Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 163 of 316
Found at i:51823219 original size:43 final size:44
Alignment explanation
Indices: 51823171--51823295 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 44
51823161 TATAAAAACT
* *
51823171 AGAATCAAAATGAGAATCAGAATCAGAATCAGAATCAAG-TGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
* * *
51823214 AGAATCAGAATCAGAATCAGAATCAAAATCAAAAT-TAGTTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
* *
51823257 AGAATTAGAATCAGAATCAGTATCAGGTAA-CAGAATCAA
1 AGAATCAGAATCAGAATCAGAATCA-G-AATCAGAATCAA
51823296 AATCAGAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 58 0.85
44 5 0.07
45 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (44 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAAGTTGAC
Found at i:51823233 original size:37 final size:37
Alignment explanation
Indices: 51823183--51823304 Score: 124
Period size: 37 Copynumber: 3.3 Consensus size: 37
51823173 AATCAAAATG
*
51823183 AGAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
* * *
51823220 AGAATCAGAATCAGAATCAAAATCAA--AATTAG-TTGAC
1 AGAATCAGAATCAGAATCAGAATCAAGTAA-CAGAAT--C
* * *
51823257 AGAATTAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
*
51823294 AAAATCAGAAT
1 AGAATCAGAAT
51823305 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 58 0.87
38 2 0.03
39 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:51823471 original size:27 final size:26
Alignment explanation
Indices: 51823423--51823482 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
51823413 GCGAGGCTAC
*
51823423 CAGATATTGTGACGAAGTCACCAGAGA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
51823450 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
51823476 CAGATAT
1 CAGATAT
51823483 ATATACATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51823840 original size:27 final size:27
Alignment explanation
Indices: 51823810--51824066 Score: 309
Period size: 27 Copynumber: 9.5 Consensus size: 27
51823800 AACACCTTAG
* *
51823810 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51823837 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* *
51823864 GGGTAAAATAGTAATTCTGTAAGTCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51823891 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51823918 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
**
51823945 GGGTAAAAGGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51823972 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* **
51823999 GGGTAAAA-CGATAATTCTATAAATTAA
1 GGGTAAAATAG-TAATTCTATAAATCGA
* * *
51824026 GGGTAAAACAATAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51824053 GGGTAAAATTGTAA
1 GGGTAAAATAGTAA
51824067 ATCGAGGGTA
Statistics
Matches: 199, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 198 0.99
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTATAAATCGA
Found at i:51823878 original size:54 final size:53
Alignment explanation
Indices: 51823810--51824157 Score: 368
Period size: 54 Copynumber: 6.6 Consensus size: 53
51823800 AACACCTTAG
*
51823810 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAAC-GTAATTCTATAAATCGA
* * * * * *
51823864 GGGTAAAATAGTAATTCTGTAAGTCGAGGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTATAAATCGA
* * *
51823918 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAAGGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAA-CGTAATTCTATAAATCGA
* * **
51823972 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATTAA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTATAAATCGA
* * *
51824026 GGGTAAAACAATAATTTTATAAATCGAGGGT--AA---AA-T-TGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGTAATTCTATAAATCGA
* * * *
51824072 GGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACG-TAATTCTATAAATCGA
** * * *
51824126 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTA
51824158 TTTCAGTAAT
Statistics
Matches: 248, Mismatches: 36, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
46 35 0.14
47 1 0.00
48 4 0.02
52 4 0.02
53 2 0.01
54 202 0.81
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (53 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGTAATTCTATAAATCGA
Found at i:51823945 original size:81 final size:80
Alignment explanation
Indices: 51823810--51824157 Score: 363
Period size: 81 Copynumber: 4.4 Consensus size: 80
51823800 AACACCTTAG
*
51823810 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA-AG
* *
51823875 TAATTCTGTAAGTCGA
65 TAATTCTATAAATCGA
* * * * * * *
51823891 GGGTAAAATGGTAATTTTGTAAATCGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAAGGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA-AG
51823956 TAATTCTATAAATCGA
65 TAATTCTATAAATCGA
** * *
51823972 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC-GATAATTCTATAAATTAAGGGTAAAACA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAG-TAATTCTATAAATCAAGGGTAAAA-A
* *
51824036 ATAATTTTATAAATCGA
64 GTAATTCTATAAATCGA
* * * *
51824053 GGGT--AA----AA--TTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAAG-
*
51824110 TAATTCTGTAAATCGA
65 TAATTCTATAAATCGA
** * *
51824126 GGGTAATTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTA
51824158 TTTCAGTAAT
Statistics
Matches: 219, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
73 57 0.26
74 1 0.00
75 2 0.01
79 4 0.02
80 1 0.00
81 154 0.70
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (80 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAAGT
AATTCTATAAATCGA
Found at i:51824080 original size:73 final size:73
Alignment explanation
Indices: 51823991--51824131 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 73
51823981 AGTAATTCTA
* *
51823991 TAAATCGAGGGTAAAAC-GATAATTCTATAAATTAAGGGTAAAACAATAATTTTATAAATCGAGG
1 TAAATCGAGGGTAAAACAG-TAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGG
51824055 GTAAAATTG
65 GTAAAATTG
* * * *
51824064 TAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCGAGGG
1 TAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGG
51824129 TAA
66 TAA
51824132 TTTGGTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 60 0.98
74 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (73 bp):
TAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGG
TAAAATTG
Found at i:51824085 original size:19 final size:19
Alignment explanation
Indices: 51824045--51824085 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
51824035 AATAATTTTA
**
51824045 TAAATCGAGGGTAAAATTG
1 TAAATCGAGGGTAAAACAG
51824064 TAAATCGAGGGTAAAACAG
1 TAAATCGAGGGTAAAACAG
51824083 TAA
1 TAA
51824086 TTTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.22
Consensus pattern (19 bp):
TAAATCGAGGGTAAAACAG
Found at i:51824140 original size:27 final size:26
Alignment explanation
Indices: 51824061--51824157 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 26
51824051 GAGGGTAAAA
*
51824061 TTGTAAATCGAGGGTAAAACAGTAATT
1 TTGTAAATCGAGGGTAAAACGGTAA-T
* *
51824088 TTGTAAATCAAGGGTAAAACGATAAT
1 TTGTAAATCGAGGGTAAAACGGTAAT
***
51824114 TCTGTAAATCGAGGGTAATTTGGTAAT
1 T-TGTAAATCGAGGGTAAAACGGTAAT
51824141 TT-TACAAGTCGAGGGTA
1 TTGTA-AA-TCGAGGGTA
51824158 TTTCAGTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.03
26 5 0.08
27 52 0.88
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (26 bp):
TTGTAAATCGAGGGTAAAACGGTAAT
Found at i:51824166 original size:27 final size:27
Alignment explanation
Indices: 51824119--51824303 Score: 169
Period size: 27 Copynumber: 6.9 Consensus size: 27
51824109 ATAATTCTGT
*
51824119 AAATCGAGGGTAATTTGGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
* **
51824146 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTTGGTAATTTTAC
** * * * * *
51824173 AGGTGGAGGGTGTTTTAGTAATTTCAA
1 AAATCGAGGGTATTTTGGTAATTTTAC
*
51824200 AAATC-AGAGGTATTTTGATAATTTTAC
1 AAATCGAG-GGTATTTTGGTAATTTTAC
*
51824227 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTTGGTAATTTTAC
*
51824254 AAATC-AGTGGTATTTTGGTAATTTTAT
1 AAATCGAG-GGTATTTTGGTAATTTTAC
* * *
51824281 AAACCAATGGTATTTTGGTAATT
1 AAATCGAGGGTATTTTGGTAATT
51824304 CTACCCTACA
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
26 4 0.03
27 123 0.95
28 3 0.02
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTTGGTAATTTTAC
Found at i:51824322 original size:27 final size:27
Alignment explanation
Indices: 51824298--51824368 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
51824288 TGGTATTTTG
51824298 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
51824325 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
51824352 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
51824369 ATATGAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:51828623 original size:29 final size:27
Alignment explanation
Indices: 51828605--51828674 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
51828595 ATATTAAGTC
51828605 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
51828632 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
