Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 140 of 218
Found at i:42765962 original size:48 final size:47
Alignment explanation
Indices: 42765891--42766042 Score: 180
Period size: 47 Copynumber: 3.2 Consensus size: 47
42765881 ACAATTATTC
* * * *
42765891 GGACAACATTGATTTG-TACAAAAATGAACAGCATTTAAGCACCAATTT
1 GGACAACATTAATATGCTA-AAAAATGAACAGCATTTAAACAAC-ATTT
* * *
42765939 GGACAACATTAATATGCTAAAAAACGAACAGCATTTAACCAACATTC
1 GGACAACATTAATATGCTAAAAAATGAACAGCATTTAAACAACATTT
* * * *
42765986 GAACAACATCAGTATGCTAAAAAATGGACAGCATTTAAACAACATTT
1 GGACAACATTAATATGCTAAAAAATGAACAGCATTTAAACAACATTT
42766033 GGACAACATT
1 GGACAACATT
42766043 TAATCAACAT
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 51 0.58
48 35 0.40
49 2 0.02
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (47 bp):
GGACAACATTAATATGCTAAAAAATGAACAGCATTTAAACAACATTT
Found at i:42766042 original size:22 final size:22
Alignment explanation
Indices: 42766010--42766247 Score: 120
Period size: 22 Copynumber: 10.5 Consensus size: 22
42766000 TGCTAAAAAA
42766010 TGGACAGCATTTAAACAACATT
1 TGGACAGCATTTAAACAACATT
* *
42766032 TGGACAACATTTAATCAACATT
1 TGGACAGCATTTAAACAACATT
* * ** **
42766054 CGGACATCATTAGTATGCTAA-AAA
1 TGGACAGCATT--TAAAC-AACATT
*
42766078 TGGACAGTATTTAAACAACATT
1 TGGACAGCATTTAAACAACATT
** * *
42766100 CAGACAACATTTAACCAACATT
1 TGGACAGCATTTAAACAACATT
* ** * **
42766122 TGGACAACATTAGTATGCTAAAAAA
1 TGGACAGCATT--TAAAC-AACATT
*
42766147 TGGACAGCATTTAAACAACAGT
1 TGGACAGCATTTAAACAACATT
* * *
42766169 CGGACAGCATTTAACCAATATT
1 TGGACAGCATTTAAACAACATT
* * **
42766191 TGGACAGCA-TTAGCATGCTAAAAAA
1 TGGACAGCATTTA--A-AC-AACATT
42766216 TGGACAGCATTTAAACAACATT
1 TGGACAGCATTTAAACAACATT
*
42766238 CGGACAGCAT
1 TGGACAGCAT
42766248 CTTGTCATAA
Statistics
Matches: 157, Mismatches: 47, Indels: 24
0.69 0.21 0.11
Matches are distributed among these distances:
21 5 0.03
22 100 0.64
23 5 0.03
24 17 0.11
25 27 0.17
26 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (22 bp):
TGGACAGCATTTAAACAACATT
Found at i:42766108 original size:11 final size:11
Alignment explanation
Indices: 42766086--42766132 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
42766076 AATGGACAGT
*
42766086 ATTTAAACAAC
1 ATTTAGACAAC
*
42766097 ATTCAGACAAC
1 ATTTAGACAAC
42766108 ATTTA-ACCAAC
1 ATTTAGA-CAAC
*
42766119 ATTTGGACAAC
1 ATTTAGACAAC
42766130 ATT
1 ATT
42766133 AGTATGCTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 1 0.03
11 28 0.93
12 1 0.03
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (11 bp):
ATTTAGACAAC
Found at i:42766244 original size:69 final size:69
Alignment explanation
Indices: 42765966--42766247 Score: 422
Period size: 69 Copynumber: 4.1 Consensus size: 69
42765956 TAAAAAACGA
* *
42765966 ACAGCATTTAACCAACATTCGAACAACATCAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
1 ACAGCATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
*
42766031 TTGG
66 TCGG
* * * *
42766035 ACAACATTTAATCAACATTCGGACATCATTAGTATGCT-AAAAATGGACAGTATTTAAACAACAT
1 ACAGCATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
*
42766099 TCAG
66 TCGG
* * *
42766103 ACAACATTTAACCAACATTTGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAG
1 ACAGCATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
42766168 TCGG
66 TCGG
* * * *
42766172 ACAGCATTTAACCAATATTTGGACAGCATTAGCATGCTAAAAAATGGACAGCATTTAAACAACAT
1 ACAGCATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
42766237 TCGG
66 TCGG
42766241 ACAGCAT
1 ACAGCAT
42766248 CTTGTCATAA
Statistics
Matches: 193, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
68 62 0.32
69 131 0.68
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (69 bp):
ACAGCATTTAACCAACATTCGGACAACATTAGTATGCTAAAAAATGGACAGCATTTAAACAACAT
TCGG
Found at i:42766917 original size:14 final size:14
Alignment explanation
Indices: 42766898--42766926 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42766888 TCGATGCCAC
42766898 TATCCCAGACAGGG
1 TATCCCAGACAGGG
42766912 TATCCCAGACAGGG
1 TATCCCAGACAGGG
42766926 T
1 T
42766927 CTTACACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (14 bp):
TATCCCAGACAGGG
Found at i:42775214 original size:5 final size:5
Alignment explanation
Indices: 42775204--42775233 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
42775194 TCTTTTTCTA
42775204 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
42775234 TATAAGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:42777976 original size:24 final size:25
Alignment explanation
Indices: 42777914--42777970 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
42777904 TCATGATATT
**
42777914 TAGCTCTCACGAGCTTCCCGTTATA
1 TAGCTCTTGCGAGCTTCCCGTTATA
* *
42777939 TGGTTCTTGCGAGCTTCCCGTTA-A
1 TAGCTCTTGCGAGCTTCCCGTTATA
42777963 TAGCTCTT
1 TAGCTCTT
42777971 CGGAGCATCC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (25 bp):
TAGCTCTTGCGAGCTTCCCGTTATA
Found at i:42785500 original size:6 final size:6
Alignment explanation
Indices: 42785489--42785514 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42785479 ATTTCACGAA
42785489 TCACTT TCACTT TCACTT TCACTT TC
1 TCACTT TCACTT TCACTT TCACTT TC
42785515 TTTTCAGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TCACTT
Found at i:42789593 original size:29 final size:29
Alignment explanation
Indices: 42789539--42789597 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
42789529 AGCCCATATA
*
42789539 TTTCACAATTTCTCACATTTGACCCACAAT
1 TTTCACAATTTCTCACATTTAACCCA-AAT
*
42789569 TTTCAC-ATTTCTCA-TTTTAACCCCAAAT
1 TTTCACAATTTCTCACATTTAA-CCCAAAT
42789597 T
1 T
42789598 GACATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 8 0.31
29 12 0.46
30 6 0.23
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTCACAATTTCTCACATTTAACCCAAAT
Found at i:42793994 original size:37 final size:37
Alignment explanation
Indices: 42793944--42794022 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42793934 TTATTACGAA
* *
42793944 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42793981 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42794018 GTCTT
1 GTCTT
42794023 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42794290 original size:47 final size:47
Alignment explanation
Indices: 42794141--42794514 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
42794131 CCCTTCGGGA
* * * * * * * *
42794141 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42794188 C-TGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42794233 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42794280 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42794327 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42794374 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42794419 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42794464 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42794511 CTTA
1 CTTA
42794515 CTATCATTTC
Statistics
Matches: 308, Mismatches: 15, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
45 103 0.33
46 48 0.16
47 157 0.51
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42794382 original size:22 final size:22
Alignment explanation
Indices: 42794355--42794428 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
42794345 TTTCACATTC
42794355 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
*** *** *
42794377 ATCACATATAC-ACTTTCACATT
1 ATCACATCGGCTA-TTAGGCCTT
42794399 CATCACATCGGCTATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
42794422 ATCACAT
1 ATCACAT
42794429 ATACACTTTC
Statistics
Matches: 35, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
21 1 0.03
22 20 0.57
23 13 0.37
24 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:42794478 original size:92 final size:92
Alignment explanation
Indices: 42794141--42794514 Score: 558
Period size: 92 Copynumber: 4.0 Consensus size: 92
42794131 CCCTTCGGGA
* * * * * * * *
42794141 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGCC-TGTCACATATATACAC
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
42794205 TTTCACATTCA-CACATCGGCCATTAGGC
64 TTTCACATTCATCACATCGGCCATTAGGC
*
42794233 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
42794298 TTTCACATTCATCACATCGGCTATTAGGC
64 TTTCACATTCATCACATCGGCCATTAGGC
*
42794327 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATACAC
1 CTTAT--CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
42794390 TTTCACATTCATCACATCGGCTATTAGGC
64 TTTCACATTCATCACATCGGCCATTAGGC
42794419 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
42794484 TCACATTCATCACATCGGCCATTAGGC
66 TCACATTCATCACATCGGCCATTAGGC
42794511 CTTA
1 CTTA
42794515 CTATCATTTC
Statistics
Matches: 260, Mismatches: 14, Indels: 16
0.90 0.05 0.06
Matches are distributed among these distances:
90 47 0.18
92 120 0.46
93 25 0.10
94 65 0.25
96 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (92 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGC
Found at i:42798201 original size:40 final size:40
Alignment explanation
Indices: 42798102--42798222 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 40
42798092 CGAATACACG
* * *
42798102 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATCA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGC-CGGATATCA
* *
42798143 TGCCACTAGCACGAATGCTCTTCGGAACTTAGCCGCGATA-CA
1 T--CACTAGCATGAATGCTCTTCGGGACTTAGCCG-GATATCA
42798185 TCACTAGCATGAATGCTCTTCGGGACTTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGAC-TTAG-CCGGAT
42798223 TTATTGCACT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
40 23 0.34
41 8 0.12
42 8 0.12
43 29 0.43
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCGGATATCA
Found at i:42798272 original size:83 final size:85
Alignment explanation
Indices: 42798095--42798308 Score: 214
Period size: 83 Copynumber: 2.6 Consensus size: 85
42798085 GAAGGCCCGA
* * * *
42798095 ATACACGTCACCAGCATGATTGCTCTTCGGGA-TTTAGCACGGATATCATGCCACTAGCACGAAT
1 ATACA-GTCACTAGCATGAATGCTCTTCGGGACTTTAGCCCGGATATCATGCCACTAGCACCAAT
42798159 GCTCTTCGGAACTTAGCCGCG
65 GCTCTTCGGAACTTAGCCGCG
* *
42798180 ATACA-TCACTAGCATGAATGCTCTTCGGGACTTTAGCCCGGAT-TTATTG-CACTCGCACCAAT
1 ATACAGTCACTAGCATGAATGCTCTTCGGGACTTTAGCCCGGATATCA-TGCCACTAGCACCAAT
* *
42798242 GC-CTTCGGATCTTAGTC-CG
65 GCTCTTCGGAACTTAGCCGCG
* * *
42798261 ATA-ATGGTCACTTAGCA-CAAAGC-CTTCGGGAC-TTAGCCCGGACATCAT
1 ATACA--GTCAC-TAGCATGAATGCTCTTCGGGACTTTAGCCCGGATATCAT
42798309 TCGAATAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 18
