGGAATATGATGCTTTGATGGAAAACAATACATGAGATTTGGTTCTTCT
*
94610408 CCCTGCCAATAGGCGAGCAGTGGGGTGTAAGTGGATATTCAAGCTTAAGCGTCATTCGGATGGGT
586 CCCTGCCAATAGGCGAGCAGTGGGGTGTAAGTGGATATTCAAGCTTAAGCGTCATTCGGATAGGT
* *
94610473 CTATTGCTTGGTATAAGGGTCGTTTAGTGGTCAAAGGTTATCTTCAGGAAGCTGGAATCGACTTC
651 CTATTGCTCGGTATAAGGGTCATTTAGTGGTCAAAGGTTATCTTCAGGAAGCTGGAATCGACTTC
94610538 CATGAAACTTTCAGCCCCGTTGTTAAACCAGCCACAATTCGTGTTGTTCTAGCTTTAGCAGTGAA
716 CATGAAACTTTCAGCCCCGTTGTTAAACCAGCCACAATTCGTGTTGTTCTAGCTTTAGCAGTGAA
* *
94610603 GTTTGGCTGGCCGTTACGACAAATTGACATCAATAATGCCTTTCTTAACGGTGACTTAATTGAGG
781 GTTTGGCTGGCCGTTACGACAAATTGACATCAATAATGCCTTTCTTAACGGTGACTTAACTGAAG
94610668 AGATCTACATGGTCCAAC
846 AGATCTACATGGTCCAAC
* *
94610686 TGTGAAGTTTGATGAAACGTGTTTTCCTTTTTTTGCTCGCTCGAACAATGGTTCTGCTCTCCATG
1 TGTGAAGTTTGATGAAACGTGTTTTCCTTTTTCTGCCCGCTCGAACAATGGTTCTGCTCTCCATG
94610751 GGATTCGCCCTCATTTTTTGCATCAACAAACTCATGTCCCAATACTGGTGCCTGCTGATCGGCCT
66 GGATTCGCCCTCATTTTTTGCATCAACAAACTCATGTCCCAATACTGGTGCCTGCTGATC-GCCT
* *
94610816 ACAAGTCTGGTTACCTCTACTCCATCTGTTGCTTGTAATTCACCTATCTTGCAGCCTGGATTCAT
130 ACAAGTCTGGTTACCTCTACTCCATCTGTTGCTTGTAATTCACCTACCTTGCAGCCTGGATTCAC
*
94610881 TGGTGCTTCTGTTTCAACTGATGAAGCTAGTTGCAGTCGTTCTGCCTCTTTGTCTACATCATATT
195 TGGTGCTTCTGTTTCAACTGATGAAGCTAGTTGCAGTCGTTCTGCCTCTTTGTCTACATCACATT
94610946 CTTCTCCAGCTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTGATTATTCT
260 CTTCTCCAGCTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTGATTATTCT
*
94611011 CCAGCTGCTGCATGTTCAGATTCCCATTCAGCTCTTGGCAGTACTCAGGTTGTGGAGGAGGTGGC
325 CCAGCTGCTGCATGTTCAGATTCCCATTCAGCTCCTGGCAGTACTCAGGTTGTGGAGGAGGTGGC
* *
94611076 TGCTCCTCTTTTCAATGCATCCTATGCAAACCAGGGCCAAAAGTGGCATTTTCAAACCTCGTATT
390 TACTCCTCTTTTCAATGCATCCTATGCAAACCAGGGCCAAAAGTGGCACTTTCAAACCTCGTATT
94611141 TTTTCAGCTGAACTGCATGATACTAAACCTGTCACAATTGCTGAGGCATTTTCTTCCAAGGAGTG
455 TTTTCAGCTGAACTGCATGATACTAAACCTGTCACAATTGCTGAGGCATTTTCTTCCAAGGAGTG
* *
94611206 GACTCTTGCTGCCCAATTGGAATATGATGCTTTGATGGAAAACAATACATGGGATTTGGTTCTTC
520 GACTCTTGCTGCCCAACTGGAATATGATGCTTTGATGGAAAACAATACATGAGATTTGGTTCTTC
94611271 TCCCTGCCAATAGGCGAGCAGTGGGGTGTAAGTGGATATTCAAGCTTAAGCGTCATTCGGATAGG
585 TCCCTGCCAATAGGCGAGCAGTGGGGTGTAAGTGGATATTCAAGCTTAAGCGTCATTCGGATAGG
94611336 TCTATTGCTCGGTATAAGGGTCATTTAGTGGTCAAAGGTTATCTTCAGGAAGCTGGAATCGACTT
650 TCTATTGCTCGGTATAAGGGTCATTTAGTGGTCAAAGGTTATCTTCAGGAAGCTGGAATCGACTT
94611401 CCATGAAACTTTCAGCCCCGTTGTTAAACCAGCCACAATTCGTGTTGTTCTAGCTTTAGCAGTGA
715 CCATGAAACTTTCAGCCCCGTTGTTAAACCAGCCACAATTCGTGTTGTTCTAGCTTTAGCAGTGA
* *
94611466 AGTTTGGCTGGCCGTTACGACAAATTGACATTAATAATGCCTTTCTTAACGGTGACTTAGCTGAA
780 AGTTTGGCTGGCCGTTACGACAAATTGACATCAATAATGCCTTTCTTAACGGTGACTTAACTGAA
*
94611531 GAGATCTACATGGTTCAAC
845 GAGATCTACATGGTCCAAC
94611550 CCCCTGGCTT
Statistics
Matches: 838, Mismatches: 25, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
863 122 0.15
864 716 0.85
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (863 bp):
TGTGAAGTTTGATGAAACGTGTTTTCCTTTTTCTGCCCGCTCGAACAATGGTTCTGCTCTCCATG
GGATTCGCCCTCATTTTTTGCATCAACAAACTCATGTCCCAATACTGGTGCCTGCTGATCGCCTA
CAAGTCTGGTTACCTCTACTCCATCTGTTGCTTGTAATTCACCTACCTTGCAGCCTGGATTCACT
GGTGCTTCTGTTTCAACTGATGAAGCTAGTTGCAGTCGTTCTGCCTCTTTGTCTACATCACATTC
TTCTCCAGCTGATGCTTGTTCTAATTCCCATTCAGCTCCTGGCAATACTCAGATTGATTATTCTC
CAGCTGCTGCATGTTCAGATTCCCATTCAGCTCCTGGCAGTACTCAGGTTGTGGAGGAGGTGGCT
ACTCCTCTTTTCAATGCATCCTATGCAAACCAGGGCCAAAAGTGGCACTTTCAAACCTCGTATTT
TTTCAGCTGAACTGCATGATACTAAACCTGTCACAATTGCTGAGGCATTTTCTTCCAAGGAGTGG
ACTCTTGCTGCCCAACTGGAATATGATGCTTTGATGGAAAACAATACATGAGATTTGGTTCTTCT
CCCTGCCAATAGGCGAGCAGTGGGGTGTAAGTGGATATTCAAGCTTAAGCGTCATTCGGATAGGT
CTATTGCTCGGTATAAGGGTCATTTAGTGGTCAAAGGTTATCTTCAGGAAGCTGGAATCGACTTC
CATGAAACTTTCAGCCCCGTTGTTAAACCAGCCACAATTCGTGTTGTTCTAGCTTTAGCAGTGAA
GTTTGGCTGGCCGTTACGACAAATTGACATCAATAATGCCTTTCTTAACGGTGACTTAACTGAAG
AGATCTACATGGTCCAAC