51828660 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51828675 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:51828668 original size:28 final size:28
Alignment explanation
Indices: 51828605--51828702 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51828595 ATATTAAGTC
*
51828605 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51828632 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51828660 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51828689 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51828703 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51836491 original size:27 final size:26
Alignment explanation
Indices: 51836474--51836543 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
51836464 ATATTAAGTC
51836474 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
51836501 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
51836529 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
51836544 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:51836537 original size:28 final size:28
Alignment explanation
Indices: 51836474--51836571 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
51836464 ATATTAAGTC
*
51836474 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
51836501 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51836529 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
51836558 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51836572 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51849780 original size:26 final size:26
Alignment explanation
Indices: 51849751--51849856 Score: 194
Period size: 26 Copynumber: 4.1 Consensus size: 26
51849741 TGATACAAAT
*
51849751 TGATAATGGGATAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51849777 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51849803 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51849829 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51849855 TG
1 TG
51849857 GTGGAATTTC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51853070 original size:12 final size:12
Alignment explanation
Indices: 51853050--51853080 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51853040 TACTCGGGCA
*
51853050 GAGGTCGTGGTC
1 GAGGCCGTGGTC
51853062 GAGGCCGTGGTC
1 GAGGCCGTGGTC
51853074 GAGGCCG
1 GAGGCCG
51853081 CAAGCTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:51856455 original size:26 final size:26
Alignment explanation
Indices: 51856426--51856508 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
51856416 TGATACAAAT
51856426 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51856452 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51856478 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51856504 TGATA
1 TGATA
51856509 GGAATTTCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51860094 original size:17 final size:16
Alignment explanation
Indices: 51860074--51860117 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
51860064 TTAAATAATA
*
51860074 TAATTTTATTTTAAAAT
1 TAATTTTATTGT-AAAT
*
51860091 TAATTATTAATGTAAAT
1 TAATT-TTATTGTAAAT
51860108 TAATTTTATT
1 TAATTTTATT
51860118 CAAGTTGTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 14 0.61
18 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTTATTGTAAAT
Found at i:51860101 original size:29 final size:30
Alignment explanation
Indices: 51860047--51860115 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
51860037 AATTTTATTT
* *
51860047 ATTTATTTTTAAATTTATTAAATAATATAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
* * *
51860077 TTTTATTTTAAAATTAATT-ATTAATGTAA
1 ATTTATTTTAAAATTAATTAAATAATATAA
*
51860106 ATTAATTTTA
1 ATTTATTTTA
51860116 TTCAAGTTGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
ATTTATTTTAAAATTAATTAAATAATATAA
Found at i:51860979 original size:18 final size:18
Alignment explanation
Indices: 51860956--51860991 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51860946 AATTAATATT
*
51860956 TTAATTAAACTAATTAAA
1 TTAATTAAACTAACTAAA
*
51860974 TTAATTAACCTAACTAAA
1 TTAATTAAACTAACTAAA
51860992 CCTAATGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATTAAACTAACTAAA
Found at i:51873229 original size:6 final size:6
Alignment explanation
Indices: 51873215--51873248 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
51873205 AAAAAAATCT
*
51873215 AAATCTA AAAATA AAATTA AAATTA AAATTA AAA
1 AAAT-TA AAATTA AAATTA AAATTA AAATTA AAA
51873249 AACATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 22 0.88
7 3 0.12
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:51873289 original size:9 final size:9
Alignment explanation
Indices: 51873277--51873327 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
51873267 AATAATTTGA
51873277 TTAATTCGG
1 TTAATTCGG
*
51873286 TTAATTTGG
1 TTAATTCGG
* *
51873295 GTAATTCGA
1 TTAATTCGG
*
51873304 TTAATTCGA
1 TTAATTCGG
*
51873313 TTAATTCAG
1 TTAATTCGG
51873322 TTAATT
1 TTAATT
51873328 TTATACTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (9 bp):
TTAATTCGG
Found at i:51873292 original size:18 final size:18
Alignment explanation
Indices: 51873269--51873328 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
51873259 TTTATACAAA
51873269 TAATTTGATTAATTCGGT
1 TAATTTGATTAATTCGGT
** *
51873287 TAATTTGGGTAATTCGAT
1 TAATTTGATTAATTCGGT
* *
51873305 TAATTCGATTAATTCAGT
1 TAATTTGATTAATTCGGT
51873323 TAATTT
1 TAATTT
51873329 TATACTTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (18 bp):
TAATTTGATTAATTCGGT
Found at i:51873326 original size:27 final size:27
Alignment explanation
Indices: 51873269--51873327 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
51873259 TTTATACAAA
* * **
51873269 TAATTTGATTAATTCGGTTAATTTGGG
1 TAATTCGATTAATTCGATTAATTCAGG
*
51873296 TAATTCGATTAATTCGATTAATTCAGT
1 TAATTCGATTAATTCGATTAATTCAGG
51873323 TAATT
1 TAATT
51873328 TTATACTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.47
Consensus pattern (27 bp):
TAATTCGATTAATTCGATTAATTCAGG
Found at i:51881485 original size:21 final size:23
Alignment explanation
Indices: 51881438--51881495 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 23
51881428 GTTTCCTCAT
*
51881438 TATTTATTTCATATTTCAAATTTC
1 TATTTATTT-ATATTTCAAATTAC
*
51881462 TATTTATTT-TA-TTCTAATTAC
1 TATTTATTTATATTTCAAATTAC
51881483 TA-TTATTTA-ATTT
1 TATTTATTTATATTT
51881496 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 2 0.07
24 9 0.30
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (23 bp):
TATTTATTTATATTTCAAATTAC
Found at i:51885264 original size:21 final size:21
Alignment explanation
Indices: 51885229--51885278 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
51885219 CGGTAGACAA
* * *
51885229 ACCGTGTGGCTAAGGGACATG
1 ACCGTGTGGCCAAGGCACACG
*
51885250 ACCGTGTGTCCAAGGCACACG
1 ACCGTGTGGCCAAGGCACACG
*
51885271 CCCGTGTG
1 ACCGTGTG
51885279 AAAATCGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (21 bp):
ACCGTGTGGCCAAGGCACACG
Found at i:51886895 original size:18 final size:18
Alignment explanation
Indices: 51886875--51886938 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
51886865 TAATAACCAT
**
51886875 TTATTCAGTAGCAGTCGT
1 TTATTCAGTAGCAGTCAA
* * *
51886893 TTATTCAGTAACGGTTAA
1 TTATTCAGTAGCAGTCAA
51886911 TTATTCAGTAGCAGTCAA
1 TTATTCAGTAGCAGTCAA
51886929 TTATTCAGTA
1 TTATTCAGTA
51886939 CCTTTATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAGCAGTCAA
Found at i:51888119 original size:19 final size:18
Alignment explanation
Indices: 51888084--51888119 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51888074 TCCTAGTTCT
*
51888084 CCCTTTTCTTTTTCTTTC
1 CCCTTTTCTTCTTCTTTC
51888102 CCCTTTTCTTCCTTCTTT
1 CCCTTTTCTT-CTTCTTT
51888120 TCCCGTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CCCTTTTCTTCTTCTTTC
Found at i:51892715 original size:17 final size:17
Alignment explanation
Indices: 51892690--51892746 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
51892680 ATTATCATAT
*
51892690 AGTAACAACCAATATTC
1 AGTATCAACCAATATTC
*
51892707 AGTATCAACCAGACATTC
1 AGTATCAACCA-ATATTC
*
51892725 AGTAGT-AGTCCAATATTC
1 AGTA-TCA-ACCAATATTC
51892743 AGTA
1 AGTA
51892747 ACAATCAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 10 0.30
18 19 0.58
19 4 0.12
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (17 bp):
AGTATCAACCAATATTC
Found at i:51892726 original size:18 final size:17
Alignment explanation
Indices: 51892690--51892728 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
51892680 ATTATCATAT
*
51892690 AGTAACAACCAATATTC
1 AGTAACAACCAACATTC
*
51892707 AGTATCAACCAGACATTC
1 AGTAACAACCA-ACATTC
51892725 AGTA
1 AGTA
51892729 GTAGTCCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (17 bp):
AGTAACAACCAACATTC
Found at i:51892857 original size:18 final size:18
Alignment explanation
Indices: 51892818--51892881 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
51892808 TAATAACCAT
* *
51892818 TTATGCAGTAACA-GTCAT
1 TTATTCAGTAACAGGT-AA
51892836 TTATTCAGTAACAGGTAA
1 TTATTCAGTAACAGGTAA
* **
51892854 TTATTCAGTAGCAGACAA
1 TTATTCAGTAACAGGTAA
51892872 TTATTCAGTA