0.79 0.09 0.13
Matches are distributed among these distances:
80 1 0.01
81 16 0.15
82 24 0.22
83 46 0.42
84 18 0.16
85 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (85 bp):
ATACAGTCACTAGCATGAATGCTCTTCGGGACTTTAGCCCGGATATCATGCCACTAGCACCAATG
CTCTTCGGAACTTAGCCGCG
Found at i:42798649 original size:29 final size:29
Alignment explanation
Indices: 42798610--42798688 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
42798600 CTTAATAATC
*
42798610 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
42798640 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
42798669 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42798689 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:42798731 original size:43 final size:43
Alignment explanation
Indices: 42798670--42798772 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
42798660 TGCATTTCAA
42798670 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42798713 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
42798756 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
42798773 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:42798802 original size:107 final size:107
Alignment explanation
Indices: 42798677--42798879 Score: 397
Period size: 107 Copynumber: 1.9 Consensus size: 107
42798667 CAAGCCCGCA
42798677 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAAC
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAAC
42798742 CGTGAACACTTATTGCCCGCACACTTAGTGCTGAAAACCAAC
66 CGTGAACACTTATTGCCCGCACACTTAGTGCTGAAAACCAAC
*
42798784 CACTTAGTGCCAATCTCACAACTGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAAC
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAAC
42798849 CGTGAACACTTATTGCCCGCACACTTAGTGC
66 CGTGAACACTTATTGCCCGCACACTTAGTGC
42798880 CAATCTCAAC
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 95 1.00
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (107 bp):
CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAAC
CGTGAACACTTATTGCCCGCACACTTAGTGCTGAAAACCAAC
Found at i:42798910 original size:45 final size:43
Alignment explanation
Indices: 42798784--42798924 Score: 255
Period size: 43 Copynumber: 3.2 Consensus size: 43
42798774 GAAAACCAAC
*
42798784 CACTTAGTGCCAATCTCACAACTGTGAACACTTATTGCCCGCA
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
42798827 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
1 CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
42798870 CACTTAGTGCCAATCTCAACAAACCGTGAACACTTATTGCCCGCA
1 CACTTAGTGCCAATCTC-AC-AACCGTGAACACTTATTGCCCGCA
42798915 CACTTAGTGC
1 CACTTAGTGC
42798925 TGAAACCAAC
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
43 59 0.62
44 2 0.02
45 34 0.36
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.24
Consensus pattern (43 bp):
CACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCA
Found at i:42800832 original size:37 final size:37
Alignment explanation
Indices: 42800782--42800860 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42800772 TTATTACGAA
* *
42800782 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42800819 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42800856 GTCTT
1 GTCTT
42800861 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42801129 original size:47 final size:47
Alignment explanation
Indices: 42800979--42801357 Score: 598
Period size: 47 Copynumber: 8.1 Consensus size: 47
42800969 CCCTTCGGGA
* * * * * * * *
42800979 CTTATCACATTTATGCACTTTCGCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42801026 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42801072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42801119 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42801166 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42801213 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42801260 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42801307 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42801354 CTTA
1 CTTA
42801358 CTATCATTTC
Statistics
Matches: 313, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 40 0.13
47 273 0.87
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42815116 original size:32 final size:34
Alignment explanation
Indices: 42815047--42815116 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
42815037 ATTTATTTGA
*
42815047 AATTTTATATAATTTAATAAAATTATTTGAATGT
1 AATTTTATATAATTTAATAAAATTATTTGAATAT
42815081 AATTTTA-AT-ATTTAAATAAAAATTA-TT-AATAT
1 AATTTTATATAATTT-AAT-AAAATTATTTGAATAT
42815113 AATT
1 AATT
42815117 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 12 0.36
33 7 0.21
34 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
AATTTTATATAATTTAATAAAATTATTTGAATAT
Found at i:42815138 original size:24 final size:25
Alignment explanation
Indices: 42815086--42815140 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
42815076 AATGTAATTT
*
42815086 TAAT-ATTTAAATAAAAATTATTAA
1 TAATAATTAAAATAAAAATTATTAA
* *
42815110 T-ATAATTAAAAT-AAAATTGTTTA
1 TAATAATTAAAATAAAAATTATTAA
42815133 TAATAATT
1 TAATAATT
42815141 TTAAAACCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATAATTAAAATAAAAATTATTAA
Found at i:42821469 original size:30 final size:31
Alignment explanation
Indices: 42821420--42821477 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
42821410 ATTATTGAAC
*
42821420 TATTCAAAAGTTTTCATTTAAGTCATTAAAT
1 TATTCAAAAGTTTTCATTTAAATCATTAAAT
* *
42821451 TATTCGAAA-TTTTTATTTAAATCATTA
1 TATTCAAAAGTTTTCATTTAAATCATTA
42821478 GGCTGCTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (31 bp):
TATTCAAAAGTTTTCATTTAAATCATTAAAT
Found at i:42822133 original size:13 final size:14
Alignment explanation
Indices: 42822101--42822133 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
42822091 ATAAATTAAA
*
42822101 AAAATTAAATGTTG
1 AAAATTAAATATTG
42822115 AAAATTAAATATT-
1 AAAATTAAATATTG
42822128 AAAATT
1 AAAATT
42822134 TTTAGTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
AAAATTAAATATTG
Found at i:42822433 original size:31 final size:31
Alignment explanation
Indices: 42822398--42822520 Score: 94
Period size: 31 Copynumber: 4.1 Consensus size: 31
42822388 ATGTGTATGA
*
42822398 TTGAATAACAATCAAAGTTTCATGTATATAT
1 TTGAACAACAATCAAAGTTTCATGTATATAT
* * * *
42822429 TTGAACCACAATCAAAGTTTTATGTGTATAA
1 TTGAACAACAATCAAAGTTTCATGTATATAT
* * *
42822460 TTGTACCA-AATCAAAGTTT-ATATATCA-AT
1 TTGAACAACAATCAAAGTTTCATGTAT-ATAT
* **
42822489 TTGCACATTGAATCAAAG-TTCATGTATA-AT
1 TTGAACA-ACAATCAAAGTTTCATGTATATAT
42822519 TT
1 TT
42822521 TAAAATTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
29 10 0.13
30 19 0.25
31 46 0.61
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (31 bp):
TTGAACAACAATCAAAGTTTCATGTATATAT
Found at i:42822474 original size:30 final size:31
Alignment explanation
Indices: 42822405--42822478 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
42822395 TGATTGAATA
*
42822405 ACAATCAAAGTTTCATGTATATATTTGAACC
1 ACAATCAAAGTTTCATGTATATAATTGAACC
* * *
42822436 ACAATCAAAGTTTTATGTGTATAATTGTACC
1 ACAATCAAAGTTTCATGTATATAATTGAACC
42822467 A-AATCAAAGTTT
1 ACAATCAAAGTTT
42822479 ATATATCAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 11 0.28
31 28 0.72
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (31 bp):
ACAATCAAAGTTTCATGTATATAATTGAACC
Found at i:42822853 original size:23 final size:23
Alignment explanation
Indices: 42822823--42822867 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
42822813 TTAATGTAGG
42822823 ATTGTTTGTTAGCATTGGTTAAT
1 ATTGTTTGTTAGCATTGGTTAAT
42822846 ATTGTTTGTTAGCATTGGTTAA
1 ATTGTTTGTTAGCATTGGTTAA
42822868 GCTCAGTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (23 bp):
ATTGTTTGTTAGCATTGGTTAAT
Found at i:42828218 original size:15 final size:15
Alignment explanation
Indices: 42828198--42828229 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
42828188 CATTTCACTA
*
42828198 TTATGTCTTTTATAT
1 TTATGTATTTTATAT
42828213 TTATGTATTTTATAT
1 TTATGTATTTTATAT
42828228 TT
1 TT
42828230 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (15 bp):
TTATGTATTTTATAT
Found at i:42829954 original size:12 final size:12
Alignment explanation
Indices: 42829937--42829984 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
42829927 TTTTAATAAT
42829937 ATTTAATATTAA
1 ATTTAATATTAA
42829949 ATTTAATCA-TAA
1 ATTTAAT-ATTAA
42829961 ATATT-ATATT-A
1 AT-TTAATATTAA
42829972 ATTTAATATTAA
1 ATTTAATATTAA
42829984 A
1 A
42829985 GTGATTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 2 0.06
11 9 0.29
12 17 0.55
13 3 0.10
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:42832150 original size:26 final size:27
Alignment explanation
Indices: 42832114--42832186 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
42832104 TATTTTCTTG
*
42832114 AAATTTTACCAGGGGTAAAATTG-TTA
1 AAATTTTACCAGGGGTAAAATTGATCA
42832140 AAATTTTACCAGGGGTAAAA-TGATCA
1 AAATTTTACCAGGGGTAAAATTGATCA
***
42832166 AAATTTTGTTAGGGGTAAAAT
1 AAATTTTACCAGGGGTAAAAT
42832187 AGGGATGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.33
Consensus pattern (27 bp):
AAATTTTACCAGGGGTAAAATTGATCA
Found at i:42841997 original size:29 final size:29
Alignment explanation
Indices: 42841965--42842031 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
42841955 ACCAAAAAAA
*
42841965 GCCGTTTTTTTCAAAATTTACTGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
42841994 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
*
42842023 GCCATTTTT
1 GCCGTTTTT
42842032 CACGAAATCG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.43
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:42850139 original size:3 final size:3
Alignment explanation
Indices: 42850131--42850169 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
42850121 GTTTTCTCCC
42850131 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
42850170 GTTTTACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:42860498 original size:17 final size:17
Alignment explanation
Indices: 42860476--42860508 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
42860466 AATGGATCAT
42860476 GGTTTATCTTTAGTTCC
1 GGTTTATCTTTAGTTCC
42860493 GGTTTATCTTTAGTTC
1 GGTTTATCTTTAGTTC
42860509 TCAATTTGAG
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):
GGTTTATCTTTAGTTCC
Found at i:42861304 original size:21 final size:20
Alignment explanation
Indices: 42861237--42861304 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
42861227 TTATAACTAC