Found at i:94620860 original size:48 final size:47
Alignment explanation
Indices: 94620613--94620889 Score: 237
Period size: 48 Copynumber: 5.8 Consensus size: 47
94620603 TAGGGTATAA
* * *
94620613 TGCCGATGCCATGTCCTAGAAATAGTCTTACACTGGCTCATCCATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATG
* * *
94620662 T--CGATGCCATGTCCCAGACATGGTCTTACACCGACTATCGA-AATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAA-TG
* * * * *
94620708 AGGCTGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--G
**
94620759 TGCCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCATCTCAA--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATG
*
94620807 TGCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
* *
94620854 TGGCCGATG-CATGTCACAGGCAT-GTCTTACACTGGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
94620890 ACACAAATAA
Statistics
Matches: 188, Mismatches: 24, Indels: 35
0.76 0.10 0.14
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 16 0.09
47 43 0.23
48 47 0.25
49 35 0.19
50 39 0.21
51 1 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
Found at i:94625586 original size:39 final size:39
Alignment explanation
Indices: 94625527--94625669 Score: 214
Period size: 39 Copynumber: 3.6 Consensus size: 39
94625517 ATCGTGATGT
* *
94625527 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
94625566 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
* * *
94625605 GAAGCCCGAAGGCTACTAATTGAAGTACATAAGTGCTAAACG
1 GAAGCCCGAAGG---CTAACTGAAGCACATAAGTGCTAAATG
94625647 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
94625670 TCATCAGAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
39 58 0.62
42 36 0.38
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAATG
Found at i:94626473 original size:46 final size:46
Alignment explanation
Indices: 94626420--94626512 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
94626410 AAATTTAATT
* *
94626420 ATCTCCTCGTACGGAATACAGATGATGTTCTTATTTGTTTATCTTG
1 ATCTCCTCGTACGGAAAACAGATGATGTTCTCATTTGTTTATCTTG
*
94626466 ATCTCCTCGTACGGAAAACAGATGATGTTCTCATTTTTTTATCTTG
1 ATCTCCTCGTACGGAAAACAGATGATGTTCTCATTTGTTTATCTTG
94626512 A
1 A
94626513 AAATAGACTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (46 bp):
ATCTCCTCGTACGGAAAACAGATGATGTTCTCATTTGTTTATCTTG
Found at i:94636161 original size:46 final size:44
Alignment explanation
Indices: 94636015--94636187 Score: 179
Period size: 47 Copynumber: 3.7 Consensus size: 44
94636005 TTTGTGAGCT
* ** *
94636015 AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTTTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CAGA-GATGAGAGTC
*
94636061 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATGAGA-TCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA--GAGATGAGAGT-C
*
94636109 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-A-GAGATGAGAGTC
94636155 AGTGTAAGACTATGTCTGGGACATGGCAT-GGCA
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA
94636188 CCTTATCCAC
Statistics
Matches: 110, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
46 36 0.33
47 48 0.44
48 25 0.23
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCAGAGATGAGAGTC
Found at i:94636176 original size:94 final size:93
Alignment explanation
Indices: 94636015--94636187 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 93
94636005 TTTGTGAGCT
**
94636015 AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATTTTGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATGATGAGAGCCAGTGTAAGACCATGTCTGG
94636080 GACATGGCATTGGCATTGAGATGAGATCC
66 GACATGGCA-TGGCATTGAGATGAGATCC
* * * * *
94636109 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACTATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-AATGATGAGAGCCAGTGTAAGACCATGTCTG
94636173 GGACATGGCATGGCA
65 GGACATGGCATGGCA
94636188 CCTTATCCAC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 5 0.07