1 TTATTCAGTA
51892882 CCTTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
18 38 0.95
19 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGGTAA
Found at i:51894099 original size:15 final size:16
Alignment explanation
Indices: 51894081--51894110 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51894071 CCATTTGCTA
51894081 TTTTGTTT-CTTTCTC
1 TTTTGTTTCCTTTCTC
51894096 TTTTGTTTCCTTTCT
1 TTTTGTTTCCTTTCT
51894111 TTCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTGTTTCCTTTCTC
Found at i:51894173 original size:13 final size:12
Alignment explanation
Indices: 51894141--51894174 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
51894131 TATATATATA
51894141 TATATAATAACT
1 TATATAATAACT
51894153 TA-ATAATATACT
1 TATATAATA-ACT
51894165 TATATAATAA
1 TATATAATAA
51894175 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:51898977 original size:47 final size:48
Alignment explanation
Indices: 51898908--51899122 Score: 158
Period size: 47 Copynumber: 4.6 Consensus size: 48
51898898 GGTGCCAATG
** *
51898908 CCATGTCTTAGACACGGTCTTACACTGGCTCAT-ATCTCAAGTCGATA
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* *
51898955 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATTTCATAGTCGAT-
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-AGTCGATA
* * * * * * * *
51899002 GCATGTCCTAGACAT-GTCTTACATTGGCTTA-CGTCTCGAGGCCA-A
1 CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
* * * * * * *
51899047 TGCATGTCCCAGACAT-GTCTGACACTAGC-CATCGTTTCAATGCCGATG
1 -CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA-GTCGATA
*
51899095 CCATGTCCCAGACATGGTCTAACACTGG
1 CCATGTCCCAGACATGGTCTTACACTGG
51899123 TTCACACACG
Statistics
Matches: 132, Mismatches: 27, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.04
46 48 0.36
47 62 0.47
48 17 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGTCGATA
Found at i:51904436 original size:39 final size:40
Alignment explanation
Indices: 51904334--51904518 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
51904324 TCGAATGATG
* * * *
51904334 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
51904374 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51904414 TCCGGGCTAAG-CCCGAATGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51904453 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
51904494 -CCGGGCTATGTCCCGAAGCCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51904519 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 32 0.27
40 78 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51904540 original size:79 final size:79
Alignment explanation
Indices: 51904387--51904541 Score: 174
Period size: 79 Copynumber: 2.0 Consensus size: 79
51904377 GGACTAAGAT
* **
51904387 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAATGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAATGCATTGGAACGAGTTACTAA
*
51904452 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* * *
51904466 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA-GCCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAATG-CATTGGAACGAGTTA-
*
51904528 CTATATC-CGGTTAA
62 CTAAATCTCGGTTAA
51904542 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
78 2 0.03
79 41 0.64
80 21 0.33
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAATGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:51912635 original size:40 final size:40
Alignment explanation
Indices: 51912495--51912677 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
51912485 TCGAATGATG
* * * *
51912495 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
51912535 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51912573 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51912612 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51912653 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51912678 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 22 0.18
39 42 0.34
40 57 0.46
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51912708 original size:79 final size:78
Alignment explanation
Indices: 51912546--51912710 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 78
51912536 CGGACTAAGA
* **
51912546 TCCGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
51912611 ATCCGGGTTAAGT
66 ATCCGGGTTAAAT
* * *
51912624 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAG-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-
*
51912687 CTATATCC-GGTTAAAT
62 CTAAATCCGGGTTAAAT
51912703 TCCGAAGG
1 TCCGAAGG
51912711 TACGTGATTG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
78 21 0.28
79 29 0.39
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCATTTGTGCGAGTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAAT
Found at i:51939984 original size:46 final size:46
Alignment explanation
Indices: 51939839--51940059 Score: 155
Period size: 47 Copynumber: 4.7 Consensus size: 46
51939829 GTAAGGTGCC
* * * ** *
51939839 GATGCCATGTCCTAGACACGGTCTTACACTGGCTCATATCTCAAGTC-
1 GATG-CATGTCCCAGACA-TGTCTTACACTGGCTTACGTCTCAAGGCT
* * ** *
51939886 GATAGCATGTCCCAGACATTGTCTTACCCTGAC-TA--TCATTTAGTAGCC
1 GAT-GCATGTCCCAGACA-TGTCTTACACTGGCTTACGTC-TCAAG--GCT
51939934 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCT
* * * * * **
51939980 GATGCATGCCCCAGGCATGTCTTACACTAGCCCT-CGTTTCAATACT
1 GATGCATGTCCCAGACATGTCTTACACT-GGCTTACGTCTCAAGGCT
51940026 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT
51940060 CACACACGAA
Statistics
Matches: 138, Mismatches: 25, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
46 54 0.39
47 60 0.43
48 17 0.12
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCT
Found at i:51940053 original size:48 final size:46
Alignment explanation
Indices: 51939934--51940056 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 46
51939924 TTTAGTAGCC
* * *
51939934 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGCCCTACGTCTCAAGACT
* * * *
51939980 GATGCATGCCCCAGGCATGTCTTACACTAGCCCT-CGTTTCAATACT
1 GATGCATGTCCCAGACATGTCTTACACT-GCCCTACGTCTCAAGACT
51940026 GATGCCATGTCCCAGACATGGTCTTACACTG
1 GATG-CATGTCCCAGACAT-GTCTTACACTG
51940057 GCTCACACAC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 39 0.60
47 16 0.25
48 10 0.15
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGCCCTACGTCTCAAGACT
Found at i:51945962 original size:47 final size:47
Alignment explanation
Indices: 51945904--51946394 Score: 820
Period size: 47 Copynumber: 10.4 Consensus size: 47
51945894 CAGCCAAGAC
*
51945904 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51945951 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
51945998 AGTGTATATGTGTGATAAGGCCTAATCGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51946045 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51946092 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51946139 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51946188 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51946235 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51946282 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
51946329 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
51946376 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
51946395 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 374 0.89
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:51946323 original size:237 final size:237
Alignment explanation
Indices: 51945908--51946394 Score: 843
Period size: 237 Copynumber: 2.1 Consensus size: 237
51945898 CAAGACAGTG
51945908 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
51945973 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATCGCCGATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATCGCCGATGTGATGA
51946038 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
51946103 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
51946145 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
51946210 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
66 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATCGCCGATGTGATGA
*
51946275 ATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
51946340 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
51946382 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
51946395 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 226 0.95
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (237 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATCGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
Found at i:51946569 original size:37 final size:37
Alignment explanation
Indices: 51946513--51946591 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
51946503 CCGAGCTCTA
* *
51946513 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
51946550 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51946587 AAGAC
1 AAGAC
51946592 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51948243 original size:40 final size:40
Alignment explanation
Indices: 51947970--51948314 Score: 360
