Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 32 of 208
Found at i:12618106 original size:18 final size:18
Alignment explanation
Indices: 12618066--12618108 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12618056 CAAAAGCCCA
* *
12618066 AGCTTTTTCCCAGTATTG
1 AGCTTGTTCCCAGTATAG
12618084 AGCTTGTTCCCAGTACTAG
1 AGCTTGTTCCCAGTA-TAG
12618103 -GCTTGT
1 AGCTTGT
12618109 GATTTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (18 bp):
AGCTTGTTCCCAGTATAG
Found at i:12618946 original size:16 final size:16
Alignment explanation
Indices: 12618927--12618959 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12618917 GGTATTGGAT
*
12618927 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
12618943 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
12618959 T
1 T
12618960 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:12618946 original size:21 final size:21
Alignment explanation
Indices: 12618904--12618946 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12618894 GGTTCGTTGT
*
12618904 ATTGGATTAGAGAGGTATTGG
1 ATTGGATTAGAGAGGTAATGG
12618925 ATTGGATTAGAG-GTGTAATGG
1 ATTGGATTAGAGAG-GTAATGG
12618946 A
1 A
12618947 ATAGAGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (21 bp):
ATTGGATTAGAGAGGTAATGG
Found at i:12619004 original size:45 final size:44
Alignment explanation
Indices: 12618938--12619032 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
12618928 GGATTAGAGG
* *
12618938 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
12618983 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
12619027 TGTAAT
1 TGTAAT
12619033 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:12619215 original size:18 final size:17
Alignment explanation
Indices: 12619194--12619228 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12619184 TTATTATTTA
*
12619194 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12619212 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12619229 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12619222 original size:28 final size:27
Alignment explanation
Indices: 12619152--12619224 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
12619142 TTTATTATCA
*
12619152 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
12619180 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
12619207 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
12619225 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:12619341 original size:144 final size:147
Alignment explanation
Indices: 12619113--12619384 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
12619103 ATGATTATTG
12619113 TTATTATTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTATTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
12619178 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
12619243 AGAAATTTGTTTTAGTAAA
129 AGAAATTTGTTTTAGTAAA
* *
12619262 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAT
1 TTATTATTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
12619324 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
12619385 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 91 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (147 bp):
TTATTATTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTAGTAAA
Found at i:12619360 original size:18 final size:17
Alignment explanation
Indices: 12619338--12619372 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12619328 TTATTATTAA
*
12619338 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
12619356 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
12619373 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:12619416 original size:54 final size:54
Alignment explanation
Indices: 12619358--12619536 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
12619348 ATTAAAATAT
*
12619358 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
12619412 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
12619475 TAT
53 -AC
*
12619478 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
12619532 ATAAT
1 ATAAT
12619537 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:12619432 original size:61 final size:61
Alignment explanation
Indices: 12619353--12619543 Score: 178
Period size: 61 Copynumber: 3.2 Consensus size: 61
12619343 TTTTAATTAA
* * *
12619353 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
12619414 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATGAT-CTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
* *
12619473 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
12619534 AATATATGAT
1 AATATATGAT
12619544 TATAACTAAT
Statistics
Matches: 96, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
58 6 0.06
59 29 0.30
60 16 0.17
61 39 0.41
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (61 bp):
AATATATGATCTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:12619454 original size:120 final size:120
Alignment explanation
Indices: 12619324--12619543 Score: 413
Period size: 120 Copynumber: 1.8 Consensus size: 120
12619314 ATATTTAAAT
* *
12619324 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
12619389 TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
66 TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
12619444 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
12619509 TCTTATATGAATTTACTCAAATCATAATATATGAT
66 TCTTATATGAATTTACTCAAACCATAATATATGAT
12619544 TATAACTAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAATAAC
Found at i:12619479 original size:18 final size:17
Alignment explanation
Indices: 12619458--12619492 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
12619448 TTATTATTAA
12619458 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
12619476 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
12619493 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:12619555 original size:17 final size:16
Alignment explanation
Indices: 12619533--12619579 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
12619523 ACTCAAATCA
12619533 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
12619550 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
12619564 TAAATATATGATTTAA
1 T-AATATATGATTTAA
12619580 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:12619580 original size:17 final size:17
Alignment explanation
Indices: 12619552--12619585 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12619542 ATTATAACTA
*
12619552 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
12619569 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
12619586 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:12619728 original size:93 final size:92
Alignment explanation
Indices: 12619618--12619812 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
12619608 GATTATAGTT
* * *
12619618 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
12619681 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
12619711 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
*
12619776 AAAATTCTTAATGATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
12619803 TATGAATTTA
1 TATGAATTTA
12619813 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 21 0.23
93 67 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:12632069 original size:8 final size:8
Alignment explanation
Indices: 12632056--12632085 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
12632046 TCTTGATGTC
12632056 TGCATACA
1 TGCATACA
12632064 TGCATACA
1 TGCATACA
12632072 TGCATACA
1 TGCATACA
12632080 TGCATA
1 TGCATA
12632086 AATACATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (8 bp):
TGCATACA
Found at i:12632093 original size:16 final size:16
Alignment explanation
Indices: 12632058--12632093 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12632048 TTGATGTCTG
* *
12632058 CATACATGCATACATG
1 CATACATGCATAAATA
12632074 CATACATGCATAAATA
1 CATACATGCATAAATA
12632090 CATA
1 CATA
12632094 TTTAAGAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (16 bp):
CATACATGCATAAATA
Found at i:12641918 original size:124 final size:123
Alignment explanation
Indices: 12641680--12641925 Score: 311
Period size: 124 Copynumber: 2.0 Consensus size: 123
12641670 CAAAGAATCA
*
12641680 AGAACCAAGCTTCATTGAGTGATTGGAAAGAGAATCTGAGAAACCTTTAAAGTTCTCTTCTTTCT
1 AGAACCAAGCTTCATTGAGTGATTGAAAAGAGAATCTGAGAAACCTTTAAAGTTCTCTTCTTTCT
* * * * * *
12641745 GTAGGTCAGTAATAAGGCATGAATCCAGATAACATAGTATTGACATTGAATTTGTCTCG
66 GTAGCTAAGCAATAAGACATGAATCCAGATAACATAATATCGACATTGAA-TTGTCTCG
*
12641804 AGAACCAAGCTTCATTGAGTGATTGTAAAAG-GCATCTGAGAAACCTTTAAAGTTTCTCTT-TTG
1 AGAACCAAGCTTCATTGAGTGATTG-AAAAGAGAATCTGAGAAACCTTTAAAG-TTCTCTTCTT-
* * * *
12641867 T-TGTTGCTAAGCAATACGATATGAATCCAGAT-ACTATAATATCGACCTTGAATTGTCTC
63 TCTGTAGCTAAGCAATAAGACATGAATCCAGATAAC-ATAATATCGACATTGAATTGTCTC
12641926 AATTTCTAGA
Statistics
Matches: 106, Mismatches: 12, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
123 9 0.08
124 85 0.80
125 12 0.11
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (123 bp):
AGAACCAAGCTTCATTGAGTGATTGAAAAGAGAATCTGAGAAACCTTTAAAGTTCTCTTCTTTCT
GTAGCTAAGCAATAAGACATGAATCCAGATAACATAATATCGACATTGAATTGTCTCG
Found at i:12644842 original size:19 final size:19
Alignment explanation
Indices: 12644818--12644855 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12644808 TAGTGTTAAA
*
12644818 ACAGCCATATGCATCGTGT
1 ACAGCCATACGCATCGTGT
*
12644837 ACAGCCGTACGCATCGTGT
1 ACAGCCATACGCATCGTGT
12644856 CGCATCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (19 bp):
ACAGCCATACGCATCGTGT
Found at i:12658465 original size:25 final size:25
Alignment explanation
Indices: 12658437--12658485 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