94 65 0.92
95 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCAAATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATGGCATTGAGATGAGATCC
Found at i:94639291 original size:13 final size:11
Alignment explanation
Indices: 94639257--94639295 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
94639247 AAAGAAATAA
94639257 TAAATAT-GTT
1 TAAATATAGTT
94639267 TAAATATAGTT
1 TAAATATAGTT
94639278 TACAATAGTAGTT
1 TA-AATA-TAGTT
94639291 TAAAT
1 TAAAT
94639296 TTCTATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.27
11 5 0.19
12 7 0.27
13 7 0.27
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (11 bp):
TAAATATAGTT
Found at i:94639728 original size:79 final size:79
Alignment explanation
Indices: 94639627--94639796 Score: 186
Period size: 82 Copynumber: 2.1 Consensus size: 79
94639617 TTGAAAACAT
94639627 CCATTCAAACATGAAATCTGTTAGCTCA-TTCTTTTCAC-TAGCAAATAAAATT-AAGACTAACA
1 CCATTCAAACATGAAATCTGTTAGCTCATTTCTTTTCACTTA-CAAATAAAATTGAA-ACTAACA
94639689 TACAAAGCTGC-AATTAG
64 TAC-AAGCT-CAAATTAG
** * * * *
94639706 CCATTCAAACATGAGCTTTGTTAGTTCATTTTTTTTTTCACTTACAAATAAGATTGAAACTAACA
1 CCATTCAAACATGAAATCTGTTAGCTCA--TTTCTTTTCACTTACAAATAAAATTGAAACTAACA
*
94639771 TACAAGGTCATAATTAG
64 TACAAGCTCA-AATTAG
94639788 CCATTCAAA
1 CCATTCAAA
94639797 ATGTAACAGT
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
79 24 0.31
80 1 0.01
81 4 0.05
82 44 0.57
83 4 0.05
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (79 bp):
CCATTCAAACATGAAATCTGTTAGCTCATTTCTTTTCACTTACAAATAAAATTGAAACTAACATA
CAAGCTCAAATTAG
Found at i:94641095 original size:44 final size:43
Alignment explanation
Indices: 94641031--94641189 Score: 150
Period size: 43 Copynumber: 3.7 Consensus size: 43
94641021 TATGTGAAAT
*
94641031 CGTGTAAGACCACGTTTAGGACGTTGGCATC-AATTTGGTATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGAATTT-G-ATTTA
* *
94641075 CGTGTAAGACCACGTCTAGGATGTTGG-AGTCGTATTTGATTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCA-TCGAATTTGATTTA
* *
94641117 CGTGTAAG-CCCCTGTCTAGGACAG-TGGTATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTAGGAC-GTTGGCATCGA-ATTTGATTTA
* * *
94641160 CATGTAAGACCACGTTTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTAGGACGTTGGCAT
94641190 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
41 3 0.03
42 25 0.26
43 32 0.34
44 31 0.33
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGAATTTGATTTA
Found at i:94655162 original size:40 final size:40
Alignment explanation
Indices: 94655103--94655310 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
94655093 CGGAATACAA
* * *
94655103 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
94655143 CCGGATAAAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
94655183 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
94655223 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
94655263 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
94655303 CCGGATAT
1 CCGGATAT
94655311 CATTCAATTG
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 137 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:94655243 original size:80 final size:80
Alignment explanation
Indices: 94655103--94655309 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
94655093 CGGAATACAA
* * * *
94655103 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGCCCGGATAAAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAACGACTAGCACAAATG
*
94655168 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * ** *
94655183 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AAAACGACTAGCACAAAT
*
94655247 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
94655263 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
94655310 TCATTCAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 104 0.98
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:94659397 original size:31 final size:31