Period size: 40 Copynumber: 8.7 Consensus size: 40
51947960 CTAAGTGACC
* * * *
51947970 ATATCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-T
* * *
51948010 A-ATTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-T
* * * * *
51948049 AAATCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-T
* * *
51948089 ATAACCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* *
51948129 GTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* *
51948169 GTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* *
51948209 GTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
* ** * *
51948249 ATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
*
51948289 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTCCCGAAGAGCA
51948315 ATCATGCTGG
Statistics
Matches: 268, Mismatches: 32, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
39 35 0.13
40 221 0.82
41 12 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
Found at i:51951166 original size:47 final size:47
Alignment explanation
Indices: 51951108--51951314 Score: 333
Period size: 47 Copynumber: 4.4 Consensus size: 47
51951098 CAGCCAAGAC
*
51951108 AGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51951155 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51951202 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
51951249 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51951296 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
51951315 TCCCGAAGGG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 149 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:51951489 original size:37 final size:37
Alignment explanation
Indices: 51951433--51951511 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51951423 CCGAGCTCTA
* * *
51951433 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
51951470 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51951507 AAGAC
1 AAGAC
51951512 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51954642 original size:40 final size:40
Alignment explanation
Indices: 51954598--51954859 Score: 342
Period size: 39 Copynumber: 6.7 Consensus size: 40
51954588 GCTCCTCGTT
* *
51954598 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
51954638 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
51954678 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
51954717 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
51954756 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
51954795 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
51954836 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51954860 CATCATTCAA
Statistics
Matches: 206, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
38 2 0.01
39 127 0.62
40 67 0.33
41 10 0.05
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:51968404 original size:9 final size:9
Alignment explanation
Indices: 51968390--51968470 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
51968380 ATTTGAATCA
51968390 AAATAAAAT
1 AAATAAAAT
51968399 AAAT-AAAT
1 AAATAAAAT
** *
51968407 AAGGAAGA-
1 AAATAAAAT
*
51968415 AAAT-CAAT
1 AAATAAAAT
*
51968423 CAAATAAATT
1 -AAATAAAAT
*
51968433 AAATAAAAG
1 AAATAAAAT
*
51968442 AAACAAAAT
1 AAATAAAAT
51968451 AAGATAAAAT
1 AA-ATAAAAT
51968461 AAAATAAAAT
1 -AAATAAAAT
51968471 TGTGAAAAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
7 1 0.02
8 8 0.15
9 26 0.50
10 15 0.29
11 2 0.04
ACGTcount: A:0.72, C:0.04, G:0.06, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:51972400 original size:14 final size:14
Alignment explanation
Indices: 51972381--51972429 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
51972371 TGTAATGATG
51972381 CATGTATATATATA
1 CATGTATATATATA
* *
51972395 CATGTATATACATG
1 CATGTATATATATA
* *
51972409 TATGCATATATATA
1 CATGTATATATATA
51972423 CATGTAT
1 CATGTAT
51972430 GCATGTGGTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (14 bp):
CATGTATATATATA
Found at i:51972404 original size:10 final size:10
Alignment explanation
Indices: 51972389--51972429 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
51972379 TGCATGTATA
51972389 TATATACATG
1 TATATACATG
51972399 TATATACATG
1 TATATACATG
* *
51972409 --TATGCATA
1 TATATACATG
51972417 TATATACATG
1 TATATACATG
51972427 TAT
1 TAT
51972430 GCATGTGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.24
10 19 0.76
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (10 bp):
TATATACATG
Found at i:51972422 original size:18 final size:18
Alignment explanation
Indices: 51972399--51972433 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51972389 TATATACATG
51972399 TATATACATGTATGCATA
1 TATATACATGTATGCATA
51972417 TATATACATGTATGCAT
1 TATATACATGTATGCAT
51972434 GTGGTGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
TATATACATGTATGCATA
Found at i:51972605 original size:28 final size:28
Alignment explanation
Indices: 51972537--51972690 Score: 222
Period size: 28 Copynumber: 5.5 Consensus size: 28
51972527 CATGAGATTG
* * * *
51972537 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51972566 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51972594 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
51972622 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51972650 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51972677 GCACTGAA-TGTGCG
1 GCACT-AAGTGTGCG
51972691 GACTTAATAT
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 21 0.18
28 77 0.66
29 18 0.16
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51980601 original size:28 final size:28
Alignment explanation
Indices: 51980533--51980686 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
51980523 CATGAGATTG
* * * *
51980533 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51980562 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51980590 GCACTAAGTGTGCGAGTATGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
51980618 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51980646 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51980673 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
51980687 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.20
28 73 0.64
29 18 0.16
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51983728 original size:29 final size:29
Alignment explanation
Indices: 51983695--51983756 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
51983685 AATTCTGACT
51983695 AAATTACTAAAAATT-A-CATTTTTAAAAAA
1 AAATTA-T-AAAATTAAGCATTTTTAAAAAA
* *
51983724 AAATTATCAAATTAAGCCTTTTTAAAAAA
1 AAATTATAAAATTAAGCATTTTTAAAAAA
51983753 AAAT
1 AAAT
51983757 GAGATTAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 2 0.07
29 22 0.76
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (29 bp):
AAATTATAAAATTAAGCATTTTTAAAAAA
Found at i:51984787 original size:13 final size:13
Alignment explanation
Indices: 51984769--51984810 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
51984759 ATCAAAACCT
51984769 AAAAAACTAAAAA
1 AAAAAACTAAAAA
51984782 AAAAAACTATTAAAA
1 AAAAAACTA--AAAA
51984797 AATAAAAC-AAAAA
1 AA-AAAACTAAAAA
51984810 A
1 A
51984811 TTAATTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 14 0.54
15 7 0.27
16 5 0.19
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAACTAAAAA
Found at i:51984802 original size:23 final size:25
Alignment explanation
Indices: 51984768--51984819 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
51984758 AATCAAAACC
51984768 TAAAAAACTAAAAAAAAAAACT-AT
1 TAAAAAACTAAAAAAAAAAACTAAT
* *
51984792 TAAAAAA-TAAAACAAAAAATTAAT
1 TAAAAAACTAAAAAAAAAAACTAAT
51984816 TAAA
1 TAAA
51984820 GGAGAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (25 bp):
TAAAAAACTAAAAAAAAAAACTAAT
Found at i:51995420 original size:13 final size:14
Alignment explanation
Indices: 51995402--51995434 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
51995392 ATTTTTTAAA
*
51995402 TTTAAAACAAT-AT
1 TTTAAAAAAATAAT
51995415 TTTAAAAAAATAAT
1 TTTAAAAAAATAAT
51995429 TTTAAA
1 TTTAAA
51995435 TTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (14 bp):
TTTAAAAAAATAAT
Found at i:51996866 original size:30 final size:30
Alignment explanation
Indices: 51996832--51996891 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
51996822 TATTTTATTA
*
51996832 TTAATTTTGTTATTGTTTTAAAGGCATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
* *
51996862 TTAATTTTGTTATTATTTTAGAGGTATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
51996892 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.17, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:51999153 original size:30 final size:30
Alignment explanation
Indices: 51999094--51999153 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51999084 TATTTTATTA
**
51999094 TTAATTTTGTTATTGTTTTAAAGGCATTTG
1 TTAATTTTGTTATTAATTTAAAGGCATTTG
* *
51999124 TTAATTTTGTTATTAATTTAGAGGTATTTG
1 TTAATTTTGTTATTAATTTAAAGGCATTTG
51999154 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTAATTTAAAGGCATTTG
Found at i:52001487 original size:20 final size:20