42861237 CATTAGTGTGCCTTAATTGGA
1 CATTAGTGTG-CTTAATTGGA
*
42861258 CATTTAGTGTGGTTATGATT--A
1 CA-TTAGTGTGCTTA--ATTGGA
42861279 CCATTAGTGTTGCTTAATTGGA
1 -CATTAGTG-TGCTTAATTGGA
42861301 CATT
1 CATT
42861305 TAACGTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
20 3 0.08
21 16 0.42
22 16 0.42
23 3 0.08
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (20 bp):
CATTAGTGTGCTTAATTGGA
Found at i:42861316 original size:43 final size:43
Alignment explanation
Indices: 42861227--42861325 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
42861217 TAGCTCTCTC
**
42861227 TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAGTGTGG
1 TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAACGTGG
* * *
42861270 TTATGATTACCATTAGTGTTG-CTTAATTGGACATTTAACGTTG
1 TTATAACTACCATTAGTG-TGCCTTAATTGGACATTTAACGTGG
42861313 TTATAACTACCAT
1 TTATAACTACCAT
42861326 CAAACTTTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (43 bp):
TTATAACTACCATTAGTGTGCCTTAATTGGACATTTAACGTGG
Found at i:42861927 original size:47 final size:47
Alignment explanation
Indices: 42861876--42862019 Score: 131
Period size: 47 Copynumber: 3.1 Consensus size: 47
42861866 ATTATTAAGA
*
42861876 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATAAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATAAATT
* * * * **
42861923 A-TTT-T-AAATTATACA-AATTCATATAAGA-CA-ATTTATTATCAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATAAATT
*
42861967 ATTTTATGAAATTATATATTATTATTAAATTATATTTAATA-ATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATA-AATT
42862014 ATTTTA
1 ATTTTA
42862020 AATTATACAA
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
43 3 0.04
44 22 0.30
45 9 0.12
46 9 0.12
47 27 0.37
48 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATAAATT
Found at i:42862070 original size:91 final size:90
Alignment explanation
Indices: 42861846--42862060 Score: 342
Period size: 91 Copynumber: 2.4 Consensus size: 90
42861836 TGGTTTTAGT
*
42861846 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTA-TAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
42861911 TTAATATAAATTATTTTAAATTATAC
65 TTAATATAAATTATTTTAAATTATAC
* *
42861937 AAATTCATATAAGACAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAT-AAGAATTTTATGAAATTATATATCATTATTAAATTATAT
42862002 TTAATA-ATAATTATTTTAAATTATAC
65 TTAATATA-AATTATTTTAAATTATAC
* *
42862028 AAATTCATATAACAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTA-TAAGAATT
42862061 ATTTTAAATT
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
90 2 0.02
91 112 0.97
92 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
AAATTCATATAAGAAAATTTATTATAAGAATTTTATGAAATTATATATCATTATTAAATTATATT
TAATATAAATTATTTTAAATTATAC
Found at i:42862146 original size:59 final size:58
Alignment explanation
Indices: 42862053--42862266 Score: 197
Period size: 59 Copynumber: 3.7 Consensus size: 58
42862043 AATTTATTAG
* *
42862053 TAATAATTATTTTAAATT-T-TATTA-A-ATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTCAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
* * ** * * *
42862107 TAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATA
1 TAATAATTATTTCAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * *
42862167 TAAGAA-TATTT-ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTCA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
42862227 TAATAATTATTTCAAATTATATTTTATAATATCATATATT
1 TAATAATTATTTCAAATTATATTTTAT-ATATCATATATT
42862267 ATGATTTTAG
Statistics
Matches: 121, Mismatches: 26, Indels: 21
0.72 0.15 0.12
Matches are distributed among these distances:
54 17 0.14
55 1 0.01
56 4 0.03
57 1 0.01
58 2 0.02
59 45 0.37
60 14 0.12
61 34 0.28
62 3 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (58 bp):
TAATAATTATTTCAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
Found at i:42862195 original size:15 final size:16
Alignment explanation
Indices: 42862167--42862196 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42862157 TAAATTCATA
42862167 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
42862183 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
42862197 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:42862198 original size:120 final size:120
Alignment explanation
Indices: 42862067--42862356 Score: 544
Period size: 120 Copynumber: 2.4 Consensus size: 120
42862057 AATTATTTTA
*
42862067 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
42862132 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
66 ATAATATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
42862187 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
42862252 ATAATATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAATATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
42862307 AAATTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
42862357 GTTAAAATAT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 166 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAATATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:42862199 original size:130 final size:127
Alignment explanation
Indices: 42862028--42862356 Score: 454
Period size: 120 Copynumber: 2.7 Consensus size: 127
42862018 TAAATTATAC
* * * *
42862028 AAATTCATATAACAAAATTTATTAGTAATAATTATTTTAAATTTTATTAAATCATATATTTTAAT
1 AAATTCATATAAGAATATTTATTATTAAGAATT-TTTTAAA-TTTATTAAAT-ATATATTTTAAT
*
42862093 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCATATATTATGATTTTAGT
63 TAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAATATCATATATTATGATTTTAGT
*
42862158 AAATTCATATAAGAATATTTATTATTAAGAA--TTTT--A-TTA--AATTATATATTTTAATTAA
1 AAATTCATATAAGAATATTTATTATTAAGAATTTTTTAAATTTATTAAATATATATTTTAATTAA
42862216 AATATATTTAATAATAATTATTTCAAATTATATTTTATAATATCATATATTATGATTTTAGT
66 AATATATTTAATAATAATTATTTCAAATTATATTTTATAATATCATATATTATGATTTTAGT
*
42862278 AAATTCATATAAGAATATTGATTATTAAG--------AAATTTATTAAATTATATATTTTAATTA
1 AAATTCATATAAGAATATTTATTATTAAGAATTTTTTAAATTTATTAAA-TATATATTTTAATTA
42862335 AAATATATTTAATAATAATTAT
65 AAATATATTTAATAATAATTAT
42862357 GTTAAAATAT
Statistics
Matches: 185, Mismatches: 8, Indels: 22
0.86 0.04 0.10
Matches are distributed among these distances:
116 1 0.01
117 3 0.02
119 2 0.01
120 141 0.76
121 3 0.02
123 3 0.02
125 1 0.01
127 4 0.02
130 27 0.15
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (127 bp):
AAATTCATATAAGAATATTTATTATTAAGAATTTTTTAAATTTATTAAATATATATTTTAATTAA
AATATATTTAATAATAATTATTTCAAATTATATTTTATAATATCATATATTATGATTTTAGT
Found at i:42862205 original size:61 final size:61
Alignment explanation
Indices: 42862140--42862327 Score: 197
Period size: 61 Copynumber: 3.1 Consensus size: 61
42862130 TTATAGTATC
42862140 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
* * ** * * * * * * *
42862201 ATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAATATC
1 ATATATTATGATTTTAGTAAATTCATATAAGAA-TATTT-ATTATTAAGAATTTTATTAA-ATT
* *
42862260 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAATTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
42862321 ATATATT
1 ATATATT
42862328 TTAATTAAAA
Statistics
Matches: 95, Mismatches: 24, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
58 4 0.04
59 33 0.35
60 14 0.15
61 40 0.42
62 4 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
Found at i:42862216 original size:18 final size:17
Alignment explanation
Indices: 42862188--42862222 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42862178 ATTATTAAGA
*
42862188 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42862205 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42862223 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42862268 original size:22 final size:24
Alignment explanation
Indices: 42862242--42862288 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
42862232 ATTATTTCAA
42862242 ATTAT-ATTTTA-T-AATATCATAT
1 ATTATGATTTTAGTAAAT-TCATAT
42862264 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
42862288 A
1 A
42862289 AGAATATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 8 0.36
25 3 0.14
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:42862324 original size:59 final size:58
Alignment explanation
Indices: 42862141--42862324 Score: 157
Period size: 57 Copynumber: 3.1 Consensus size: 58
42862131 TATAGTATCA
*
42862141 TATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAATTCATATAAGAATA-TTATTATTAAGAAATTTATTAAAT
* * * * *
42862200 TATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATTATT-TCAA-ATTATATTT-TATAATA
1 TATATTATGATTTTAGT-AAAT-TCATATAAGAAT-ATTATTATTAAGA--A-ATTTAT-TAA-A
42862258 T
58 T
42862259 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAAATTTATTAAAT
1 --TATATTATGATTTTAGTAAATTCATATAAGAATATT-ATTATTAAGAAATTTATTAAAT
42862320 TATAT
1 TATAT
42862325 ATTTTAATTA
Statistics
Matches: 96, Mismatches: 11, Indels: 36
0.67 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 8 0.08
57 19 0.20
58 11 0.11
59 11 0.11
61 6 0.06
62 14 0.15
63 17 0.18
64 8 0.08
65 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTATTATTAAGAAATTTATTAAAT
Found at i:42862562 original size:44 final size:45
Alignment explanation
Indices: 42862498--42862595 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
42862488 CTATTACACC
* *
42862498 TCCATTCCACTCAACTAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTACACTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
42862542 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACACTCAACCAAACAATAGAATTACTATTACGCCTCTAT
42862587 TCCATTACA
1 TCCATTACA
42862596 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 21 0.45
45 25 0.53
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.31
Consensus pattern (45 bp):
TCCATTACACTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:42870214 original size:20 final size:20
Alignment explanation
Indices: 42870176--42870214 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
42870166 TATAGTTGAA
*
42870176 ATAGTATTTTATGCTTTTTC
1 ATAGTATTTTATGATTTTTC
42870196 ATAGT-TTTTATGATATTTT
1 ATAGTATTTTATGAT-TTTT
42870215 GATACTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (20 bp):
ATAGTATTTTATGATTTTTC
Found at i:42871595 original size:9 final size:9
Alignment explanation
Indices: 42871578--42871614 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
42871568 TGAGTTTTCG
42871578 AATTCGAAT
1 AATTCGAAT
*
42871587 AACTCGAAT
1 AATTCGAAT
*
42871596 AATTCAAAT
1 AATTCGAAT
42871605 AATTCGAAT