12658427 CATCTTTTCA
* *
12658437 TTAATTATTTAAGTGTTGGTGATAG
1 TTAACTATTTAAGTGTTGATGATAG
*
12658462 TTAACTATTTAATTGTTGATGATA
1 TTAACTATTTAAGTGTTGATGATA
12658486 AAAATATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (25 bp):
TTAACTATTTAAGTGTTGATGATAG
Found at i:12661833 original size:3 final size:3
Alignment explanation
Indices: 12661825--12661849 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12661815 TGAGATGCAA
12661825 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12661850 TCTGTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12667872 original size:21 final size:21
Alignment explanation
Indices: 12667848--12667887 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12667838 AATAGACATG
12667848 AATG-ATATAAAAAAATAAAAA
1 AATGAATAT-AAAAAATAAAAA
*
12667869 AATGAATATTAAAAATAAA
1 AATGAATATAAAAAATAAA
12667888 GATCCGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (21 bp):
AATGAATATAAAAAATAAAAA
Found at i:12676276 original size:19 final size:18
Alignment explanation
Indices: 12676252--12676301 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
12676242 ATTCAAACAT
12676252 TAGAAAATATTAATTTTTC
1 TAGAAAATATTAA-TTTTC
*
12676271 TAGAAAAATATGTCATTTTC
1 TAG-AAAATAT-TAATTTTC
*
12676291 TAGAAATTATT
1 TAGAAAATATT
12676302 TTTCGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 1 0.04
19 9 0.33
20 15 0.56
21 2 0.07
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (18 bp):
TAGAAAATATTAATTTTC
Found at i:12676280 original size:20 final size:20
Alignment explanation
Indices: 12676255--12676296 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12676245 CAAACATTAG
12676255 AAAATAT-TAATTTTTCTAGA
1 AAAATATGTAA-TTTTCTAGA
*
12676275 AAAATATGTCATTTTCTAGA
1 AAAATATGTAATTTTCTAGA
12676295 AA
1 AA
12676297 TTATTTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
AAAATATGTAATTTTCTAGA
Found at i:12678799 original size:3 final size:3
Alignment explanation
Indices: 12678785--12678815 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
12678775 TGTGGTCGTA
*
12678785 TGG TGA TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
12678816 ATGATGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.61, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:12683455 original size:36 final size:36
Alignment explanation
Indices: 12683403--12683528 Score: 207
Period size: 36 Copynumber: 3.5 Consensus size: 36
12683393 CCCAACTACT
* **
12683403 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
12683439 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
**
12683475 GTATACGTGAATAGTACTATATACGTGAATAGTGAT
1 GTATACGTGAATAGTACTATATACGTGAATAGTGCC
12683511 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACT
12683529 GTAAACGGTC
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 85 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTATATACGTGAATAGTGCC
Found at i:12683531 original size:18 final size:18
Alignment explanation
Indices: 12683399--12683531 Score: 178
Period size: 18 Copynumber: 7.4 Consensus size: 18
12683389 CAATCCCAAC
*
12683399 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
*
12683417 TACCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
12683435 TGCCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
12683453 TACTATATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
12683471 TGCCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
12683489 TACTATATACGTGAATAG
1 TACTGTATACGTGAATAG
12683507 TGA-TGTATACGTGAATAG
1 T-ACTGTATACGTGAATAG
12683525 TACTGTA
1 TACTGTA
12683532 AACGGTCGTA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
17 1 0.01
18 98 0.98
19 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:12687344 original size:22 final size:23
Alignment explanation
Indices: 12687300--12687345 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
12687290 TTGAACCGAT
*
12687300 TTTTCTATTTTTTTAAATATTTA
1 TTTTCTATTTTTATAAATATTTA
* *
12687323 TTTT-TATTTTTATGAATTTTTA
1 TTTTCTATTTTTATAAATATTTA
12687345 T
1 T
12687346 ATAATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTCTATTTTTATAAATATTTA
Found at i:12687624 original size:28 final size:29
Alignment explanation
Indices: 12687565--12687626 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
12687555 ATCAATTTAG
* *
12687565 AAAAAATAATTTAGGTACCAATTATGATA
1 AAAAAATAATTTAGGTACCAAATAAGATA
12687594 AAAAAAT-ATTTAGGTACCAAAATAAGA-A
1 AAAAAATAATTTAGGTACC-AAATAAGATA
12687622 AAAAA
1 AAAAA
12687627 TGTATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (29 bp):
AAAAAATAATTTAGGTACCAAATAAGATA
Found at i:12687625 original size:29 final size:29
Alignment explanation
Indices: 12687565--12687626 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
12687555 ATCAATTTAG
* * *
12687565 AAAAAATAATTTAGGTACCAATTATGATA
1 AAAAAATAATTTAGGTACCAAATAAGAAA
12687594 AAAAAAT-ATTTAGGTACCAAAATAAGAAA