Alignment explanation
Indices: 52001459--52001505 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
52001449 TTTTCAAGGC
*
52001459 AAATGCCTTTTGAC-TTAGGA
1 AAATTCCTTTTG-CTTTAGGA
52001479 AAATTCC--TTGCTTTAGGA
1 AAATTCCTTTTGCTTTAGGA
52001497 AAATTCCTT
1 AAATTCCTT
52001506 GCTGAGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 1 0.04
18 16 0.70
20 6 0.26
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATTCCTTTTGCTTTAGGA
Found at i:52001496 original size:18 final size:18
Alignment explanation
Indices: 52001473--52001508 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
52001463 GCCTTTTGAC
52001473 TTAGGAAAATTCCTTGCT
1 TTAGGAAAATTCCTTGCT
52001491 TTAGGAAAATTCCTTGCT
1 TTAGGAAAATTCCTTGCT
52001509 GAGTTTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
TTAGGAAAATTCCTTGCT
Found at i:52007359 original size:21 final size:21
Alignment explanation
Indices: 52007335--52007377 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
52007325 GATACCCTTG
* * *
52007335 TAAAATATTGGTACTTTAATA
1 TAAAATATAGATAATTTAATA
*
52007356 TAAAGTATAGATAATTTAATA
1 TAAAATATAGATAATTTAATA
52007377 T
1 T
52007378 GCTATCAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (21 bp):
TAAAATATAGATAATTTAATA
Found at i:52014872 original size:17 final size:17
Alignment explanation
Indices: 52014850--52014882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52014840 GATGATTGAG
*
52014850 TTAATAAATATTATTTC
1 TTAATAAATAATATTTC
52014867 TTAATAAATAATATTT
1 TTAATAAATAATATTT
52014883 ACAAGGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAATAAATAATATTTC
Found at i:52019535 original size:21 final size:21
Alignment explanation
Indices: 52019509--52019551 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
52019499 CAAAAATGAC
52019509 AATAATGATGAAAACGATAAT
1 AATAATGATGAAAACGATAAT
* * *
52019530 AATAATGTTGATAATGATAAT
1 AATAATGATGAAAACGATAAT
52019551 A
1 A
52019552 GTGGTGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.30
Consensus pattern (21 bp):
AATAATGATGAAAACGATAAT
Found at i:52019936 original size:23 final size:23
Alignment explanation
Indices: 52019910--52019958 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
52019900 ATAAAAGAGG
* *
52019910 AAAATATAATAACAATAATAGTA
1 AAAATACAACAACAATAATAGTA
*
52019933 AAAATACAACAATAATAATAGTA
1 AAAATACAACAACAATAATAGTA
52019956 AAA
1 AAA
52019959 GGTGTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAATACAACAACAATAATAGTA
Found at i:52020118 original size:14 final size:14
Alignment explanation
Indices: 52020099--52020125 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52020089 AATTACTATA
52020099 TATATACATATATC
1 TATATACATATATC
52020113 TATATACATATAT
1 TATATACATATAT
52020126 ATAAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATACATATATC
Found at i:52024446 original size:51 final size:50
Alignment explanation
Indices: 52024360--52024456 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
52024350 TAATGAAGTC
* *
52024360 ATGCATTATGTAACCTCATGTTAGTTAAGTTTGCATCA-TAAATTATGAT
1 ATGCATTATATAACCCCATGTTAGTTAAGTTTGCATCATTAAATTATGAT
*
52024409 ATGCATTATATAACTCCCCTGTTAGTTAAAGTTTGCATCATTAAATTA
1 ATGCATTATATAAC-CCCATGTTAGTT-AAGTTTGCATCATTAAATTA
52024457 AGTCATGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 13 0.31
50 10 0.24
51 12 0.29
52 7 0.17
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (50 bp):
ATGCATTATATAACCCCATGTTAGTTAAGTTTGCATCATTAAATTATGAT
Found at i:52024466 original size:52 final size:51
Alignment explanation
Indices: 52024346--52024476 Score: 153
Period size: 52 Copynumber: 2.6 Consensus size: 51
52024336 ATCTGTTCTG
* * * *
52024346 CATTTAATGAAGTCATGCATTATGTAAC-CTCATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATATAACTCCCATGTTAGTTAAGTTTGCAT
* *
52024396 CA-TAAATTATGAT-ATGCATTATATAACTCCCCTGTTAGTTAAAGTTTGCAT
1 CATTAAATTAAG-TCATGCATTATATAACTCCCATGTTAGTT-AAGTTTGCAT
52024447 CATTAAATTAAGTCATGCATTA-AGTAACTC
1 CATTAAATTAAGTCATGCATTATA-TAACTC
52024477 ATTTGTTTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
49 19 0.28
50 13 0.19
51 14 0.21
52 22 0.32
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATATAACTCCCATGTTAGTTAAGTTTGCAT
Found at i:52042965 original size:28 final size:28
Alignment explanation
Indices: 52042907--52042981 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
52042897 CTTTTCAAAG
* *
52042907 CTCAATTGATTGCTAACTTTAAATTAGAAA
1 CTCAATTAATTG-TAA-TTTAAATTAAAAA
*
52042937 CTCAATTAATTGTAATTTCAATTAAAAA
1 CTCAATTAATTGTAATTTAAATTAAAAA
*
52042965 CTTAATTAAATT-TAATT
1 CTCAATT-AATTGTAATT
52042982 ATTTTCTAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 22 0.55
29 7 0.17
30 11 0.28
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (28 bp):
CTCAATTAATTGTAATTTAAATTAAAAA
Found at i:52045018 original size:3 final size:3
Alignment explanation
Indices: 52044684--52045005 Score: 302
Period size: 3 Copynumber: 107.0 Consensus size: 3
52044674 ACGTAACAAC
* * *
52044684 ATA ATA ATA GATA CGATA ATA CTA ATA ACA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA -ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
52044732 TTA ATA A-A ATA AAA ATA ATA GTA ATA A-A ATA A-A ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
52044776 GTA ATA ATA ATG ATA ATA ATG ATA ATAA ATA ATA ATA GTAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
* * *
52044823 ATA A-A ATA ATA ATA ATA ATA GTA ATA ATA GTA ATA ATA ATG ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * *
52044871 ATA ATA GTA ACA ATA ATA ATA ATG ATA ATAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
52044917 GTA GTA ATA ATA ATA ATGA AT- ATAA ATA ATA GTA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* *
52044962 ATA ATA ATG ATA ATAA ATA ATA GTA A-A A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
52045006 GTAGGAATAA
Statistics
Matches: 262, Mismatches: 40, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
2 18 0.07
3 218 0.83
4 22 0.08
5 4 0.02
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:52046394 original size:45 final size:45
Alignment explanation
Indices: 52046339--52046790 Score: 227
Period size: 45 Copynumber: 9.6 Consensus size: 45
52046329 CTTTAATTTA
52046339 CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
* * * * *
52046384 CTCTACTGCAACTTCAGGGAGATAAGATTTGTAATTTGTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAAATAAGATTTG----TTGT--CTTTAGTCTG
* * * * * *
52046435 CTCCACTGTAATTTCAAGGAAATGAGATTTGGTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
*
52046480 CTCCACTGCAACTTCAGGGAGATAAGATTTATGACTCTTAGT-TTT-GATCTG
1 CTCCACTGCAACTTCAGGGAAATAAGA-TT-TG----TT-GTCTTTAG-TCTG
* * * *
52046531 TTCCACTGCAA-TGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTG
1 CTCCACTGCAACT-TCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
* * * ** * * * * *
52046576 CTGCACTGCAACTTTAGGGAGATAAGGCTAG-TGGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
* * * *
52046620 CTCCACTACAACTTCA-AGAAGATAAGATTCACCATAATTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAA-ATAAGATT-----T--GTTGT--CTTTAGTCTG
* * *
52046674 TTCCACTGCAACATT-AGGGAAATAAGATTCGTTGTCTTCAGTCTG
1 CTCCACTGCAAC-TTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
* * ** * * * *
52046719 CTCCGCTGCAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
*
52046763 CTCCACTGCAACTTTA-GGAAGATAAGAT
1 CTCCACTGCAACTTCAGGGAA-ATAAGAT
52046791 CCTCCATAAT
Statistics
Matches: 303, Mismatches: 70, Indels: 68
0.69 0.16 0.15
Matches are distributed among these distances:
43 5 0.02
44 64 0.21
45 115 0.38
46 4 0.01
47 8 0.03
49 5 0.02
50 4 0.01
51 63 0.21
52 3 0.01
54 27 0.09
55 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTG
Found at i:52046440 original size:96 final size:95
Alignment explanation
Indices: 52046321--52046601 Score: 332
Period size: 96 Copynumber: 2.9 Consensus size: 95
52046311 GAGGTATAGG
* *
52046321 ATTTGTAGCTTTAATTTACTCCACTGCAACTTCAGGGAAATAAGATTTGTTGTCTTTAGTCTGCT
1 ATTTGTAGCTTTAATTTGCTCCACTGCAA-TTCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCT
*
52046386 CTACTGCAACTTCAGGGAGATAAGATTTGT-A
65 C-ACTGCAACTTCAGGGAGATAAGATTTATGA
* * * * * *
52046417 ATTTGTAGCTTCAATTTGCTCCACTGTAATTTCAAGGAAATGAGATTTGGTATCTTTAGTCTGCT
1 ATTTGTAGCTTTAATTTGCTCCACTGCAA-TTCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCT
52046482 CCACTGCAACTTCAGGGAGATAAGATTTATGA
65 -CACTGCAACTTCAGGGAGATAAGATTTATGA
* * * * * * * *
52046514 CTCT-TAGTTTTGATCTGTTCCACTGCAATGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCT
1 ATTTGTAGCTTTAATTTGCTCCACTGCAAT-TCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCT
*
52046578 GCACTGCAACTTTAGGGAGATAAG
65 -CACTGCAACTTCAGGGAGATAAG
52046602 GCTAGTGGCT
Statistics
Matches: 157, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
95 1 0.01
96 152 0.97
97 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (95 bp):
ATTTGTAGCTTTAATTTGCTCCACTGCAATTCAGGGAAATAAGATTTGCTGTCTTTAGTCTGCTC
ACTGCAACTTCAGGGAGATAAGATTTATGA
Found at i:52046697 original size:143 final size:143
Alignment explanation