1 AATTCGAAT
42871614 A
1 A
42871615 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42871865 original size:30 final size:31
Alignment explanation
Indices: 42871829--42871888 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
42871819 AAACCTTTTA
*
42871829 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCATCCCAC
* *
42871859 TTTTCCCCTAAAACTTTTATTCCCATCCCA
1 TTTTCCCCCAAAACTTTTACTCCCATCCCA
42871889 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCATCCCAC
Found at i:42884821 original size:35 final size:34
Alignment explanation
Indices: 42884730--42885003 Score: 308
Period size: 35 Copynumber: 8.1 Consensus size: 34
42884720 GTCCAAAAAG
* * *
42884730 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAACA
*
42884764 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAAAGATTCCCTGCAACA
* *
42884797 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAACA
* *
42884831 AAATGAT-GTGAACAGGAAAGATTCCCTACAACA
1 AAATAATCGTGAACAGGAAAGATTCCCTGCAACA
* *
42884864 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAACA
* *
42884899 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAACA
* *
42884933 AAATGAT-GTGAACAGGAAAGGTTCCCTGCAACA
1 AAATAATCGTGAACAGGAAAGATTCCCTGCAACA
* * *
42884966 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAAAGATTCCCTGCAACA
42885001 AAA
1 AAA
42885004 GACAAGTGAA
Statistics
Matches: 205, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
32 66 0.32
33 17 0.08
34 18 0.09
35 104 0.51
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAAAGATTCCCTGCAACA
Found at i:42884838 original size:67 final size:67
Alignment explanation
Indices: 42884730--42885003 Score: 331
Period size: 67 Copynumber: 4.0 Consensus size: 67
42884720 GTCCAAAAAG
* *
42884730 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAAAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
42884794 ACA
65 ACA
* *
42884797 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAAAGATTCCCTACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
42884861 ACA
65 ACA
* * *
42884864 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATAAT-CGTGAACAGGAAAGATTCCCTG
*
42884929 CAA-G
63 CAACA
* * * * *
42884933 AAATGAT-GTGAACAGGAAAGGTTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
*
42884997 AAGA
64 AACA
42885001 AAA
1 AAA
42885004 GACAAGTGAA
Statistics
Matches: 185, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
66 1 0.01
67 147 0.79
68 9 0.05
69 6 0.03
70 22 0.12
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (67 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:42884913 original size:102 final size:102
Alignment explanation
Indices: 42884740--42885003 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 102
42884730 AAATAATACA
* * *
42884740 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAAAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAAAGATTCCCTGCAACAAAATA
42884802 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* *
42884839 TGAACAGGAAAGATTCCCTACAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAAAGATTCCCTGCAACAAAATA
*
42884904 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * *
42884941 TGAACAGGAAAGGTTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAAAGATTCCCTGCAACAAAA
42885004 GACAAGTGAA
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 21 0.14
100 5 0.03
102 123 0.83
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAAAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:42885313 original size:13 final size:13
Alignment explanation
Indices: 42885297--42885330 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
42885287 TGCATTTACA
42885297 AAATTAAGTTTTC
1 AAATTAAGTTTTC
42885310 AAATTAAGTTTTC
1 AAATTAAGTTTTC
42885323 AAACTTAA
1 AAA-TTAA
42885331 ACTATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
AAATTAAGTTTTC
Found at i:42889253 original size:21 final size:22
Alignment explanation
Indices: 42889229--42889273 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
42889219 AGAAAAAGAG
42889229 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
42889250 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
42889272 AA
1 AA
42889274 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:42892150 original size:35 final size:35
Alignment explanation
Indices: 42892070--42892265 Score: 242
Period size: 35 Copynumber: 5.8 Consensus size: 35
42892060 AATAATACAC
* * *
42892070 GAACAGGAGAGATTCCCTGCAA-GAAATGA--TGT
1 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
42892102 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
1 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
* *
42892137 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
1 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
* * *
42892172 GAACAGGAGAGATTCCCTGCAA-GAAATGA--TGT
1 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
* *
42892204 GAACAGGAAAGATTCCCTGCAACAGAATAATGCGT
1 GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
* *
42892239 GAACAGGAAATATTCCCTGCAAGAAAA
1 GAACAGGAAAGATTCCCTGCAACAAAA
42892266 GACAAGTGAA
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
32 44 0.31
33 9 0.06
34 5 0.04
35 84 0.59
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (35 bp):
GAACAGGAAAGATTCCCTGCAACAAAATAATGTGT
Found at i:42892205 original size:67 final size:68
Alignment explanation
Indices: 42892070--42892264 Score: 272
Period size: 67 Copynumber: 2.9 Consensus size: 68
42892060 AATAATACAC
* * *
42892070 GAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAAAGATTCCCTGCAACAAAATAA
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAA-GAAATAA
42892132 TGTGT
65 -GTGT
* *
42892137 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGA-
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATAAG
42892201 TGT
66 TGT
* * *
42892204 GAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAA
1 GAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAA
42892265 AGACAAGTGA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
67 82 0.71
68 6 0.05
69 5 0.04
70 23 0.20
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (68 bp):
GAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAAGATTCCCTGCAAGAAATAAG
TGT
Found at i:42892235 original size:102 final size:102
Alignment explanation
Indices: 42892070--42892265 Score: 347
Period size: 102 Copynumber: 1.9 Consensus size: 102
42892060 AATAATACAC
*
42892070 GAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATGT
1 GAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATGC
*
42892135 GTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGT
66 GTGAACAGGAAAGATTCCCTGCAACAAAATAATGCGT
*
42892172 GAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAGAATAATGC
1 GAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATGC
* *
42892237 GTGAACAGGAAATATTCCCTGCAAGAAAA
66 GTGAACAGGAAAGATTCCCTGCAACAAAA
42892266 GACAAGTGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (102 bp):
GAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATGC
GTGAACAGGAAAGATTCCCTGCAACAAAATAATGCGT
Found at i:42892376 original size:14 final size:13
Alignment explanation
Indices: 42892341--42892374 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
42892331 AGAAAATAGT
42892341 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
42892355 TTAATTTGAAAAC
1 TTAATTTGAAAAC
42892368 TTAATTT
1 TTAATTT
42892375 TGTAAATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:42892712 original size:35 final size:34
Alignment explanation
Indices: 42892668--42892930 Score: 297
Period size: 35 Copynumber: 7.8 Consensus size: 34
42892658 TTCACTTGTC
* *
42892668 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCAC-CATTA
* *
42892703 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACCATTA
* *
42892736 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCAC-CATTA
* *
42892770 TTTTGTTGTAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCAC-CATTA
*
42892805 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACCATTA
* * *
42892838 -TTTCTTGCAGGG-ATCTCTCCTGTTCACGGATTA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCAC-CATTA
42892871 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CA-TA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACCATTA
* * * *
42892903 ATTTCTTGCAAGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCA
42892931 TGTATTATAT
Statistics
Matches: 197, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
31 13 0.07
32 61 0.31
33 12 0.06
34 15 0.08
35 96 0.49
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTTTCCTGTTCACCATTA
Found at i:42892777 original size:67 final size:66
Alignment explanation
Indices: 42892668--42892930 Score: 309
Period size: 67 Copynumber: 3.9 Consensus size: 66
42892658 TTCACTTGTC
* * * *
42892668 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCA--CATTATTTTCTTGCAGGGAATCTCTCCTGTTCACA
*
42892733 TCA
64 TTA
* * *
42892736 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGTAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTT--CACATTATTTTCTTGCAGGGAATCTCTCCTGTT--CA
42892800 CATTA
62 CATTA
* *
42892805 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCA-TTTCTTGCAGGG-ATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCAC--A
42892868 TTA
64 TTA
* * *
42892871 TTTTGTTGCAGGGAATCTTTCCTGTTCACA-TAATTTCTTGCAAGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCA
42892931 TGTATTATAT
Statistics
Matches: 173, Mismatches: 13, Indels: 19
0.84 0.06 0.09
Matches are distributed among these distances:
64 3 0.02
65 1 0.01
66 57 0.33
67 75 0.43
68 6 0.03
69 8 0.05
70 23 0.13
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (66 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACATTATTTTCTTGCAGGGAATCTCTCCTGTTCACATT
A
Found at i:42899994 original size:40 final size:39
Alignment explanation
Indices: 42899950--42900141 Score: 249
Period size: 40 Copynumber: 4.8 Consensus size: 39
42899940 ATAACTACAA
42899950 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACTC
* *
42899990 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACTC
* * * *
42900030 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATC-ACTC
* * *
42900070 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCACTC
* *
42900110 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
42900142 CATTCAAATG
Statistics
Matches: 130, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
39 4 0.03
40 119 0.92