Alignment explanation
Indices: 94659359--94659434 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
94659349 AAAACAGGGT
*
94659359 ACACGCCCGTGTGGGTAGGCCGTGTGATTCC
1 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
94659390 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
1 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
*
94659421 ACATGCCCGTGTGG
1 ACACGCCCGTGTGG
94659435 CATGGGACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.29, G:0.34, T:0.22
Consensus pattern (31 bp):
ACACGCCCGTGTGGGTAGGCCATGTGATTCC
Found at i:94660687 original size:43 final size:45
Alignment explanation
Indices: 94660640--94660762 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 45
94660630 CAATGTTTAG
94660640 CGATGCATGTCCCAGACATGTCTTACACTGGCTA-CGTCTCAA-C
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTACCGTCTCAAGC
* *
94660683 CGATGTATGT-CCAGACATGTCTTACACTAGC-ACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTAC-CGTCTCAA-GC
*
94660728 CGATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
94660763 CTCATAATGT
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 20 0.30
43 17 0.25
45 6 0.09
46 4 0.06
47 7 0.10
48 12 0.18
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTACCGTCTCAAGC
Found at i:94660766 original size:43 final size:39
Alignment explanation
Indices: 94660640--94660766 Score: 112
Period size: 43 Copynumber: 2.9 Consensus size: 39
94660630 CAATGTTTAG
94660640 CGATGCATGTCCCAGACATGTCTTACACTGGCTACGTCTCAAC
1 CGATGCATGT-CCAGACATGTCTTACACTGG---CGTCTCAAC
* *
94660683 CGATGTATGTCCAGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCAGACATGTCTTACACT-G---GCGTCTCAA--C
94660728 CGATGCCATGTCCTAGACATGGTCTTACACTGGC-TCTCA
1 CGATG-CATGTCC-AGACAT-GTCTTACACTGGCGTCTCA
94660767 TAATGTTGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
42 18 0.25
43 23 0.32
44 1 0.01
45 6 0.08
46 6 0.08
47 7 0.10
48 10 0.14
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (39 bp):
CGATGCATGTCCAGACATGTCTTACACTGGCGTCTCAAC
Found at i:94663076 original size:39 final size:40
Alignment explanation
Indices: 94663018--94663118 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
94663008 AAATTGAATG
* *
94663018 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
94663057 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
94663097 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
94663119 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:94663111 original size:40 final size:40
Alignment explanation
Indices: 94663018--94663199 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
94663008 AAATTGAATG
* * * * *
94663018 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
94663057 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
94663097 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
94663137 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
94663177 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
94663200 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:94671284 original size:40 final size:39
Alignment explanation
Indices: 94671116--94671286 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
94671106 AGAAATTGAA
* *
94671116 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
94671156 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
94671196 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
94671236 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
94671276 TGATATCCGGG
1 TGATATCCGGG
94671287 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:94688572 original size:30 final size:30
Alignment explanation
Indices: 94688538--94688598 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
94688528 TTCCTGAGCC
94688538 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