Indices: 52046526--52046887 Score: 499
Period size: 143 Copynumber: 2.5 Consensus size: 143
52046516 CTTAGTTTTG
** * * * *
52046526 ATCTGTTCCACTGCAATGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTGCACTGCAACTTT
1 ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGCAACTTC
*
52046591 AGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATTCACCATA
66 AGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATCCACCATA
*
52046656 ATTTGTAGCTTTA
131 ATTTGTAGCTGTA
*
52046669 ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTC
1 ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGCAACTTC
* * * * * *
52046734 AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCTCCATA
66 AGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATCCACCATA
52046799 ATTTGTAGCTGTA
131 ATTTGTAGCTGTA
* * * * * ** *
52046812 ATTTGTTCCACTGTAACTTTAAGGAAATAAGATTCATTGTCTTCAGTCTGCTCTGCTGTAACTTC
1 ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGCAACTTC
**
52046877 AGAAAGATAAG
66 AGGGAGATAAG
52046888 ACTTGTAATT
Statistics
Matches: 195, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 195 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (143 bp):
ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATCCACCATA
ATTTGTAGCTGTA
Found at i:52046901 original size:143 final size:141
Alignment explanation
Indices: 52046526--52046931 Score: 497
Period size: 143 Copynumber: 2.8 Consensus size: 141
52046516 CTTAGTTTTG
** * * * * *
52046526 ATCTGTTCCACTGCAATGTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTGCACTGCAACTTT
1 ATCTGTTCCACTGCAACATTAAGGAAATAAGATTCGTTGTCTTCAGTCTGCT-CGCTGCAACTTC
* * * *
52046591 AGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACAACTTCAAGAAGATAAGATTCACCATA
65 AGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTT-TAGAAGATAAGATCCACCATA
*
52046656 ATTTGTAGCTTTA
129 ATTTGTAGCTGTA
*
52046669 ATCTGTTCCACTGCAACATTAGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTC
1 ATCTGTTCCACTGCAACATTAAGGAAATAAGATTCGTTGTCTTCAGTCTGCT-CGCTGCAACTTC
* *
52046734 AGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCTCCATA
65 AGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTA-GAAGATAAGATCCACCATA
52046799 ATTTGTAGCTGTA
129 ATTTGTAGCTGTA
* * * * *
52046812 ATTTGTTCCACTGTAACTTTAAGGAAATAAGATTCATTGTCTTCAGTCTGCTCTGCTGTAACTTC
1 ATCTGTTCCACTGCAACATTAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTC-GCTGCAACTTC
** * * *** * *
52046877 AGAAAGATAAGACTTGTAATTTCAACCTGCTCTACTGCAACTTTAGAGAGATAAG
65 AGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGA-AGATAAG
52046932 GTTAGTGGCT
Statistics
Matches: 231, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
142 4 0.02
143 227 0.98
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (141 bp):
ATCTGTTCCACTGCAACATTAAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCGCTGCAACTTCA
GGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGAAGATAAGATCCACCATAAT
TTGTAGCTGTA
Found at i:52055931 original size:40 final size:40
Alignment explanation
Indices: 52055876--52056152 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
52055866 GCATGAGCAT
52055876 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
52055916 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
52055956 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
52055996 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
52056036 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
52056076 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
52056116 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
52056153 TTGCGGTTAT
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:52058553 original size:19 final size:19
Alignment explanation
Indices: 52058516--52058558 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
52058506 CCGTGAAATT
*
52058516 TAATGCATATGATGCAATG
1 TAATGCAAATGATGCAATG
52058535 TAATGCAAATGCATG-AATG
1 TAATGCAAATG-ATGCAATG
*
52058554 CAATG
1 TAATG
52058559 AATGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (19 bp):
TAATGCAAATGATGCAATG
Found at i:52059290 original size:8 final size:8
Alignment explanation
Indices: 52059277--52059304 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
52059267 TTCTTTCCCT
52059277 TTCTCAGC
1 TTCTCAGC
52059285 TTCTCAGC
1 TTCTCAGC
52059293 TTCTCAGC
1 TTCTCAGC
52059301 TTCT
1 TTCT
52059305 AGTTTCTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.36, G:0.11, T:0.43
Consensus pattern (8 bp):
TTCTCAGC
Found at i:52062583 original size:3 final size:3
Alignment explanation
Indices: 52062274--52062570 Score: 269
Period size: 3 Copynumber: 98.0 Consensus size: 3
52062264 ATAAGAAATG
*
52062274 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
52062320 AAA ATA ATA GTA ATA ATA ATA ATA ATA ATGA AT- ATAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA
* * * * * * *
52062366 A-A ATA ATA ATA ATA ATA ATA ATA ATG ATG ATG ATG ATG ATG ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
52062413 ATA ATG ATA ATAA ATT ATA ATA AAA ATA ATA ACA ATA ATA ATA GTA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
52062459 ATA ATA ATA ATA ATA ATGA AT- ATAA ATA ATA GTA A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
52062504 ATA ATA ATA ATA ATG ATG ATG ATG ATG ATA ATG ATA ATAA ATT ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
52062550 ATA AAA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
52062571 GTAGGAATAA
Statistics
Matches: 249, Mismatches: 34, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
2 8 0.03
3 222 0.89
4 19 0.08
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:52065571 original size:90 final size:90
Alignment explanation
Indices: 52065477--52065661 Score: 223
Period size: 90 Copynumber: 2.1 Consensus size: 90
52065467 TTTTACATTC
* * * * **
52065477 AATTGAGTATTTGAACTTTCAAAATGCATCAAAAAA-ACCCTTTAATTTTTTTCA-AAATAAAGC
1 AATTGAGTACTTGAACTGTCAAAATGCATAAAAAAATACCC-TCAAAATTTTTCATAAA-AAA-C
** *
52065540 AATTAAGCTGCTTCTTTTTTTT-CACTT
63 AATTAAGCCCCTACTTTTTTTTGCACTT
* *
52065567 AATTGGGTACTTGAACTGTCAAAATGTATAAAAAAATACCCTCAAAATTTTTCATAAAAAACAAT
1 AATTGAGTACTTGAACTGTCAAAATGCATAAAAAAATACCCTCAAAATTTTTCATAAAAAACAAT
52065632 TAAGCCCCTACTTTTTTTTGCACTT
66 TAAGCCCCTACTTTTTTTTGCACTT
52065657 AATTG
1 AATTG
52065662 TCAAAATGCA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 20 0.25
90 54 0.67
91 7 0.09
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (90 bp):
AATTGAGTACTTGAACTGTCAAAATGCATAAAAAAATACCCTCAAAATTTTTCATAAAAAACAAT
TAAGCCCCTACTTTTTTTTGCACTT
Found at i:52065824 original size:27 final size:28
Alignment explanation
Indices: 52065793--52065873 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
52065783 CAAAAAAATT
*
52065793 ATAAAAA-ATAAAAACTA-TTAAATTTTA
1 ATAAAAATATAAAAA-TATTTAAAATTTA
52065820 ATAAAAATATAAAAATATTTAAAATTTA
1 ATAAAAATATAAAAATATTTAAAATTTA
* * * *
52065848 CTAAGAAT-TAGAAAAAATGTAAAATT
1 ATAAAAATATA-AAAATATTTAAAATT
52065874 GTAAAATTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.24
28 35 0.76
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAAAAATATAAAAATATTTAAAATTTA
Found at i:52065835 original size:20 final size:21
Alignment explanation
Indices: 52065799--52065841 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
52065789 AATTATAAAA
*
52065799 AATAAAAACTATTAAAT-TTT
1 AATAAAAACTATAAAATATTT
52065819 AATAAAAA-TATAAAAATATTT
1 AATAAAAACTAT-AAAATATTT
52065840 AA
1 AA
52065842 AATTTACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 12 0.60
21 5 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAAAAACTATAAAATATTT
Found at i:52066175 original size:10 final size:10
Alignment explanation
Indices: 52066162--52066204 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
52066152 GATTATAAAA
52066162 TTTTATATAT
1 TTTTATATAT
*
52066172 TTTTCTATAT
1 TTTTATATAT
*
52066182 TTCTATATA-
1 TTTTATATAT
52066191 TTTTATA-AT
1 TTTTATATAT
52066200 TTTTA
1 TTTTA
52066205 ATGACTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 1 0.04
9 11 0.39
10 16 0.57
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTATATAT
Found at i:52083442 original size:90 final size:90
Alignment explanation
Indices: 52083348--52083514 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
52083338 AAGTGATTTT
* * * *
52083348 GTATAAGACCATGTTTGAGACATGGCATCGATATG-AGGTCTCGTATAAGACCATGTCT-GAGAC
1 GTATAAGACCATATCTGAGACATGACATCGATATGTAGGTC-CATATAAGACCATGTCTGGA-AC
52083411 ATGGCGTTGGCACCGATTCAAGACTTC
64 ATGGCGTTGGCACCGATTCAAGACTTC
* * * * *
52083438 GTATAAGACCATATCTGGGATATGACATCGATGTGTAGTTCCATGTAAGACCATGTCTGGAACAT
1 GTATAAGACCATATCTGAGACATGACATCGATATGTAGGTCCATATAAGACCATGTCTGGAACAT
*
52083503 GGCTTTGGCACC
66 GGCGTTGGCACC
52083515 CTATTTGGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
90 59 0.91
91 6 0.09
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (90 bp):
GTATAAGACCATATCTGAGACATGACATCGATATGTAGGTCCATATAAGACCATGTCTGGAACAT
GGCGTTGGCACCGATTCAAGACTTC
Found at i:52087719 original size:20 final size:22
Alignment explanation