41 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (39 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCACTC
Found at i:42900057 original size:80 final size:80
Alignment explanation
Indices: 42899949--42900141 Score: 332
Period size: 80 Copynumber: 2.4 Consensus size: 80
42899939 TATAACTACA
* * * *
42899949 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGC
42900014 CCGGATAAAATCACT
66 CCGGATAAAATCACT
* *
42900029 TGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCACACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGC
42900094 CCGGATAAAATCACT
66 CCGGATAAAATCACT
42900109 AGCACAATTGCCTTCGGGTCTTAACCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAACCCGGATAT
42900142 CATTCAAATG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 105 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCACACAAATGCCTTCGGGTCTTAGC
CCGGATAAAATCACT
Found at i:42902623 original size:21 final size:22
Alignment explanation
Indices: 42902593--42902637 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
42902583 GAGCAAATTG
42902593 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
42902615 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
42902636 TT
1 TT
42902638 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:42906994 original size:14 final size:13
Alignment explanation
Indices: 42906959--42906992 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
42906949 AGAAAATAGT
42906959 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
42906973 TTAATTTGAAAAC
1 TTAATTTGAAAAC
42906986 TTAATTT
1 TTAATTT
42906993 TGTAAATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:42907330 original size:35 final size:34
Alignment explanation
Indices: 42907291--42907559 Score: 307
Period size: 35 Copynumber: 8.0 Consensus size: 34
42907281 TTGTCTTTTC
* *
42907291 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATT-TG
* * *
42907326 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
42907358 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
*
42907393 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * * *
42907428 TTGTAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
42907460 TTGCAGGAAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTG
* * *
42907495 TTGCAGGGAATCTTTCCTGTTCA--CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
* *
42907527 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
42907560 CTTTTTGGAC
Statistics
Matches: 201, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
32 71 0.35
33 13 0.06
34 13 0.06
35 104 0.52
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTG
Found at i:42907472 original size:102 final size:102
Alignment explanation
Indices: 42907286--42907549 Score: 408
Period size: 102 Copynumber: 2.6 Consensus size: 102
42907276 TTCACTTGTC
* * * *
42907286 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
42907351 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGAAATCTCTCCTGTTCACGCATTA
* *
42907388 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGTAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
42907453 TCATTTCTTGCAGGAAATCTCTCCTGTTCACGGATTA
66 TCATTTCTTGCAGGAAATCTCTCCTGTTCACGCATTA
* * *
42907490 TTTTGTTGCAGGGAATCTTTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
42907550 TGTATTATTT
Statistics
Matches: 149, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 24 0.16
100 6 0.04
102 119 0.80
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGAAATCTCTCCTGTTCACGCATTA
Found at i:42907557 original size:67 final size:68
Alignment explanation
Indices: 42907286--42907559 Score: 333
Period size: 67 Copynumber: 4.0 Consensus size: 68
42907276 TTCACTTGTC
* * * *
42907286 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
42907349 CATCA
64 CATTA
* * * *
42907354 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAC-CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
42907418 CATTA
64 CATTA
* * * *
42907423 TTTTGTTGTAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGAAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
42907487 TTA
66 TTA
* * *
42907490 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
42907554 TTA
66 TTA
42907557 TTT
1 TTT
42907560 CTTTTTGGAC
Statistics
Matches: 186, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
67 152 0.82
68 6 0.03
69 4 0.02
70 24 0.13
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCACCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
TTA
Found at i:42910224 original size:14 final size:13
Alignment explanation
Indices: 42910189--42910222 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
42910179 AGAAAATAGT
42910189 TTAAGTTTGAAAAC
1 TTAA-TTTGAAAAC
42910203 TTAATTTGAAAAC
1 TTAATTTGAAAAC
42910216 TTAATTT
1 TTAATTT
42910223 TGTAAATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (13 bp):
TTAATTTGAAAAC
Found at i:42910560 original size:35 final size:34
Alignment explanation
Indices: 42910516--42910789 Score: 299
Period size: 35 Copynumber: 8.1 Consensus size: 34
42910506 TTCACTTGTC
* * *
42910516 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
42910551 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAGCATTA
**
42910584 -TTACTTGCAGGGAATCTCTCCTGTTCATGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
42910618 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
42910653 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAGCATTA
* *
42910686 -TTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
42910720 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAGCATTA
* *
42910753 -TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-GCATTA
42910787 TTT
1 TTT
42910790 CTTTTTGGAC
Statistics
Matches: 201, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
32 73 0.36
33 11 0.05
34 10 0.05
35 107 0.53
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:42910697 original size:102 final size:102
Alignment explanation
Indices: 42910516--42910779 Score: 399
Period size: 102 Copynumber: 2.6 Consensus size: 102
42910506 TTCACTTGTC
* * * *
42910516 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
*
42910581 TCATTACTTGCAGGGAATCTCTCCTGTTCATGCATTA
66 TCATTACTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
42910618 TTTTGTTGCAGGGAATCTCTCCTATTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* *
42910683 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
66 TCATTACTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
42910720 TTTTGTTGCAGGGAATCTTTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
42910780 TGTATTATTT
Statistics
Matches: 148, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 25 0.17
100 6 0.04
102 117 0.79
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTTTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTACTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:42910787 original size:67 final size:68
Alignment explanation
Indices: 42910516--42910789 Score: 333
Period size: 67 Copynumber: 4.0 Consensus size: 68
42910506 TTCACTTGTC
* * * *
42910516 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTTTCCTGTTCA-GCATCATT-TCTTGCAGGGAATCTCTCCTGTTCACG
*
42910579 CATCA
64 CATTA
* * * * * *
42910584 -TTACTTGCAGGGAATCTCTCCTGTTCATGCATTATTTTGTTGCAGGGAATCTCTCCTATTCACA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCA-GCATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACG
42910648 CATTA
64 CATTA
* *
42910653 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCACGGA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
42910717 TTA
66 TTA
* * *
42910720 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCAGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
42910784 TTA
66 TTA
42910787 TTT
1 TTT
42910790 CTTTTTGGAC
Statistics
Matches: 185, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
67 151 0.82
68 6 0.03
69 4 0.02
70 24 0.13
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCAGCATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCA
TTA
Found at i:42912392 original size:28 final size:28
Alignment explanation
Indices: 42912348--42912413 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
42912338 TCATTGACTA
42912348 ATGAAAAGGGATAGCTTCAGCTATCAAAT
1 ATGAAAA-GGATAGCTTCAGCTATCAAAT
* *
42912377 ATGAAAAGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGATAGCTTCAGCTATCAAAT
42912405 ATGAAAAGG
1 ATGAAAAGG
42912414 GATGGTGACG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 28 0.80
29 7 0.20
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (28 bp):
ATGAAAAGGATAGCTTCAGCTATCAAAT
Found at i:42912435 original size:29 final size:29
Alignment explanation
Indices: 42912402--42912634 Score: 132
Period size: 29 Copynumber: 8.0 Consensus size: 29
42912392 TCAGCTATCG
42912402 ATTATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
42912431 ATTATGAAAAGGGATGGTGACAACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* * *** *
42912461 A-TATGAAAAGGGATCGCT-TCGGTTATTGA
1 ATTATGAAAAGGGAT-GGTGACGACCA-TCA
* ** * * **
42912490 A-TATGAAAAGGGGATAGCT-TTGGCTATTG
1 ATTATGAAAA-GGGAT-GGTGACGACCATCA
*
42912519 ATAATGAAAAGGGATGGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
* ** **
42912548 ACTATGAAAAGGGATGGTTTCGACCATTG
1 ATTATGAAAAGGGATGGTGACGACCATCA
* **
42912577 ATTAAAGAAAAGGGATGGTTTCGACCATCA
1 ATT-ATGAAAAGGGATGGTGACGACCATCA
* * * * *
42912607 AATATGAAGAGGAACGGTTACGACCATC
1 ATTATGAAAAGGGATGGTGACGACCATC
42912635 GTTTAGCACA
Statistics
Matches: 160, Mismatches: 37, Indels: 14
0.76 0.18 0.07
Matches are distributed among these distances:
28 2 0.01
29 108 0.68
30 50 0.31
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:42912518 original size:30 final size:30
Alignment explanation
Indices: 42912459--42912531 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
42912449 GACAACCATC
* *
42912459 GAATATGAAAA-GGGATCGCTTCGGTTATT
1 GAATATGAAAAGGGGATAGCTTCGGCTATT
*
42912488 GAATATGAAAAGGGGATAGCTTTGGCTATT
1 GAATATGAAAAGGGGATAGCTTCGGCTATT
42912518 G-ATAATGAAAAGGG
1 GAAT-ATGAAAAGGG
42912532 ATGGTGACGA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.33
30 26 0.67
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (30 bp):
GAATATGAAAAGGGGATAGCTTCGGCTATT
Found at i:42912554 original size:59 final size:59
Alignment explanation
Indices: 42912489--42912614 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 59
42912479 TCGGTTATTG
* * *