1 AAAAAATAATTTAGGTACC-AAATAAGAAA
12687623 AAAA
1 AAAA
12687627 TGTATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (29 bp):
AAAAAATAATTTAGGTACCAAATAAGAAA
Found at i:12699168 original size:457 final size:457
Alignment explanation
Indices: 12698314--12699234 Score: 1842
Period size: 457 Copynumber: 2.0 Consensus size: 457
12698304 TTATTTAAAC
12698314 AGCAAACTAAATGAAAATGATTAGCAGACAGCAATTCAATTTTCCCATTGGATTTCGTATTGTAA
1 AGCAAACTAAATGAAAATGATTAGCAGACAGCAATTCAATTTTCCCATTGGATTTCGTATTGTAA
12698379 CATGGAAACCAACCGTAATGTGGTATTAACTGGGACAATTTCAACATTTTACTATTTAGTTTCCA
66 CATGGAAACCAACCGTAATGTGGTATTAACTGGGACAATTTCAACATTTTACTATTTAGTTTCCA
12698444 CATCCCAATAAGCTGAACTCCACATCCCAAGTTCATACACATTAGCTTGTGGACATTTTAATTGT
131 CATCCCAATAAGCTGAACTCCACATCCCAAGTTCATACACATTAGCTTGTGGACATTTTAATTGT
12698509 AAAAAAGCTGATGCCATTAAAATGCTTTGCTTCTTTGATTACCATGACATTAAAATTCTCCAAAA
196 AAAAAAGCTGATGCCATTAAAATGCTTTGCTTCTTTGATTACCATGACATTAAAATTCTCCAAAA
12698574 CATAGTGAGTTAGCATATAACATGTATCTAACACAAATTCAATGGCATCCAATAACTCATAACTA
261 CATAGTGAGTTAGCATATAACATGTATCTAACACAAATTCAATGGCATCCAATAACTCATAACTA
12698639 CAAGTATTGGCAACAGATGTGTGCAAAACTTCCTCATAGATATGGCATGCCACCAAAAACATCCC
326 CAAGTATTGGCAACAGATGTGTGCAAAACTTCCTCATAGATATGGCATGCCACCAAAAACATCCC
12698704 TTCAACACTTGATAATGCTCAACACCTAAAAAGGCATTCTTTAACTGGATAATTAACAATATGAT
391 TTCAACACTTGATAATGCTCAACACCTAAAAAGGCATTCTTTAACTGGATAATTAACAATATGAT
12698769 TA
456 TA
12698771 AGCAAACTAAATGAAAATGATTAGCAGACAGCAATTCAATTTTCCCATTGGATTTCGTATTGTAA
1 AGCAAACTAAATGAAAATGATTAGCAGACAGCAATTCAATTTTCCCATTGGATTTCGTATTGTAA
12698836 CATGGAAACCAACCGTAATGTGGTATTAACTGGGACAATTTCAACATTTTACTATTTAGTTTCCA
66 CATGGAAACCAACCGTAATGTGGTATTAACTGGGACAATTTCAACATTTTACTATTTAGTTTCCA
12698901 CATCCCAATAAGCTGAACTCCACATCCCAAGTTCATACACATTAGCTTGTGGACATTTTAATTGT
131 CATCCCAATAAGCTGAACTCCACATCCCAAGTTCATACACATTAGCTTGTGGACATTTTAATTGT
12698966 AAAAAAGCTGATGCCATTAAAATGCTTTGCTTCTTTGATTACCATGACATTAAAATTCTCCAAAA
196 AAAAAAGCTGATGCCATTAAAATGCTTTGCTTCTTTGATTACCATGACATTAAAATTCTCCAAAA
12699031 CATAGTGAGTTAGCATATAACATGTATCTAACACAAATTCAATGGCATCCAATAACTCATAACTA
261 CATAGTGAGTTAGCATATAACATGTATCTAACACAAATTCAATGGCATCCAATAACTCATAACTA
12699096 CAAGTATTGGCAACAGATGTGTGCAAAACTTCCTCATAGATATGGCATGCCACCAAAAACATCCC
326 CAAGTATTGGCAACAGATGTGTGCAAAACTTCCTCATAGATATGGCATGCCACCAAAAACATCCC
12699161 TTCAACACTTGATAATGCTCAACACCTAAAAAGGCATTCTTTAACTGGATAATTAACAATATGAT
391 TTCAACACTTGATAATGCTCAACACCTAAAAAGGCATTCTTTAACTGGATAATTAACAATATGAT
12699226 TA
456 TA
12699228 AGCAAAC
1 AGCAAAC
12699235 AATTATTTAA
Statistics
Matches: 464, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
457 464 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (457 bp):
AGCAAACTAAATGAAAATGATTAGCAGACAGCAATTCAATTTTCCCATTGGATTTCGTATTGTAA
CATGGAAACCAACCGTAATGTGGTATTAACTGGGACAATTTCAACATTTTACTATTTAGTTTCCA
CATCCCAATAAGCTGAACTCCACATCCCAAGTTCATACACATTAGCTTGTGGACATTTTAATTGT
AAAAAAGCTGATGCCATTAAAATGCTTTGCTTCTTTGATTACCATGACATTAAAATTCTCCAAAA
CATAGTGAGTTAGCATATAACATGTATCTAACACAAATTCAATGGCATCCAATAACTCATAACTA
CAAGTATTGGCAACAGATGTGTGCAAAACTTCCTCATAGATATGGCATGCCACCAAAAACATCCC
TTCAACACTTGATAATGCTCAACACCTAAAAAGGCATTCTTTAACTGGATAATTAACAATATGAT
TA
Found at i:12702927 original size:21 final size:22
Alignment explanation
Indices: 12702902--12702956 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
12702892 ATCTTAATTC
12702902 TAATAAATTTAAAAAATACAT-A
1 TAATAAATTTAAAAAAT-CATAA
* *
12702924 -AAT-ATTTTAAAAAATTATAA
1 TAATAAATTTAAAAAATCATAA
12702944 TAATAAATTTAAA
1 TAATAAATTTAAA
12702957 TTTTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 12 0.44
21 6 0.22
22 7 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAATAAATTTAAAAAATCATAA
Found at i:12702999 original size:25 final size:24
Alignment explanation
Indices: 12702969--12703017 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
12702959 TTATTAAAAT
**
12702969 TTATATAAATATTAAATAAATATAA
1 TTATATAAATACAAAATAAA-ATAA
*
12702994 TTATATTAATACAAAATAAAATAA
1 TTATATAAATACAAAATAAAATAA
12703018 GAATCCCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTATATAAATACAAAATAAAATAA
Found at i:12705351 original size:15 final size:15
Alignment explanation
Indices: 12705331--12705364 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12705321 TATTCGAGTC
12705331 ATATATTT-TTTAATT
1 ATATATTTGTTT-ATT
12705346 ATATATTTGTTTATT
1 ATATATTTGTTTATT
12705361 ATAT
1 ATAT
12705365 TATAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
ATATATTTGTTTATT
Found at i:12719610 original size:131 final size:131
Alignment explanation
Indices: 12719376--12719638 Score: 517
Period size: 131 Copynumber: 2.0 Consensus size: 131
12719366 TGGATCAAAC
*
12719376 TAATTAAATTTTCTTTTTCCCTTTCATCAAATTACTATAAATTTATTAGTAGTAGTTGGATGGCA
1 TAATTAAATTTTATTTTTCCCTTTCATCAAATTACTATAAATTTATTAGTAGTAGTTGGATGGCA
12719441 CTAATTTCCCCAAGGTCAAACTATATATAATTTTATGGGTAAATTCCACTAATAGTCACCTAATT