Indices: 52087679--52087729 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
52087669 ATTTTTAGAT
52087679 TTTAATTATGTAAATATATATAA
1 TTTAATTA-GTAAATATATATAA
*
52087702 TTTAATTA-TAAA-ATATATTA
1 TTTAATTAGTAAATATATATAA
*
52087722 TTAAATTA
1 TTTAATTA
52087730 ATTAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
21 4 0.15
23 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAATTAGTAAATATATATAA
Found at i:52087719 original size:24 final size:23
Alignment explanation
Indices: 52087679--52087733 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
52087669 ATTTTTAGAT
**
52087679 TTTAATTATGTAAATA-TATATAA
1 TTTAATTATAAAAATATTAT-TAA
52087702 TTTAATTATAAAATATATTATTAA
1 TTTAATTATAAAA-ATATTATTAA
*
52087726 ATTAATTA
1 TTTAATTA
52087734 ATTATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.41
24 13 0.48
25 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAATTATAAAAATATTATTAA
Found at i:52087757 original size:25 final size:27
Alignment explanation
Indices: 52087703--52087759 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
52087693 TATATATAAT
*
52087703 TTAATTATAAAATATATTATTAAATTAA
1 TTAATTATAAAATATATTATT-AATGAA
52087731 TTAATTAT-AAATATCA-TATT-ATGAA
1 TTAATTATAAAATAT-ATTATTAATGAA
52087756 TTAA
1 TTAA
52087760 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTATAAAATATATTATTAATGAA
Found at i:52087893 original size:16 final size:16
Alignment explanation
Indices: 52087874--52087923 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
52087864 AAATAGATAT
52087874 TTATTATTTATCATTA
1 TTATTATTTATCATTA
*
52087890 TTATTATTCTATCA-AA
1 TTATTATT-TATCATTA
*
52087906 TTATAATTTAT-ATTA
1 TTATTATTTATCATTA
52087921 TTA
1 TTA
52087924 AATTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATTTATCATTA
Found at i:52088052 original size:20 final size:20
Alignment explanation
Indices: 52088027--52088064 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52088017 TATTTAATTA
52088027 ATTTTTATT-TAATTAAAAAG
1 ATTTTTATTAT-ATTAAAAAG
52088047 ATTTTTATTATATTAAAA
1 ATTTTTATTATATTAAAA
52088065 TATTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTTATTATATTAAAAAG
Found at i:52088180 original size:19 final size:18
Alignment explanation
Indices: 52088151--52088206 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
52088141 CTCCAATTGT
*
52088151 AATATATATTTATTATTA
1 AATAAATATTTATTATTA
*
52088169 AATAAGATATTTATTATAA
1 AATAA-ATATTTATTATTA
*
52088188 TAATAATTA-TTATTATTA
1 -AATAAATATTTATTATTA
52088206 A
1 A
52088207 GTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 14 0.44
20 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATAAATATTTATTATTA
Found at i:52088228 original size:13 final size:14
Alignment explanation
Indices: 52088210--52088256 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
52088200 TTATTAAGTT
52088210 AATAAAATAAAAG-
1 AATAAAATAAAAGA
*
52088223 AATAAAATAAATGA
1 AATAAAATAAAAGA
52088237 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
52088250 AACAAAA
1 AATAAAA
52088257 CAAAGTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 22 0.73
14 8 0.27
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:52089096 original size:40 final size:40
Alignment explanation
Indices: 52089014--52089120 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
52089004 TTGAGACTGA
* * * * *
52089014 TACTGAACTGAATTATGGAA-TACTGAATATTGTTTTGAG
1 TACTGAATTGAATTGTGAAATTACTGAATATTATTATGAG
* *
52089053 TACTGAATTGAATTGTGAACTTACTGAATATTATTATGTG
1 TACTGAATTGAATTGTGAAATTACTGAATATTATTATGAG
*
52089093 TACTGCATTGAATTGTGAAATTACTGAA
1 TACTGAATTGAATTGTGAAATTACTGAA
52089121 GTAATGAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 16 0.28
40 42 0.72
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (40 bp):
TACTGAATTGAATTGTGAAATTACTGAATATTATTATGAG
Found at i:52089340 original size:12 final size:12
Alignment explanation
Indices: 52089323--52089347 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52089313 GCCGACTATT
52089323 GTTACTGTTACC
1 GTTACTGTTACC
52089335 GTTACTGTTACC
1 GTTACTGTTACC
52089347 G
1 G
52089348 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:52089373 original size:43 final size:45
Alignment explanation
Indices: 52089325--52089433 Score: 143
Period size: 43 Copynumber: 2.5 Consensus size: 45
52089315 CGACTATTGT
* *
52089325 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTG-CAT-AA
1 TACTGTTACCGTTACTGTTACAGAGTCAG-CACTTTGTGTCATGAA
**
52089368 TACTGTTACCGTTACTGTTACAGAGTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGAGTCAGCACTTTGTGTCATGAA
*
52089413 TACTGTTACTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
52089434 TGTTGTCGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 34 0.59
44 2 0.03
45 22 0.38
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGAGTCAGCACTTTGTGTCATGAA
Found at i:52089424 original size:6 final size:6
Alignment explanation
Indices: 52089413--52089456 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
52089403 GTGTGTTGAA
*
52089413 TACTGT TACTGT TACTGT TACTGT T-GTCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TACTGT T
52089457 TAAGTACTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 1 0.03
6 25 0.76
7 7 0.21
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:52090750 original size:18 final size:18
Alignment explanation
Indices: 52090723--52090766 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
52090713 AGGGGAATTG
*
52090723 TACCTGCTACTAAATCAA
1 TACCTACTACTAAATCAA
* *
52090741 TACCTACTACTACATCAG
1 TACCTACTACTAAATCAA
52090759 TACCTACT
1 TACCTACT
52090767 GTCAGACGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.30
Consensus pattern (18 bp):
TACCTACTACTAAATCAA
Found at i:52095507 original size:20 final size:22
Alignment explanation
Indices: 52095467--52095517 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
52095457 ATTTTTAGAT
52095467 TTTAATTATGTAAATATATATAA
1 TTTAATTA-GTAAATATATATAA
*
52095490 TTTAATTA-TAAA-ATATATTA
1 TTTAATTAGTAAATATATATAA
*
52095510 TTAAATTA
1 TTTAATTA
52095518 ATTAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.54
21 4 0.15
23 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAATTAGTAAATATATATAA
Found at i:52095507 original size:24 final size:23
Alignment explanation
Indices: 52095467--52095521 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
52095457 ATTTTTAGAT
**
52095467 TTTAATTATGTAAATA-TATATAA
1 TTTAATTATAAAAATATTAT-TAA
52095490 TTTAATTATAAAATATATTATTAA
1 TTTAATTATAAAA-ATATTATTAA
*
52095514 ATTAATTA
1 TTTAATTA
52095522 ATTATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.41
24 13 0.48
25 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAATTATAAAAATATTATTAA
Found at i:52095545 original size:25 final size:27
Alignment explanation
Indices: 52095491--52095547 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
52095481 TATATATAAT
*
52095491 TTAATTATAAAATATATTATTAAATTAA
1 TTAATTATAAAATATATTATT-AATGAA
52095519 TTAATTAT-AAATATCA-TATT-ATGAA
1 TTAATTATAAAATAT-ATTATTAATGAA
52095544 TTAA
1 TTAA
52095548 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTATAAAATATATTATTAATGAA
Found at i:52095698 original size:16 final size:16
Alignment explanation
Indices: 52095677--52095726 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
52095667 TATTTATGAT
52095677 TTATTATTTATCATTA
1 TTATTATTTATCATTA
*
52095693 TTATTATTCTATCA-AA
1 TTATTATT-TATCATTA
*
52095709 TTATAATTTAT-ATTA
1 TTATTATTTATCATTA
52095724 TTA
1 TTA
52095727 AATTATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATTATTTATCATTA
Found at i:52095986 original size:19 final size:18
Alignment explanation
Indices: 52095957--52096012 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
52095947 CACCAACTGT
*
52095957 AATATATATTTATTATTA
1 AATAAATATTTATTATTA
*
52095975 AATAAGATATTTATTATAA
1 AATAA-ATATTTATTATTA
*
52095994 TAATAATTA-TTATTATTA
1 -AATAAATATTTATTATTA
52096012 A
1 A
52096013 GTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 12 0.38
19 14 0.44
20 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATAAATATTTATTATTA
Found at i:52096034 original size:13 final size:14
Alignment explanation
Indices: 52096016--52096062 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
52096006 TTATTAAGTT
52096016 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
52096029 AATAAAAGAAATGA
1 AATAAAATAAAAGA
52096043 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
52096056 AACAAAA
1 AATAAAA
52096063 CAAAGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:52096928 original size:40 final size:40
Alignment explanation
Indices: 52096852--52096938 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
52096842 AATTATGGAA
* * * *
52096852 TACTGAATATTGTTTTGAGTACTAAATTGCATTGTGAAGT
1 TACTGAATATTGTTATGAGTACTAAATTGAACTGTGAAAT
* * **
52096892 TACTTAATATTGTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTATGAGTACTAAATTGAACTGTGAAAT
52096932 TACTGAA
1 TACTGAA
52096939 GTAATGAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (40 bp):
TACTGAATATTGTTATGAGTACTAAATTGAACTGTGAAAT