94688568 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
94688598 T
1 T
94688599 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:94689383 original size:67 final size:64
Alignment explanation
Indices: 94689264--94689413 Score: 160
Period size: 67 Copynumber: 2.3 Consensus size: 64
94689254 ATACAGATAG
* * * *
94689264 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
94689329 TA
63 TA
* * * **
94689331 TGATGTAGCTAGGTCGCATGGGTGAT-CTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
94689394 A
64 A
94689395 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
94689414 TGTAGTACTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 18 0.25
64 3 0.04
65 2 0.03
67 28 0.39
68 21 0.29
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:94689533 original size:50 final size:49
Alignment explanation
Indices: 94689403--94689587 Score: 237
Period size: 50 Copynumber: 3.7 Consensus size: 49
94689393 TATATGTAGC
* * *
94689403 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAA-T
* * *
94689454 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATAAT
* *
94689504 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGATAAT
* *
94689554 T-GGTCGCATGTGTTGTACTAAGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
94689588 TGCGTACCAG
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 31 0.26
50 47 0.39
51 42 0.35
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATAAT
Found at i:94702658 original size:40 final size:40
Alignment explanation
Indices: 94702599--94702806 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
94702589 CGGAATACAA
* * *
94702599 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
94702639 CCGGATAAAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
*
94702679 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
94702719 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
94702759 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
94702799 CCGGATAT
1 CCGGATAT
94702807 CATTCAATTG
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 137 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:94702739 original size:80 final size:80
Alignment explanation
Indices: 94702599--94702805 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
94702589 CGGAATACAA
* * * *
94702599 CCGGATATAACCACATGCACGAATGCCTTTGGGTCTTAGCCCGGATAAAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAACGACTAGCACAAATG
*
94702664 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * ** *
94702679 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AAAACGACTAGCACAAAT
*
94702743 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
94702759 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
94702806 TCATTCAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 104 0.98
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAAAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:94706893 original size:31 final size:31
Alignment explanation
Indices: 94706855--94706930 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
94706845 AAAACAGGGT
*
94706855 ACACGCCCGTGTGGGTAGGCCGTGTGATTCC
1 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
94706886 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
1 ACACGCCCGTGTGGGTAGGCCATGTGATTCC
*
94706917 ACATGCCCGTGTGG
1 ACACGCCCGTGTGG
94706931 CATGGGACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.29, G:0.34, T:0.22
Consensus pattern (31 bp):
ACACGCCCGTGTGGGTAGGCCATGTGATTCC
Found at i:94708192 original size:46 final size:44
Alignment explanation
Indices: 94708140--94708315 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 44
94708130 ACAATGTTTA
94708140 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CGTCTCAAG
* * *
94708186 GCCGATGTATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCGTCTCAAG
*