66 CTAATTTCCCCAAGGTCAAACTATATATAATTTTATGGGTAAATTCCACTAATAGTCACCTAATT
12719506 A
131 A
12719507 TAATTAAATTTTATTTTTCCCTTTCATCAAATTACTATAAATTTATTAGTAGTAGTTGGATGGCA
1 TAATTAAATTTTATTTTTCCCTTTCATCAAATTACTATAAATTTATTAGTAGTAGTTGGATGGCA
12719572 CTAATTTCCCCAAGGTCAAACTATATATAATTTTATGGGTAAATTCCACTAATAGTCACCTAATT
66 CTAATTTCCCCAAGGTCAAACTATATATAATTTTATGGGTAAATTCCACTAATAGTCACCTAATT
12719637 A
131 A
12719638 T
1 T
12719639 TGATAATTTG
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 131 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.41
Consensus pattern (131 bp):
TAATTAAATTTTATTTTTCCCTTTCATCAAATTACTATAAATTTATTAGTAGTAGTTGGATGGCA
CTAATTTCCCCAAGGTCAAACTATATATAATTTTATGGGTAAATTCCACTAATAGTCACCTAATT
A
Found at i:12720613 original size:31 final size:31
Alignment explanation
Indices: 12720545--12720613 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
12720535 TTTTAAAATT
* * * *
12720545 TATATAATTGAATTAAAATTAAAATTTCATA
1 TATATATTTGAATCAAAATCAAAATATCATA
*
12720576 TATATATTTGAATCATAATCAAAATATCATA
1 TATATATTTGAATCAAAATCAAAATATCATA
12720607 TATATAT
1 TATATAT
12720614 ATATATAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (31 bp):
TATATATTTGAATCAAAATCAAAATATCATA
Found at i:12720915 original size:23 final size:23
Alignment explanation
Indices: 12720881--12720951 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
12720871 GCCCGACCCG
12720881 TTTTTAATTAAAATTAAAATTATT
1 TTTTTAA-TAAAATTAAAATTATT
*
12720905 TTTTTAATAAAATTAAAATTA-A
1 TTTTTAATAAAATTAAAATTATT
* *
12720927 TTGTTAGTAAAATTATCAAATTATT
1 TTTTTAATAAAATTA--AAATTATT
12720952 AATTGTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 13 0.32
23 14 0.35
24 13 0.32
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTTTAATAAAATTAAAATTATT
Found at i:12720940 original size:22 final size:23
Alignment explanation
Indices: 12720884--12720961 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
12720874 CGACCCGTTT
* *
12720884 TTAATTAAAATTAAAATTATTTTT
1 TTAA-TAAAATTAAAATTATATTG
12720908 TTAATAAAATTAAAATTA-ATTG
1 TTAATAAAATTAAAATTATATTG
*
12720930 TTAGTAAAATTATCAAATTATTAATTG
1 TTAATAAAATTA--AAATTA-T-ATTG
12720957 TTAAT
1 TTAAT
12720962 TGTATTAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
22 13 0.29
23 14 0.31
24 10 0.22
27 8 0.18
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAATAAAATTAAAATTATATTG
Found at i:12721021 original size:59 final size:59
Alignment explanation
Indices: 12720952--12721121 Score: 304
Period size: 59 Copynumber: 2.9 Consensus size: 59
12720942 TCAAATTATT
* *
12720952 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
12721011 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
* *
12721070 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAATATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
12721122 ACAAACTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAACTTATCA
Found at i:12745299 original size:6 final size:6
Alignment explanation
Indices: 12745290--12745320 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12745280 AGCACCAGAA
*
12745290 GCTGAT GCTGAT GCTGAT GCTGAT GCCGAT G
1 GCTGAT GCTGAT GCTGAT GCTGAT GCTGAT G
12745321 AACCCTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.35, T:0.29
Consensus pattern (6 bp):
GCTGAT
Found at i:12747474 original size:3 final size:3
Alignment explanation
Indices: 12747466--12747495 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12747456 GGTCAGCGTT
12747466 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
12747496 CTGTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:12751948 original size:24 final size:24
Alignment explanation
Indices: 12751920--12751972 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
12751910 CAGTGCATCT
12751920 CGTTAATTGCTCTTCGGAGCTACC
1 CGTTAATTGCTCTTCGGAGCTACC
* *
12751944 CGTTAATTGCTCTTTGGAGCTACT
1 CGTTAATTGCTCTTCGGAGCTACC
12751968 CGTTA
1 CGTTA
12751973 TAGGCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (24 bp):
CGTTAATTGCTCTTCGGAGCTACC
Found at i:12751979 original size:24 final size:25
Alignment explanation
Indices: 12751920--12752000 Score: 87
Period size: 24 Copynumber: 3.3 Consensus size: 25
12751910 CAGTGCATCT
* *
12751920 CGTTA-ATTGCTCTTCGGAGCTACC
1 CGTTATATGGCTCTTTGGAGCTACC
* *
12751944 CGTTA-ATTGCTCTTTGGAGCTACT
1 CGTTATATGGCTCTTTGGAGCTACC
*
12751968 CGTTATA-GGCTCTTTGTGAGCTTCC
1 CGTTATATGGCTCTTTG-GAGCTACC
12751993 CGTTATAT
1 CGTTATAT
12752001 TTCTCGAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 35 0.71
25 14 0.29
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (25 bp):
CGTTATATGGCTCTTTGGAGCTACC
Found at i:12753523 original size:46 final size:46
Alignment explanation
Indices: 12753465--12753603 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 46
12753455 ACAAGGCTAT
*