42912489 AATATGAAAAGGGGATAGCTTT-GGCTATTGA-TAATGAAAAGGGATGGTGACGACCATCA
1 AATATGAAAA-GGGAT-GCTTTCGACCATTGATTAAAGAAAAGGGATGGTGACGACCATCA
* * **
42912548 ACTATGAAAAGGGATGGTTTCGACCATTGATTAAAGAAAAGGGATGGTTTCGACCATCA
1 AATATGAAAAGGGATGCTTTCGACCATTGATTAAAGAAAAGGGATGGTGACGACCATCA
42912607 AATATGAA
1 AATATGAA
42912615 GAGGAACGGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
57 4 0.07
58 12 0.21
59 41 0.72
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (59 bp):
AATATGAAAAGGGATGCTTTCGACCATTGATTAAAGAAAAGGGATGGTGACGACCATCA
Found at i:42912554 original size:117 final size:115
Alignment explanation
Indices: 42912348--42912565 Score: 328
Period size: 117 Copynumber: 1.9 Consensus size: 115
42912338 TCATTGACTA
*
42912348 ATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATTATGAAAAG
1 ATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATAATGAAAAG
*
42912413 GGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACAACCATCGAAT
66 GGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAAT
* * * ** ** *
42912463 ATGAAAAGGGATCGCTTCGGTTATTGAATATGAAAAGGGGATAGCTTTGGCTATTGATAATGAAA
1 ATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAA--GGATAGCTTCAGCTATCGATAATGAAA
42912528 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT
64 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGT
42912566 TTCGACCATT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 31 0.34
117 60 0.66
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (115 bp):
ATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATAATGAAAAG
GGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAAT
Found at i:42912574 original size:117 final size:116
Alignment explanation
Indices: 42912346--42912619 Score: 327
Period size: 117 Copynumber: 2.4 Consensus size: 116
42912336 GATCATTGAC
*
42912346 TAATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATTATGAAA
1 TAATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATAATGAAA
*
42912411 AGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACAACCATCGAA
66 AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
* * * ** ** *
42912462 T-ATGAAAAGGGATCGCTTCGGTTATTGAATATGAAAAGGGGATAGCTTTGGCTATTGATAATGA
1 TAATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAA--GGATAGCTTCAGCTATCGATAATGA
** * * *
42912526 AAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTTTCGACCATTGAT
64 AAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
* * * * *
42912579 TAAAGAAAAGGGATGGTTTC-GACCATCAAATATGAAGAGGA
1 TAATGAAAAGGGATAGCTTCAG-CTATCAAATATGAAAAGGA
42912620 ACGGTTACGA
Statistics
Matches: 131, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
115 31 0.24
116 4 0.03
117 70 0.53
118 26 0.20
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (116 bp):
TAATGAAAAGGGATAGCTTCAGCTATCAAATATGAAAAGGATAGCTTCAGCTATCGATAATGAAA
AGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAA
Found at i:42912614 original size:88 final size:87
Alignment explanation
Indices: 42912407--42912635 Score: 212
Period size: 88 Copynumber: 2.6 Consensus size: 87
42912397 TATCGATTAT
** * *
42912407 GAAAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTGACAACCATCGAATATGAAAAGG
1 GAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGG
*** *
42912472 GATCGCTTCGGTTATTGAATAT
66 GATCGCTTCGACCATTGAATAA
* * * **
42912494 GAAAAGGGGATAGCTTT-GGCTAT-TGATAATGAAAAGGGATGGTGACGACCATC-AACTATGAA
1 GAAAA-GGGAT-GGTTTCGACCATCAAAT-ATGAAAAGGGATGGTGACGACCATCGAA-TATGAA
* * *
42912556 AAGGGATGGTTTCGACCATTGATTAAA
62 AAGGGATCGCTTCGACCATTGAAT-AA
* * * *
42912583 GAAAAGGGATGGTTTCGACCATCAAATATGAAGAGGAACGGTTACGACCATCG
1 GAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGGTGACGACCATCG
42912636 TTTAGCACAT
Statistics
Matches: 109, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
87 12 0.11
88 87 0.80
89 10 0.09
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (87 bp):
GAAAAGGGATGGTTTCGACCATCAAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGG
GATCGCTTCGACCATTGAATAA
Found at i:42912631 original size:59 final size:58
Alignment explanation
Indices: 42912515--42912633 Score: 157
Period size: 59 Copynumber: 2.0 Consensus size: 58
42912505 AGCTTTGGCT
* * * * *
42912515 ATTGATAATGAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTTTCGACC
1 ATTGATAAAGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGAACGGTTACGACC
** *
42912573 ATTGATTAAAGAAAAGGGATGGTTTCGACCATCAAATATGAAGAGGAACGGTTACGACC
1 ATTGA-TAAAGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGAACGGTTACGACC
42912632 AT
1 AT
42912634 CGTTTAGCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
58 5 0.10
59 47 0.90
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (58 bp):
ATTGATAAAGAAAAGGGATGGTGACGACCATCAAATATGAAAAGGAACGGTTACGACC
Found at i:42916258 original size:32 final size:32
Alignment explanation
Indices: 42916222--42916286 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
42916212 AATAAAAATG
* *
42916222 ATAAATTAAATTAAAAATACTTTTTAAAATAA
1 ATAAATAAAACTAAAAATACTTTTTAAAATAA
42916254 ATAAATAAAACTAAAAATACTTTTTAAAATAA
1 ATAAATAAAACTAAAAATACTTTTTAAAATAA
42916286 A
1 A
42916287 AAGTCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (32 bp):
ATAAATAAAACTAAAAATACTTTTTAAAATAA
Found at i:42916652 original size:22 final size:22
Alignment explanation
Indices: 42916627--42916697 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
42916617 TATATTTGTA
*
42916627 GATAAATTGCTAGAAATATGTG
1 GATAAACTGCTAGAAATATGTG
** * **
42916649 GATAAACCACCAG-AAT-TGCA
1 GATAAACTGCTAGAAATATGTG
42916669 GATAAACTGCTAGAAATATGTG
1 GATAAACTGCTAGAAATATGTG
42916691 GATAAAC
1 GATAAAC
42916698 CATCAGAATT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 12 0.33
21 6 0.17
22 18 0.50
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (22 bp):
GATAAACTGCTAGAAATATGTG
Found at i:42916672 original size:42 final size:42
Alignment explanation
Indices: 42916626--42916725 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
42916616 CTATATTTGT
*
42916626 AGATAAATTGCTAGAAATATGTGGATAAACCACCAGAATTGC
1 AGATAAACTGCTAGAAATATGTGGATAAACCACCAGAATTGC
*
42916668 AGATAAACTGCTAGAAATATGTGGATAAACCATCAGAATTGC
1 AGATAAACTGCTAGAAATATGTGGATAAACCACCAGAATTGC
* *
42916710 AAATAAACTGCCAGAA
1 AGATAAACTGCTAGAA
42916726 CTTCCTCCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (42 bp):
AGATAAACTGCTAGAAATATGTGGATAAACCACCAGAATTGC
Found at i:42916674 original size:20 final size:20
Alignment explanation
Indices: 42916649--42916717 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
42916639 GAAATATGTG
42916649 GATAAACCACCAGAATTGCA
1 GATAAACCACCAGAATTGCA
** * **
42916669 GATAAACTGCTAGAAATATGTG
1 GATAAACCACCAG-AAT-TGCA
*
42916691 GATAAACCATCAGAATTGCA
1 GATAAACCACCAGAATTGCA
*
42916711 AATAAAC
1 GATAAAC
42916718 TGCCAGAACT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
20 18 0.51
21 6 0.17
22 11 0.31
ACGTcount: A:0.46, C:0.17, G:0.16, T:0.20
Consensus pattern (20 bp):
GATAAACCACCAGAATTGCA
Found at i:42916705 original size:22 final size:22
Alignment explanation
Indices: 42916638--42916705 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
42916628 ATAAATTGCT
*
42916638 AGAAATATGTGGATAAACCACC
1 AGAAATATGTGGATAAACCATC
**
42916660 AG-AAT-TGCAGATAAA-C-TGC
1 AGAAATATGTGGATAAACCAT-C
42916679 TAGAAATATGTGGATAAACCATC
1 -AGAAATATGTGGATAAACCATC
42916702 AGAA
1 AGAA
42916706 TTGCAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 2 0.06
20 10 0.29
21 6 0.17
22 14 0.40
23 2 0.06
24 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.21
Consensus pattern (22 bp):
AGAAATATGTGGATAAACCATC
Found at i:42925447 original size:25 final size:25
Alignment explanation
Indices: 42925373--42925496 Score: 96
Period size: 25 Copynumber: 5.0 Consensus size: 25
42925363 GTACATGTAT
*
42925373 GCTCATACGAGCT-ATGAATCGGTAT
1 GCTCATACGAGCTGA-GAATCGGTAA
* **
42925398 GCTC-TCTCGAGCTGTAG-ATTAGTAA
1 GCTCAT-ACGAGCTG-AGAATCGGTAA
* *
42925423 GCTCATATGAGATGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
* * *
42925448 GCTC-TCACAAGCT-ACAATCAGTAA
1 GCTCAT-ACGAGCTGAGAATCGGTAA
42925472 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
42925497 TCCCTAATGA
Statistics
Matches: 74, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
24 23 0.31
25 48 0.65
26 2 0.03
27 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:42925488 original size:49 final size:50
Alignment explanation
Indices: 42925373--42925496 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
42925363 GTACATGTAT
* * * ** *
42925373 GCTCATACGAGCT-ATGAATCGGTATGCTCTCTCGAGCTGTAGATTAGTAA
1 GCTCATACGAGCTGA-GAATCGGTAAGCTCTCACAAGCTACAGATCAGTAA
* *
42925423 GCTCATATGAGATGAGAATCGGTAAGCTCTCACAAGCTACA-ATCAGTAA
1 GCTCATACGAGCTGAGAATCGGTAAGCTCTCACAAGCTACAGATCAGTAA
42925472 GCTCATACGAGCTGAGAATCGGTAA
1 GCTCATACGAGCTGAGAATCGGTAA
42925497 TCCCTAATGA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 30 0.48
50 32 0.51
51 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAGAATCGGTAAGCTCTCACAAGCTACAGATCAGTAA
Found at i:42931393 original size:20 final size:19
Alignment explanation
Indices: 42931368--42931441 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
42931358 TACCTCTGAA
*
42931368 TTGCACATTGGTGCCCTTG
1 TTGCACATTTGTGCCCTTG
* *
42931387 TTTGCAC-TTCAGTGCCCCTG
1 -TTGCACATT-TGTGCCCTTG
**
42931407 AAGCACATTTGTGCCCTTG
1 TTGCACATTTGTGCCCTTG
42931426 ATTGCACATTTGTGCC
1 -TTGCACATTTGTGCC
42931442 TTTATAAGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.15, C:0.28, G:0.22, T:0.35
Consensus pattern (19 bp):
TTGCACATTTGTGCCCTTG
Found at i:42931452 original size:20 final size:21
Alignment explanation
Indices: 42931407--42931452 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
42931397 AGTGCCCCTG
42931407 AAGCACATTTGTGCCCTTGAT
1 AAGCACATTTGTGCCCTTGAT
* *
42931428 -TGCACATTTGTG-CCTTTAT
1 AAGCACATTTGTGCCCTTGAT
42931447 AAGCAC
1 AAGCAC
42931453 TTCGGTGCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (21 bp):
AAGCACATTTGTGCCCTTGAT
Found at i:42932380 original size:17 final size:18
Alignment explanation
Indices: 42932358--42932391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42932348 ATGTGACCCC
*
42932358 TATTTT-CCAAATTTTCA
1 TATTTTACCAAAATTTCA
42932375 TATTTTACCAAAATTTC
1 TATTTTACCAAAATTTC
42932392 TTAATTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTTTACCAAAATTTCA
Found at i:42939199 original size:7 final size:6
Alignment explanation
Indices: 42939170--42939233 Score: 53