94708232 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCAT-AATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCGTC-TCAA-G
*
94708278 TTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
94708316 ACACAAGTGA
Statistics
Matches: 113, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
45 4 0.04
46 63 0.56
47 28 0.25
48 18 0.16
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCGTCTCAAG
Found at i:94708268 original size:94 final size:91
Alignment explanation
Indices: 94708003--94708313 Score: 251
Period size: 94 Copynumber: 3.3 Consensus size: 91
94707993 ATGCTAATGC
* * * * * *
94708003 CATGTCCCAAACATGGTCTTACACTGGCTAC-CATCATCGAGGCTGATGTCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTC-TCAATGCCGATG-CATGTCCCAGACAT-
* * * * *
94708067 GTCTTATACTAGCTCTTGAATATCTGTGTCGATG
61 GTCTTACACTGGCTC-T-CATA-ATGTGCCGATG
* * *
94708101 CCATGTCCCAGACATGGTCTTACACAAACACAAT-GT-T-TA-GCCGATGCATGTCCCAGACATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCAC--TCGTCTCAATGCCGATGCATGTCCCAGACATG
94708162 TCTTACACTGGCTTACGTC-TCAA-G-GCCGATG
62 TCTTACACTGGC-T-C-TCAT-AATGTGCCGATG
* *
94708193 TATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG-CATGTCCCAGACAT-GTC
94708258 TTACACTGGCTCTCATAATGTTGCCGATG
64 TTACACTGGCTCTCATAATG-TGCCGATG
94708287 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
94708314 TCACACAAGT
Statistics
Matches: 177, Mismatches: 19, Indels: 37
0.76 0.08 0.16
Matches are distributed among these distances:
88 1 0.01
89 2 0.01
90 14 0.08
91 18 0.10
92 16 0.09
93 15 0.08
94 58 0.33
95 16 0.09
96 8 0.05
97 1 0.01
98 3 0.02
99 24 0.14
100 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCTCTCATAATGTGCCGATG
Found at i:94708296 original size:140 final size:142
Alignment explanation
Indices: 94708003--94708310 Score: 360
Period size: 140 Copynumber: 2.2 Consensus size: 142
94707993 ATGCTAATGC
* * *
94708003 CATGTCCCAAACATGGTCTTACACTGGCTACCATCATCGAGGCTGATGTCATGTCCCAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTACCATCATCAAGGCCGATGTCATGTCCCAGACATGG
* * * ** *
94708068 TCTTATACTAGCTCTTGAATATCTGTGTCGATGCCATGTCCCAGACATGGTCTTACACAAACACA
65 TCTTACACTAGCACTCG-ATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACAAACACA
94708133 ATGTTTAGCCGATG
129 ATGTTTAGCCGATG
*
94708147 CATGTCCCAGACATGTCTTACACTGGCTTA-CGTC-TCAAGGCCGATGT-ATGTCCCAGACAT-G
1 CATGTCCCAGACATGTCTTACACTGGC-TACCATCATCAAGGCCGATGTCATGTCCCAGACATGG
* * ***
94708208 TCTTACACTAGCACTCG-TCTCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC
65 TCTTACACTAGCACTCGATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACA----CAAAC
*
94708272 ATAATG-TT-GCCGATG
126 ACAATGTTTAGCCGATG
94708287 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
94708311 AGCTCACACA
Statistics
Matches: 143, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
138 33 0.23
140 46 0.32
141 15 0.10
142 18 0.13
143 16 0.11
144 15 0.10
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (142 bp):
CATGTCCCAGACATGTCTTACACTGGCTACCATCATCAAGGCCGATGTCATGTCCCAGACATGGT
CTTACACTAGCACTCGATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACAAACACAAT
GTTTAGCCGATG
Found at i:94713732 original size:30 final size:30
Alignment explanation
Indices: 94713696--94713755 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
94713686 TAGCCAACTC
94713696 TAATATGTTGTCTTCTTTACCTTGTTCAAT
1 TAATATGTTGTCTTCTTTACCTTGTTCAAT
*
94713726 TAATATGTTGTCTTCTTTATCTTGTTCAAT
1 TAATATGTTGTCTTCTTTACCTTGTTCAAT
94713756 CCTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (30 bp):
TAATATGTTGTCTTCTTTACCTTGTTCAAT
Found at i:94715636 original size:5 final size:5
Alignment explanation
Indices: 94715626--94715667 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
94715616 AGAAAGTAAT
94715626 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TT
94715668 TATCATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Done.