12753465 AACTCAGTATGGTTTTCTTCACGGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
* * *
12753511 AACTTAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
* *
12753557 AACTCAGTATGGCTTTCTTCACTGG-AATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCAC-GGAAATACCATACCTACTTTTCAC
12753603 A
1 A
12753604 CCTTGCCATG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 82 0.99
47 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
Found at i:12754133 original size:46 final size:46
Alignment explanation
Indices: 12754077--12754188 Score: 197
Period size: 46 Copynumber: 2.4 Consensus size: 46
12754067 CCATGGAAAC
*
12754077 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
12754123 TTGTGCAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
*
12754169 TTGTGAAAAGCAGGTATGGT
1 TTGTGAAAAGTAGGTATGGT
12754189 AAAATAACAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:12754603 original size:46 final size:46
Alignment explanation
Indices: 12754537--12754630 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
12754527 ACAATGCTAT
* * * *
12754537 AACTCAATATGGTTTCCTTCACTGAAATATCATACCTACTTTTCAC
1 AACTCAATATGATTTCCTTCACTGAAACACCATACCTACATTTCAC
* *
12754583 AACTCAGTATGATTTTCTTCACTGAAACACCATACCTACATTTCAC
1 AACTCAATATGATTTCCTTCACTGAAACACCATACCTACATTTCAC
12754629 AA
1 AA
12754631 TTTTCCATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (46 bp):
AACTCAATATGATTTCCTTCACTGAAACACCATACCTACATTTCAC
Found at i:12757899 original size:28 final size:29
Alignment explanation
Indices: 12757840--12757899 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
12757830 GAATTGAAAA
*
12757840 TTTTAATTTTTTTATATTATTTGGTAAGT
1 TTTTAATTTTTTTATATTATTTGGAAAGT
*
12757869 TTTTAATTTTTTTA-ATTATTT-GAAATT
1 TTTTAATTTTTTTATATTATTTGGAAAGT
12757896 TTTT
1 TTTT
12757900 CCAAAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 8 0.28
28 7 0.24
29 14 0.48
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (29 bp):
TTTTAATTTTTTTATATTATTTGGAAAGT
Found at i:12772976 original size:28 final size:27
Alignment explanation
Indices: 12772933--12772987 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
12772923 TCCGAATTTC
*
12772933 AAATCCGAAGCTTAAACTCTAAATCTT
1 AAATCCGAACCTTAAACTCTAAATCTT
* *
12772960 AAATCTCGAACCTTAAATTTTAAATCTT
1 AAATC-CGAACCTTAAACTCTAAATCTT
12772988 GAACGGATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (27 bp):
AAATCCGAACCTTAAACTCTAAATCTT
Found at i:12772982 original size:21 final size:21
Alignment explanation
Indices: 12772952--12772991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12772942 GCTTAAACTC
12772952 TAAATCTTAAATCTCGAACCT
1 TAAATCTTAAATCTCGAACCT
* *
12772973 TAAATTTTAAATCTTGAAC
1 TAAATCTTAAATCTCGAAC
12772992 GGATTCAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAATCTTAAATCTCGAACCT
Found at i:12780766 original size:17 final size:17
Alignment explanation
Indices: 12780733--12780779 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
12780723 CCCGATATAA
* **
12780733 TAAATATATTTATTTTT
1 TAAATATTTTTAAATTT
12780750 TAAAT-TTTTTAAATTT
1 TAAATATTTTTAAATTT
12780766 TAAATATTTTTAAA
1 TAAATATTTTTAAA
12780780 ATACGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAATATTTTTAAATTT
Found at i:12780806 original size:11 final size:11
Alignment explanation
Indices: 12780763--12780848 Score: 78
Period size: 11 Copynumber: 8.4 Consensus size: 11
12780753 ATTTTTTAAA
12780763 TTTT-AAATAT
1 TTTTAAAATAT
*
12780773 TTTTAAAATAC
1 TTTTAAAATAT
*
12780784 GTTTAAAAT-T
1 TTTTAAAATAT
12780794 TTTTAAAAT-T
1 TTTTAAAATAT
*
12780804 TTTT----TAA
1 TTTTAAAATAT
12780811 TTTTAAAATAT
1 TTTTAAAATAT
*
12780822 TTTTAAAATAA
1 TTTTAAAATAT
12780833 TTTTAAAATAAT
1 TTTTAAAAT-AT
12780845 TTTT
1 TTTT
12780849 TAGTATTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
10 17 0.28
11 34 0.56
12 5 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12780815 original size:38 final size:38
Alignment explanation
Indices: 12780751--12780850 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
12780741 TTTATTTTTT
** *
12780751 AAATTTTTT-AAATTTTAAATATTTTTAAAATACGTTTA
1 AAATTTTTTAAAATTTT-TTTAATTTTAAAATACGTTTA
**
12780789 AAATTTTTTAAAATTTTTTTAATTTTAAAATATTTTTA
1 AAATTTTTTAAAATTTTTTTAATTTTAAAATACGTTTA
*
12780827 AAATAATTTTAAAATAATTTTTTA
1 AAAT-TTTTTAAAAT--TTTTTTA
12780851 GTATTTATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
38 29 0.56
39 16 0.31
41 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (38 bp):
AAATTTTTTAAAATTTTTTTAATTTTAAAATACGTTTA
Found at i:12780816 original size:17 final size:17
Alignment explanation
Indices: 12780794--12780827 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12780784 GTTTAAAATT
*
12780794 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
12780811 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
12780828 AATAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:12780826 original size:49 final size:47