Period size: 6 Copynumber: 10.3 Consensus size: 6
42939160 CAAATTGAGC
*
42939170 TTATTT TT-TTT TGTAATTT TTATCTT TTATTT TT-TTT GTAATTT TTATCTT
1 TTATTT TTATTT T-T-ATTT TTAT-TT TTATTT TTATTT -TTATTT TTAT-TT
42939221 TTA-TT TTATTT TT
1 TTATTT TTATTT TT
42939234 GTAATTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
5 12 0.25
6 17 0.35
7 15 0.31
8 4 0.08
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:42939232 original size:27 final size:26
Alignment explanation
Indices: 42939170--42939249 Score: 144
Period size: 25 Copynumber: 3.1 Consensus size: 26
42939160 CAAATTGAGC
42939170 TTATTTTTTTTTGTAATTTTTATCTT
1 TTATTTTTTTTTGTAATTTTTATCTT
42939196 TTA-TTTTTTTTGTAATTTTTATCTT
1 TTATTTTTTTTTGTAATTTTTATCTT
42939221 TTATTTTATTTTTGTAATTTTTATCTT
1 TTATTTT-TTTTTGTAATTTTTATCTT
42939248 TT
1 TT
42939250 GAGGTCGTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
25 25 0.48
26 6 0.12
27 21 0.40
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (26 bp):
TTATTTTTTTTTGTAATTTTTATCTT
Found at i:42945798 original size:47 final size:47
Alignment explanation
Indices: 42945744--42945838 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
42945734 TATATAGTCA
42945744 AAGTGAGAGGATTAACATGGTAATTTGACTATAATGTAGCATGATGG
1 AAGTGAGAGGATTAACATGGTAATTTGACTATAATGTAGCATGATGG
42945791 AAGTGAGAGGATTAACATGGTAATTTGACTATAATGTAGCATGATGG
1 AAGTGAGAGGATTAACATGGTAATTTGACTATAATGTAGCATGATGG
42945838 A
1 A
42945839 CAGTTTAGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.29
Consensus pattern (47 bp):
AAGTGAGAGGATTAACATGGTAATTTGACTATAATGTAGCATGATGG
Found at i:42945914 original size:22 final size:21
Alignment explanation
Indices: 42945872--42945914 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
42945862 TACATTTTTT
*
42945872 TAATTTAAAATGTTAAAATAA
1 TAATTTAAAATGTAAAAATAA
42945893 TAATATTAAAA-GTAAAACATAA
1 TAAT-TTAAAATGTAAAA-ATAA
42945915 GTTAAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATTTAAAATGTAAAAATAA
Found at i:42946858 original size:44 final size:43
Alignment explanation
Indices: 42946791--42946962 Score: 141
Period size: 45 Copynumber: 3.9 Consensus size: 43
42946781 ATCATGATTC
* *
42946791 AAATGACTAAGACCATAGCTGAAAGATACTATGGCATCGTGATA
1 AAATGACTAAGACCATAGTTGAAAGATACTATGGCATCATGA-A
* *
42946835 AAATGAGTAAGACCATAGTTGAAA-A-ACGTTATGGCATCATGGCAG
1 AAATGACTAAGACCATAGTTGAAAGATAC--TATGGCATCAT-G-AA
* * * * * **
42946880 AAGTGAGTAAGACCATGGTAGAAAGATGCTATGAAATCATGGAA
1 AAATGACTAAGACCATAGTTGAAAGATACTATGGCATCAT-GAA
* * *
42946924 AATACGACTAAGACCATAGATGAAAGACACTATGGCATC
1 AA-ATGACTAAGACCATAGTTGAAAGATACTATGGCATC
42946963 CTTTGACAGT
Statistics
Matches: 100, Mismatches: 21, Indels: 13
0.75 0.16 0.10
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 35 0.35
45 59 0.59
46 2 0.02
47 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (43 bp):
AAATGACTAAGACCATAGTTGAAAGATACTATGGCATCATGAA
Found at i:42947118 original size:44 final size:44
Alignment explanation
Indices: 42947051--42947152 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
42947041 TATTCTCTGA
* * *
42947051 AGCTTGTGTGAGTAGCATCGTGTATCCGTTAATGTCCTTTTGTT
1 AGCTTGTGTGAGCAACATCGTGTATCCATTAATGTCCTTTTGTT
*
42947095 AGCTTGTGTGAGCAACATTGTGTATCCATTAATGTCCTTTTGTT
1 AGCTTGTGTGAGCAACATCGTGTATCCATTAATGTCCTTTTGTT
*
42947139 ATCTTGTGTGAGCA
1 AGCTTGTGTGAGCA
42947153 TTACCCTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.42
Consensus pattern (44 bp):
AGCTTGTGTGAGCAACATCGTGTATCCATTAATGTCCTTTTGTT
Found at i:42950443 original size:11 final size:11
Alignment explanation
Indices: 42950427--42950469 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
42950417 ATTTTGCATA
42950427 AAAATGATTTT
1 AAAATGATTTT
42950438 AAAATGATTTT
1 AAAATGATTTT
* *
42950449 AAACTTATTTT
1 AAAATGATTTT
*
42950460 AACATGATTT
1 AAAATGATTT
42950470 AGAGGTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.47
Consensus pattern (11 bp):
AAAATGATTTT
Found at i:42957767 original size:60 final size:60
Alignment explanation
Indices: 42957701--42958077 Score: 382
Period size: 60 Copynumber: 6.3 Consensus size: 60
42957691 ACAAGGAATG
* * ** * *
42957701 CCAAGGCCTCCATTTGGTGTGGGTAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGTTG
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
* * * * * *
42957761 CCAAGGCCTCCATTTGGTAAGGGCAACTCCTCAAATGTTGCTGCTTATGTA-TTGGGGCTA
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGAT-CACTTGGGGCTA
* ** * **
42957821 CC-AGGCCCTCTAGCTGGTGAGGGTAGCTCCTCAAATGTTGTTGTTGATCACTCAGGGCTA
1 CCAAGG-CCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
* * * * * **
42957881 CCAATGCCTTCATTTGGTGAGGGTAGCTCCTTAAATGTTGCTT-CTGATAACTTAGGATTA
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTG-TTGCTGATCACTTGGGGCTA
* * * * * *
42957941 CCAAGGCTTCCATTTGGTGAAGGTCGCTCCTCAAATATTGTTGTTGATCATTTGGGGCTA
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
* *
42958001 CCAAGGCCTCCGTTTGGGGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
* * *
42958061 CAAAGACCACCATTTGG
1 CCAAGGCCTCCATTTGG
42958078 CAGTAGTTCA
Statistics
Matches: 253, Mismatches: 58, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
59 6 0.02
60 243 0.96
61 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (60 bp):
CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
Found at i:42957998 original size:180 final size:180
Alignment explanation
Indices: 42957701--42958077 Score: 433
Period size: 180 Copynumber: 2.1 Consensus size: 180
42957691 ACAAGGAATG
* ** * * *
42957701 CCAAGGCCTCCATTTGGTGTGGGTAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGTTGCCAAG
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTAATAACTTAGGATTACCAAG
* *
42957766 GCCTCCATTTGGTAAGGGCAACTCCTCAAATGTTGCTGCTTATGTATTGGGGCTACC-AGGCCCT
66 GCCTCCATTTGGTAAGGGCAACTCCTCAAATATTGCTGCTTATATATTGGGGCTACCAAGG-CCT
* *
42957830 CTAG-CTGGTGAGGGTAGCTCCTCAAATGTTGTTGTTGATCACTCAGGGCTA
130 C-AGTCTGGGGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTCAGGGCTA
* * * *
42957881 CCAATGCCTTCATTTGGTGAGGGTAGCTCCTTAAATGTTGCTT-CTGATAACTTAGGATTACCAA
1 CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTG-TTGCTAATAACTTAGGATTACCAA
* * * *
42957945 GGCTTCCATTTGGTGAAGGTC-GCTCCTCAAATATTGTTG-TTGATCAT-TTGGGGCTACCAAGG
65 GGCCTCCATTTGGT-AAGGGCAACTCCTCAAATATTGCTGCTT-AT-ATATTGGGGCTACCAAGG
* * **
42958007 CCTCCGTTTGGGGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTTGGGGCTA
127 CCTCAGTCTGGGGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTCAGGGCTA
* * *
42958061 CAAAGACCACCATTTGG
1 CCAAGGCCTCCATTTGG
42958078 CAGTAGTTCA
Statistics
Matches: 164, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
179 3 0.02
180 150 0.91
181 11 0.07
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (180 bp):
CCAAGGCCTCCATTTGGTGAGGGTAGCTCCTCAAATGTTGTTGCTAATAACTTAGGATTACCAAG
GCCTCCATTTGGTAAGGGCAACTCCTCAAATATTGCTGCTTATATATTGGGGCTACCAAGGCCTC
AGTCTGGGGAGGGTAGCTCCTCAAATGTTGTTGCTGATCACTCAGGGCTA
Found at i:42960483 original size:49 final size:48
Alignment explanation
Indices: 42960357--42960485 Score: 120
Period size: 49 Copynumber: 2.6 Consensus size: 48
42960347 GTTGCGACAC
* * *
42960357 GACCTTGTGGTAGGTCGTGTGGTGCACACGATCGTGTGTGTTTTTGCA
1 GACCATGTGGTAGGTCGTGTGGAGCACACGGTCGTGTGTGTTTTTGCA
* * * *
42960405 -AGCAATGTGGTTAGGTTGTAT-GAGGCACACGGTTGTGT-TGGATTTTTGCA
1 GA-CCATGTGG-TAGGTCGTGTGGA-GCACACGGTCGTGTGT-G-TTTTTGCA
*
42960455 GACCATGTGGTAGGTCGTGTGGACCACACGG
1 GACCATGTGGTAGGTCGTGTGGAGCACACGG
42960486 GTTGAGATAG
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
47 1 0.02
48 8 0.13
49 36 0.57
50 17 0.27
51 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.32
Consensus pattern (48 bp):
GACCATGTGGTAGGTCGTGTGGAGCACACGGTCGTGTGTGTTTTTGCA
Found at i:42966491 original size:14 final size:14
Alignment explanation
Indices: 42966481--42966513 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
42966471 AAAAAATATT
*
42966481 TAAAATCAAATAAA
1 TAAAATAAAATAAA
42966495 TAAAATAAAATAAA
1 TAAAATAAAATAAA
42966509 TAAAA
1 TAAAA
42966514 AGATAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAATAAAATAAA
Found at i:42983630 original size:63 final size:62
Alignment explanation
Indices: 42983498--42983689 Score: 240
Period size: 63 Copynumber: 3.1 Consensus size: 62
42983488 TGCAGGTTTC
* * * * *
42983498 ACACGGGCGTGTGTCCAGGCCATGTGACTTACTGTTGTGATTAGAGATCACACGGGACAAGG
1 ACACGGGCGTGTGTCCAGGCCATGTGACTCACTGTTGTGTTTAGAGAACACACGGGCCAAAG
* * * *
42983560 ACACGGGCGTGTGTCCAGGCCATGCGAATCACTATCGTGTTTTAGAGAACACACGGGCCAAAG
1 ACACGGGCGTGTGTCCAGGCCATGTGACTCACTGTTGTG-TTTAGAGAACACACGGGCCAAAG
* * * * *
42983623 ACACGGGCGTGTGTCCCGGCCATGTGACTCACTGTTATGATTTAGAGACCACATGGGCCAGAG
1 ACACGGGCGTGTGTCCAGGCCATGTGACTCACTGTTGTG-TTTAGAGAACACACGGGCCAAAG
42983686 ACAC
1 ACAC
42983690 AAGCATGTTT
Statistics
Matches: 110, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
62 34 0.31
63 76 0.69
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (62 bp):
ACACGGGCGTGTGTCCAGGCCATGTGACTCACTGTTGTGTTTAGAGAACACACGGGCCAAAG
Found at i:42987176 original size:29 final size:28
Alignment explanation
Indices: 42987141--42987218 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
42987131 TCATGAGATT
42987141 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
42987171 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
42987198 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
42987219 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:42987486 original size:173 final size:174
Alignment explanation
Indices: 42987171--42987497 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
42987161 AAATTGTACA
* *
42987171 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
42987236 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42987301 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
42987345 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
42987410 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42987474 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
42987498 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:42995310 original size:29 final size:28
Alignment explanation
Indices: 42995275--42995352 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
42995265 TCATGAGATT
42995275 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
42995305 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
*
42995332 TGGTACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