Found at i:52097248 original size:6 final size:6
Alignment explanation
Indices: 52097237--52097277 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
52097227 TGTTGAATAT
* *
52097237 TGTTAC TGTTAC TGTTAC TGCTAC TGTTAC TAATTAC TGTT
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC T-GTTAC TGTT
52097278 TAGGTACTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
TGTTAC
Found at i:52103339 original size:19 final size:19
Alignment explanation
Indices: 52103317--52103362 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
52103307 CGTGTCCTAA
* *
52103317 CCACATGGGTGTGTAAAAT
1 CCACACGGGCGTGTAAAAT
*
52103336 CCACACGGGCGTGTGAAAT
1 CCACACGGGCGTGTAAAAT
52103355 CCACACGG
1 CCACACGG
52103363 CCTACCCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.17
Consensus pattern (19 bp):
CCACACGGGCGTGTAAAAT
Found at i:52113085 original size:16 final size:16
Alignment explanation
Indices: 52113066--52113099 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
52113056 AAAGTGATTT
52113066 AATCTAA-AAGCACTAA
1 AATCTAACAA-CACTAA
52113082 AATCTAACAACACTAA
1 AATCTAACAACACTAA
52113098 AA
1 AA
52113100 GTGATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (16 bp):
AATCTAACAACACTAA
Found at i:52113109 original size:41 final size:41
Alignment explanation
Indices: 52113052--52113134 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
52113042 TGCCTTGTGA
52113052 ACTAAAAGTGATTTAATCTAAAAGCACTAAAATCTAACAAC
1 ACTAAAAGTGATTTAATCTAAAAGCACTAAAATCTAACAAC
52113093 ACTAAAAGTGATTTAATCTAAAAGCACTAAAATCTAACAAC
1 ACTAAAAGTGATTTAATCTAAAAGCACTAAAATCTAACAAC
52113134 A
1 A
52113135 TTCTTAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (41 bp):
ACTAAAAGTGATTTAATCTAAAAGCACTAAAATCTAACAAC
Found at i:52116137 original size:237 final size:236
Alignment explanation
Indices: 52115716--52116153 Score: 655
Period size: 237 Copynumber: 1.9 Consensus size: 236
52115706 GAGGGCTGAA
* * *
52115716 TTCAAACAGAAATCAATGATAGACTGGATACAAAGGGCAACTTAACACGAAATTGGTTCATATGA
1 TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
* * *
52115781 TGGTCAAAAGCAAGCACTGTAGGGCCACTATAAGGATATTAACTGATTTGGTGGGGAATAAATTG
66 TGGTCAAAAGCAAGCACTGTAGGGCCACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
* * *
52115846 GAAACTTCGCAGCAGATTTCAAGGGAAGTCACAATGTTCTTCAAGCAGTTGTTGGCTATTGCAGA
131 GAAACTTCCCAGCAGATTTCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
*
52115911 TGGCCACATTCAAAGAGTTGCAGCTGGCCGAGGAATGTTTC
196 CGGCCACATTCAAAGAGTTGCAGCTGGCCGAGGAATGTTTC
* * *
52115952 TTCAGACAGAAATCAATAATAGACTGGATACAAATGGGCAACTCAACACAAAATTGTTTCGTATG
1 TTCAAACAGAAATCAATAATAGACTGGATACAAA-GGGCAACTCAACACAAAATTGGTTCATATG
* * ** *
52116017 ATGGTCAAAAGCAAGCACTTTAGGGACC-CTATAA-CATTTTTTTCTGATTTGGAGGTAAATAAA
65 ATGGTCAAAAGCAAGCACTGTAGGG-CCACTATAAGCA-TATTAACTGATTTGGAGGGAAATAAA
* *
52116080 TTGGAAACTTCCCAGTAGATTTTAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGC
128 TTGGAAACTTCCCAGCAGATTTCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGC
52116145 AGACGGCCA
193 AGACGGCCA
52116154 GATTACAGGA
Statistics
Matches: 179, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
236 33 0.18
237 144 0.80
238 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (236 bp):
TTCAAACAGAAATCAATAATAGACTGGATACAAAGGGCAACTCAACACAAAATTGGTTCATATGA
TGGTCAAAAGCAAGCACTGTAGGGCCACTATAAGCATATTAACTGATTTGGAGGGAAATAAATTG
GAAACTTCCCAGCAGATTTCAAGGGAAGTCACAATGTTCTTCAAGCAATTGTTGGCTACTGCAGA
CGGCCACATTCAAAGAGTTGCAGCTGGCCGAGGAATGTTTC
Found at i:52119002 original size:25 final size:25
Alignment explanation
Indices: 52118944--52118994 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
52118934 TTTGGATAAA
52118944 TGAAACCAACTTATCCAAAAAATCC
1 TGAAACCAACTTATCCAAAAAATCC
52118969 TGAAACCAACTTATCCAAAAAATCC
1 TGAAACCAACTTATCCAAAAAATCC
52118994 T
1 T
52118995 CGGACCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (25 bp):
TGAAACCAACTTATCCAAAAAATCC
Found at i:52121178 original size:27 final size:27
Alignment explanation
Indices: 52121147--52121201 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
52121137 AGTAGCAGAA
*
52121147 CAAACATTATACGCAATCTCTCAGTTT
1 CAAACATTATACGCAATCGCTCAGTTT
* *
52121174 CAAACATTATATGCAATCGCTCGGTTT
1 CAAACATTATACGCAATCGCTCAGTTT
52121201 C
1 C
52121202 TCTCATAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (27 bp):
CAAACATTATACGCAATCGCTCAGTTT
Found at i:52122441 original size:14 final size:14
Alignment explanation
Indices: 52122422--52122449 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
52122412 AAGATTCAAA
52122422 TTCCTAACTTTCTT
1 TTCCTAACTTTCTT
52122436 TTCCTAACTTTCTT
1 TTCCTAACTTTCTT
52122450 ATGATTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (14 bp):
TTCCTAACTTTCTT
Found at i:52123048 original size:16 final size:18
Alignment explanation
Indices: 52123024--52123060 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
52123014 AATTTTATCA
*
52123024 TTATTAATT-TAAAAT-T
1 TTATAAATTATAAAATGT
52123040 TTATAAATTATAAAATGT
1 TTATAAATTATAAAATGT
52123058 TTA
1 TTA
52123061 AATGAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATAAATTATAAAATGT
Found at i:52139091 original size:19 final size:19
Alignment explanation
Indices: 52139041--52139110 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
52139031 CAACTTATTT
*
52139041 ATTAATCTAAGATGAA-T-T
1 ATTAA-CTAAGATGAACTCA
*
52139059 ATTAAATAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
*
52139078 ATTAACTAAAATGAACTCA
1 ATTAACTAAGATGAACTCA
52139097 ATTAACTAAGATGA
1 ATTAACTAAGATGA
52139111 GTAATTTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
17 9 0.20
18 6 0.13
19 30 0.67
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:52141358 original size:26 final size:26
Alignment explanation
Indices: 52141308--52141360 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
52141298 CTCATTTTGC
* *
52141308 TTTCTCTCATTCTTTTTCATTTTCTT
1 TTTCTCGCATTCTTTTTCATCTTCTT
52141334 TTTCTCGCATCTCTTTTTC-TCTTCTT
1 TTTCTCGCAT-TCTTTTTCATCTTCTT
52141360 T
1 T
52141361 CGATTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.06, C:0.26, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTCTCGCATTCTTTTTCATCTTCTT
Found at i:52143670 original size:17 final size:18
Alignment explanation
Indices: 52143640--52143673 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52143630 AGCAACTCAT
52143640 TTATTAATCTAAGATGAG
1 TTATTAATCTAAGATGAG
52143658 TTATTAA-CTAAGATGA
1 TTATTAATCTAAGATGA
52143674 ACTCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (18 bp):
TTATTAATCTAAGATGAG
Found at i:52143684 original size:19 final size:19
Alignment explanation
Indices: 52143660--52143712 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
52143650 AAGATGAGTT
52143660 ATTAACTAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
52143679 ATTAACTCAA-ATGAACTCA
1 ATTAACT-AAGATGAACTCA
52143698 ATTAACTAAGATGAA
1 ATTAACTAAGATGAA
52143713 TAATTTATTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
19 28 0.88
20 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.26
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:52148094 original size:42 final size:41
Alignment explanation
Indices: 52148036--52148114 Score: 140
Period size: 42 Copynumber: 1.9 Consensus size: 41
52148026 AAGGGAGTTG
*
52148036 TTATTTTAAAGGCATTTGTTAATTTTATTATTAATTTTGTTA
1 TTATTTTAAAGACATTTGTTAATTTTATTATT-ATTTTGTTA
52148078 TTATTTTAAAGACATTTGTTAATTTTATTATTATTTT
1 TTATTTTAAAGACATTTGTTAATTTTATTATTATTTT
52148115 AGAGGTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (41 bp):
TTATTTTAAAGACATTTGTTAATTTTATTATTATTTTGTTA
Found at i:52148242 original size:15 final size:15
Alignment explanation
Indices: 52148224--52148274 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 15
52148214 TTTATTTTAG
52148224 TATTTTTTAAATATT
1 TATTTTTTAAATATT
*
52148239 TATTTTTAAAAAATATT
1 TATTTTT--TAAATATT
*
52148256 TA-TTTTTAAA-ACT
1 TATTTTTTAAATATT
52148269 TATTTT
1 TATTTT
52148275 AAAAAGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 4 0.13
14 6 0.20
15 7 0.23
16 4 0.13
17 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTTTTAAATATT
Found at i:52148273 original size:17 final size:17
Alignment explanation
Indices: 52148232--52148266 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52148222 AGTATTTTTT
52148232 AAATATTTATTTTTAAA
1 AAATATTTATTTTTAAA
52148249 AAATATTTATTTTTAAA
1 AAATATTTATTTTTAAA
52148266 A
1 A
52148267 CTTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATTTATTTTTAAA
Found at i:52150699 original size:30 final size:31
Alignment explanation
Indices: 52150663--52150742 Score: 128
Period size: 30 Copynumber: 2.6 Consensus size: 31
52150653 TTCATGTATC
52150663 ATTATATTAAATTATTTAAATATT-TTTATT
1 ATTATATTAAATTATTTAAATATTATTTATT
*
52150693 ATTATATTAAATTATTTAAATCTTATTTATT
1 ATTATATTAAATTATTTAAATATTATTTATT
*
52150724 ATTATATTTAATT-TTTAAA
1 ATTATATTAAATTATTTAAA
52150743 ATAGTTTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 29 0.62
31 18 0.38
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTATATTAAATTATTTAAATATTATTTATT
Done.