Alignment explanation
Indices: 12780744--12780841 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 47
12780734 AAATATATTT
*
12780744 ATTTTTTAAATTTTTTAAATTTTAAATATTTTTAAAATACGTTTAAA
1 ATTTTTTAAATTTTTTAAATTTTAAATATTTTTAAAATAAGTTTAAA
* *
12780791 ATTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAATTTTAAA
1 ATTTTTT-AAATTTTTTAAATTTT-AAATATTTTTAAAATAAGTTTAAA
12780840 AT
1 AT
12780842 AATTTTTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 7 0.15
48 15 0.33
49 24 0.52
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (47 bp):
ATTTTTTAAATTTTTTAAATTTTAAATATTTTTAAAATAAGTTTAAA
Found at i:12783372 original size:37 final size:38
Alignment explanation
Indices: 12783331--12783421 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 38
12783321 ACACATGAAT
* *
12783331 TTGAACTATTGATTTTTGTTTTGC-TGCATATAAGTTG
1 TTGAACTATTGATTTTTGGTATGCATGCATATAAGTTG
* * *
12783368 TTGAATTGTTGATTTTTGGTATGCAATGTATATAAGTTG
1 TTGAACTATTGATTTTTGGTATGC-ATGCATATAAGTTG
* *
12783407 TTAAACTAGTGATTT
1 TTGAACTATTGATTT
12783422 AATAAGTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
37 20 0.47
39 23 0.53
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.49
Consensus pattern (38 bp):
TTGAACTATTGATTTTTGGTATGCATGCATATAAGTTG
Found at i:12794211 original size:20 final size:20
Alignment explanation
Indices: 12794169--12794217 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12794159 CTGCTGCCTC
*
12794169 TGTCCCTTCCACCATGGTGT
1 TGTCCCTTCCACCATGGTAT
*
12794189 TGTCCTTTCCACCA-GGCTAT
1 TGTCCCTTCCACCATGG-TAT
12794209 TGTCCCTTC
1 TGTCCCTTC
12794218 AATGGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.10, C:0.37, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTCCCTTCCACCATGGTAT
Found at i:12795086 original size:38 final size:38
Alignment explanation
Indices: 12795036--12795120 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
12795026 TAACTGACTC
* *
12795036 TTTTA-ATC-ATATAATTGATGTTAACTTATTTAATTT
1 TTTTATATCAATATAATTGATATTAACTCATTTAATTT
* *
12795072 TTTTATATCAATATACTTGTTATTAACTCATTTAATTT
1 TTTTATATCAATATAATTGATATTAACTCATTTAATTT
12795110 TTTTATATCAA
1 TTTTATATCAA
12795121 CTTTGGGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 5 0.12
37 3 0.07
38 35 0.81
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (38 bp):
TTTTATATCAATATAATTGATATTAACTCATTTAATTT
Found at i:12795343 original size:55 final size:56
Alignment explanation
Indices: 12795219--12795371 Score: 185
Period size: 55 Copynumber: 2.9 Consensus size: 56
12795209 TGTAATTGTA
* * * *
12795219 CCTATTTGACAGGCGCCAATCAATTTTTTATATTAAAAAA-A-A--ATTAATTGCG
1 CCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATATATTTTTAATCGCG
* * * *
12795271 CCTACCTAATAGACGCGAATCAA-TTTTTATATTAAAAAATATATTTTTAATCGCG
1 CCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATATATTTTTAATCGCG
12795326 CCTATCTGACAGGCGCGAATCAATTTTTTATATT--AAAATATATTTT
1 CCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATATATTTT
12795372 GTTGTTTAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
51 16 0.19
52 18 0.21
53 1 0.01
54 12 0.14
55 27 0.32
56 10 0.12
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (56 bp):
CCTATCTGACAGGCGCGAATCAATTTTTTATATTAAAAAATATATTTTTAATCGCG
Found at i:12795669 original size:15 final size:16
Alignment explanation
Indices: 12795634--12795676 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
12795624 CTCATTTAAT
*
12795634 TTTTTATATAATGTAA
1 TTTTTATATAATATAA
12795650 TTTTTATATAATATAA
1 TTTTTATATAATATAA
12795666 -TTTTATATAAT
1 TTTTTATATAAT
12795677 TTTTTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTTTATATAATATAA
Found at i:12798652 original size:84 final size:84
Alignment explanation
Indices: 12798547--12798725 Score: 349
Period size: 84 Copynumber: 2.1 Consensus size: 84
12798537 GTGCTATTAG
12798547 CTCCTTTACTTACACTCCTCTTATGCTCCACTCAGCTAGGATGAACCAACCTTCCTTAACACCAC
1 CTCCTTTA-TTACACTCCTCTTATGCTCCACTCAGCTAGGATGAACCAACCTTCCTTAACACCAC
12798612 CGCGTCCTCCTCTTTATCCC
65 CGCGTCCTCCTCTTTATCCC
12798632 CTCCTTTATTACACTCCTCTTATGCTCCACTCAGCTAGGATGAACCAACCTTCCTTAACACCACC
1 CTCCTTTATTACACTCCTCTTATGCTCCACTCAGCTAGGATGAACCAACCTTCCTTAACACCACC
12798697 GCGTCCTCCTCTTTATCCC
66 GCGTCCTCCTCTTTATCCC
12798716 CTCCTTTATT
1 CTCCTTTATT
12798726 GATGTACTCA
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 86 0.91
85 8 0.09
ACGTcount: A:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (84 bp):
CTCCTTTATTACACTCCTCTTATGCTCCACTCAGCTAGGATGAACCAACCTTCCTTAACACCACC
GCGTCCTCCTCTTTATCCC
Found at i:12812301 original size:50 final size:50
Alignment explanation
Indices: 12812177--12812425 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
12812167 GATAATAACA
* * * *
12812177 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCAT-CTCGG
* * *