42995353 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:42995589 original size:171 final size:174
Alignment explanation
Indices: 42995305--42995629 Score: 539
Period size: 171 Copynumber: 1.9 Consensus size: 174
42995295 AAATTGTACA
* * *
42995305 GCACTAAGTGTGCGAGTTTAAAGTACATGGTACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
42995370 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42995435 TTTTGGACAGCGG-AAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
42995478 GCACTAAGTGT-TGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
42995542 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
42995606 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
42995630 ACCTTGAGTT
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
171 69 0.49
172 61 0.43
173 11 0.08
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:43000780 original size:63 final size:63
Alignment explanation
Indices: 43000706--43000836 Score: 163
Period size: 63 Copynumber: 2.1 Consensus size: 63
43000696 GTGCAGGGTT
* ** * * *
43000706 CACACGAGCCAAGGACACCATTGTTTTTCCAGGCCGTGTGAATCACTATTGTGATTTAGAGAC
1 CACACGAGCCAAGGAAACCAGCGTGTGTCCAGGCCGTGTGAATCACTATTGTGATTCAGAGAC
* ** * *
43000769 CACACGGGCCAAGGAAACTGGCGTGTGTCCAGGCCGTGTGACTCACTGTTGTGATTCAGAGAC
1 CACACGAGCCAAGGAAACCAGCGTGTGTCCAGGCCGTGTGAATCACTATTGTGATTCAGAGAC
43000832 CACAC
1 CACAC
43000837 AAGCTAGAGA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (63 bp):
CACACGAGCCAAGGAAACCAGCGTGTGTCCAGGCCGTGTGAATCACTATTGTGATTCAGAGAC
Found at i:43000909 original size:63 final size:63
Alignment explanation
Indices: 43000738--43000969 Score: 229
Period size: 63 Copynumber: 3.7 Consensus size: 63
43000728 GTTTTTCCAG
* * * * * *
43000738 GCCGTGTGAATCACTATTGTGATTTAGAGACCACACGGGCCA-AGGAAACTGGCGTGTGTCCAG
1 GCCGTGTGACTCACTGTTGTGATTTAGAGACCACACGGGCCAGA-GACACTGGCATGTGTACAA
* ** * *
43000801 GCCGTGTGACTCACTGTTGTGATTCAGAGACCACACAAGCTAGAGACA-TGGGCATGTTTACAA
1 GCCGTGTGACTCACTGTTGTGATTTAGAGACCACACGGGCCAGAGACACT-GGCATGTGTACAA
* * * * **
43000864 GCCGTGTGACTCACTGCTATGATTTAGAGGCCACACGGGCCAGAGACACTGGCATGTGTCCGG
1 GCCGTGTGACTCACTGTTGTGATTTAGAGACCACACGGGCCAGAGACACTGGCATGTGTACAA
** *
43000927 GCTATGTGACTCACTATTTGTGATTTAG-GACCACAC-GGCCAGA
1 GCCGTGTGACTCACT-GTTGTGATTTAGAGACCACACGGGCCAGA
43000970 CAACACGGGT
Statistics
Matches: 137, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
62 8 0.06
63 118 0.86
64 11 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (63 bp):
GCCGTGTGACTCACTGTTGTGATTTAGAGACCACACGGGCCAGAGACACTGGCATGTGTACAA
Found at i:43015536 original size:15 final size:15
Alignment explanation
Indices: 43015516--43015572 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
43015506 TAGGCGAGAT
43015516 AATTAAATAATTAAG
1 AATTAAATAATTAAG
* * *
43015531 AATTAATTAAATAAA
1 AATTAAATAATTAAG
43015546 ATATTAAAATAATT-AG
1 A-ATT-AAATAATTAAG
43015562 AATTAAA-AATT
1 AATTAAATAATT
43015573 CTATTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 16 0.47
16 5 0.15
17 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
AATTAAATAATTAAG
Found at i:43015551 original size:23 final size:24
Alignment explanation
Indices: 43015516--43015569 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
43015506 TAGGCGAGAT
43015516 AATT-AAATAATTAAGAATTAATTA-
1 AATTAAAATAATTAA-AA-TAATTAG
43015540 AA-TAAAAT-ATTAAAATAATTAG
1 AATTAAAATAATTAAAATAATTAG
43015562 AATTAAAA
1 AATTAAAA
43015570 ATTCTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 6 0.22
22 4 0.15
23 11 0.41
24 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
AATTAAAATAATTAAAATAATTAG
Found at i:43016822 original size:43 final size:43
Alignment explanation
Indices: 43016709--43016832 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
43016699 GCCCTACAGT
*
43016709 ATGTTATGCAAACCATGTTGTAATTTCA-GCAAGCTTTGCAAC
1 ATGTTATGCAAACCATGTTATAATTTCATGCAAGCTTTGCAAC
** * * *
43016751 ATGTTATGTGAACCATGTTATAAATTCATGCTAGCTTTGCAGC
1 ATGTTATGCAAACCATGTTATAATTTCATGCAAGCTTTGCAAC
* * *
43016794 ATGTTATGCAAATCATGTTATATTTTCATTCAAGCTTTG
1 ATGTTATGCAAACCATGTTATAATTTCATGCAAGCTTTG
43016833 TGGTATGATG
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 24 0.35
43 44 0.65
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (43 bp):
ATGTTATGCAAACCATGTTATAATTTCATGCAAGCTTTGCAAC
Found at i:43017008 original size:25 final size:25
Alignment explanation
Indices: 43016981--43017109 Score: 150
Period size: 25 Copynumber: 5.2 Consensus size: 25
43016971 TCTACCTTGT
* * * *
43016981 TGATATGCGAATATGTTATGTTGAT
1 TGATATGTGAACATGCTATGTTGAA
*
43017006 TGATATGTGAACATGTTATGTTGAA
1 TGATATGTGAACATGCTATGTTGAA
* * * *
43017031 TGATGTATGAACATGATAGGTTGAA
1 TGATATGTGAACATGCTATGTTGAA
*
43017056 TGATATGTGAACATGCTAGGTTGAA
1 TGATATGTGAACATGCTATGTTGAA
**
43017081 TGATATGCAAACATGCTATGTTGAA
1 TGATATGTGAACATGCTATGTTGAA
43017106 TGAT
1 TGAT
43017110 GTACGAACAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 91 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (25 bp):
TGATATGTGAACATGCTATGTTGAA
Found at i:43017079 original size:75 final size:75
Alignment explanation
Indices: 43016981--43017139 Score: 200
Period size: 75 Copynumber: 2.2 Consensus size: 75
43016971 TCTACCTTGT
* * * * ** * *
43016981 TGATATGCGAATATGTTATGTTGATTGATATGTGAACATGTTATGTTGAATGATGTATGAACATG
1 TGATATGCGAACATGCTAGGTTGAATGATATGCAAACATGCTATGTTGAATGATGTACGAACATG
43017046 ATAGGTTGAA
66 ATAGGTTGAA
*
43017056 TGATATGTGAACATGCTAGGTTGAATGATATGCAAACATGCTATGTTGAATGATGTACGAACAT-
1 TGATATGCGAACATGCTAGGTTGAATGATATGCAAACATGCTATGTTGAATGATGTACGAACATG
43017120 ATA--TT-AA
66 ATAGGTTGAA
43017127 GTGATATGCGAAC
1 -TGATATGCGAAC
43017140 CCTCACATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
71 2 0.03
72 13 0.18
74 3 0.04
75 55 0.75
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.35
Consensus pattern (75 bp):
TGATATGCGAACATGCTAGGTTGAATGATATGCAAACATGCTATGTTGAATGATGTACGAACATG
ATAGGTTGAA
Found at i:43017226 original size:16 final size:18
Alignment explanation
Indices: 43017205--43017249 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
43017195 GGCCTAAATG
43017205 TATGCAAACC-A-TATGC
1 TATGCAAACCTATTATGC
*
43017221 TATGCAAACCTATTTATGG
1 TATGCAAACCTA-TTATGC
43017240 TATGCAAACC
1 TATGCAAACC
43017250 CAGACTGAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
17 1 0.04
19 14 0.56
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (18 bp):
TATGCAAACCTATTATGC
Found at i:43017637 original size:45 final size:45
Alignment explanation
Indices: 43017565--43017718 Score: 148
Period size: 45 Copynumber: 3.4 Consensus size: 45
43017555 TTTGACTTCC
* ** * * *
43017565 ATGTGATATGCGAACTTACATTAAAGTGACATGTGAACCTATGCT
1 ATGTGATATGCGAACCTATGTTAAAGTGATATGTGAACCTAAGTT
* ** *
43017610 ATGTGATATGCGAACCTATGTTTAAGTGATATGCAAATCTAAGTT
1 ATGTGATATGCGAACCTATGTTAAAGTGATATGTGAACCTAAGTT
* * * * *
43017655 ATATGGTATGCAAACTTATGCTAAAGTGATATGTGAACCTAAGTT
1 ATGTGATATGCGAACCTATGTTAAAGTGATATGTGAACCTAAGTT
* *
43017700 ATGTGGTATGAGAA-CTATG
1 ATGTGATATGCGAACCTATG
43017719 ACTTATGTGA
Statistics
Matches: 86, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
44 4 0.05
45 82 0.95
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (45 bp):
ATGTGATATGCGAACCTATGTTAAAGTGATATGTGAACCTAAGTT
Found at i:43017642 original size:23 final size:22
Alignment explanation
Indices: 43017567--43017718 Score: 83
Period size: 22 Copynumber: 6.8 Consensus size: 22
43017557 TGACTTCCAT
* **
43017567 GTGATATGCGAACTTACATTAAA
1 GTGATATGCGAACCTATGTT-AA
* * * *
43017590 GTGACATGTGAACCTATGCTAT
1 GTGATATGCGAACCTATGTTAA
43017612 GTGATATGCGAACCTATGTTTAA
1 GTGATATGCGAACCTATG-TTAA
* * *
43017635 GTGATATGCAAATCTAAGTTATA
1 GTGATATGCGAACCTATGTTA-A
* * * *
43017658 -TGGTATGCAAACTTATGCTAAA
1 GTGATATGCGAACCTATG-TTAA
* * *
43017680 GTGATATGTGAACCTAAGTTAT
1 GTGATATGCGAACCTATGTTAA
* *
43017702 GTGGTATGAGAA-CTATG
1 GTGATATGCGAACCTATG
43017719 ACTTATGTGA
Statistics
Matches: 96, Mismatches: 29, Indels: 10
0.71 0.21 0.07
Matches are distributed among these distances:
21 4 0.04
22 46 0.48
23 46 0.48
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (22 bp):
GTGATATGCGAACCTATGTTAA
Found at i:43018301 original size:17 final size:17
Alignment explanation
Indices: 43018281--43018323 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
43018271 TTATGGAGTA
* *
43018281 GTATGAATTGTTATTTT
1 GTATGAATTGCTATTTG
43018298 GTATGAATTGCTATTTG
1 GTATGAATTGCTATTTG
*
43018315 GTATAAATT
1 GTATGAATT
43018324 ATTGTCTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
GTATGAATTGCTATTTG
Found at i:43018355 original size:17 final size:17
Alignment explanation
Indices: 43018335--43018372 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43018325 TTGTCTCATA
43018335 TGAACTG-TTGTTTACTG
1 TGAACTGATTGTTTAC-G
*
43018352 TGAACTGATTTTTTACG
1 TGAACTGATTGTTTACG
43018369 TGAA
1 TGAA
43018373 GTACACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.45
Consensus pattern (17 bp):
TGAACTGATTGTTTACG
Found at i:43020391 original size:51 final size:50
Alignment explanation
Indices: 43020332--43020516 Score: 194
Period size: 51 Copynumber: 3.7 Consensus size: 50
43020322 CTGGTTCACA
* * * * *
43020332 TAGTAGCCTGCACATGGTACTACACATGTGACCATTTTCATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGGTACAAG
** * *
43020383 TAGTAGCCTGCACATAGTACTACACACGTGATTGA-AGCTATCCGGTACAAA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGGTACAAG
* * * *
43020434 TAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGGTACAAG
*
43020484 TAGTAGCCTGCACATAGTACTACGCACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
43020517 TAGCAACTTC
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 41 0.38
51 66 0.61
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCCGGTACAAG
Found at i:43020512 original size:101 final size:101
Alignment explanation
Indices: 43020331--43020514 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
43020321 ACTGGTTCAC
* * * * *
43020331 ATAGTAGCCTGCACATGGTACTACACATGTGACCATTTTCATCCGATACATGTAGTAGCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACACGTAGTAGCCTGCAC
43020396 ATAGTACTACACACGTGATTGAAGCTATCCGGTACAA
65 ATAGTACTACACACGTGATTGAAGCTATCCGGTACAA
*
43020433 ATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGATACACGTAGTAGCCTGCAC
*
43020497 ATAGTACTACGCACGTGA
65 ATAGTACTACACACGTGA
43020515 CCTAGCAACT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 31 0.42
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATTGAAGCTATCCGGTACAA
Done.