12812228 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * *
12812278 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
* * * *
12812328 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTC-TCATC-T-CGG
*
12812383 ATGCCAATGCCATGTCCCAGACATGGCCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
12812426 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 1 0.01
50 85 0.51
51 34 0.20
52 3 0.02
53 4 0.02
54 5 0.03
55 2 0.01
56 34 0.20
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
Found at i:12812355 original size:100 final size:105
Alignment explanation
Indices: 12812176--12812425 Score: 341
Period size: 100 Copynumber: 2.4 Consensus size: 105
12812166 TGATAATAAC
**
12812176 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
12812241 TCCCAGACATGGTCTTATAGGGGA-TCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
* *
12812278 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
*
12812341 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGA-CTCTCATCATCTTAAGG
* * *
12812383 ATGCCAATGCCATGTCCCAGACATGGCCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12812426 TTACCCAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 44 0.34
101 36 0.27
102 4 0.03
103 4 0.03
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACTCTCATCATCTTAAGG
Found at i:12812541 original size:13 final size:13
Alignment explanation
Indices: 12812520--12812551 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12812510 GCTTGGATCA
*
12812520 TCATCAAATAAAT
1 TCATAAAATAAAT
12812533 TCATAAAATAAAT
1 TCATAAAATAAAT
12812546 TCATAA
1 TCATAA
12812552 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:12812798 original size:30 final size:30
Alignment explanation
Indices: 12812763--12812820 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
12812753 CCTCGACTCT
*
12812763 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
12812793 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
12812821 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:12819337 original size:31 final size:31
Alignment explanation
Indices: 12819302--12819368 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
12819292 AAAAAAACTT
*
12819302 AATAGCCCAGTGAATTAAATAAAAACTTTTG
1 AATAGCCCAGTGAATTAAATAAAAACTTTCG
** * *
12819333 AATAGTTCAGTGACTTAAATGAAAACTTTCG
1 AATAGCCCAGTGAATTAAATAAAAACTTTCG
12819364 AATAG
1 AATAG
12819369 ATCAGTGACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (31 bp):
AATAGCCCAGTGAATTAAATAAAAACTTTCG
Found at i:12819374 original size:31 final size:31
Alignment explanation
Indices: 12819309--12819377 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
12819299 CTTAATAGCC
* * *
12819309 CAGTGAATTAAATAAAAACTTTTGAATAGTT
1 CAGTGACTTAAATAAAAACTTTCGAATAGAT
*
12819340 CAGTGACTTAAATGAAAACTTTCGAATAGAT
1 CAGTGACTTAAATAAAAACTTTCGAATAGAT
12819371 CAGTGAC
1 CAGTGAC
12819378 CAAATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTCGAATAGAT
Found at i:12827382 original size:18 final size:18
Alignment explanation
Indices: 12827359--12827401 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12827349 ATTCAAGGTG
12827359 TAATTAATTTAAAATTA-T
1 TAATTAA-TTAAAATTATT
*
12827377 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
12827395 TAATTAA
1 TAATTAA
12827402 AAATCTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:12832119 original size:3 final size:3
Alignment explanation
Indices: 12832111--12832140 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12832101 TTAAAATCAC
12832111 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12832141 AGATTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12833619 original size:28 final size:27
Alignment explanation
Indices: 12833587--12833645 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
12833577 TTTTTTTAAA
12833587 AATTTT-ATTAACTTTTTATATTTTTGTG
1 AATTTTAATTAA-TTTTTAT-TTTTTGTG
12833615 AATTTTGAATTAATTTTTATTTTTTGTG
1 AATTTT-AATTAATTTTTATTTTTTGTG
12833643 AAT
1 AAT
12833646 ATTTTCATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 17 0.59
29 7 0.24
30 5 0.17
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (27 bp):
AATTTTAATTAATTTTTATTTTTTGTG
Found at i:12836044 original size:3 final size:3
Alignment explanation
Indices: 12836036--12836084 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
12836026 GCATACTTCC
* * * *
12836036 TAA TAA TAA TAA TAA TAA TGA TAA TGA TGA TAA TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12836084 T
1 T
12836085 GTGTTCCTAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:12840384 original size:29 final size:29
Alignment explanation
Indices: 12840342--12840400 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12840332 AACGTGACGT
12840342 TTGTCACCTGCTACTTATTTAAATTTCAC
1 TTGTCACCTGCTACTTATTTAAATTTCAC
12840371 TTGTCACCTGCTACTTATTTAAATTTCAC
1 TTGTCACCTGCTACTTATTTAAATTTCAC
12840400 T
1 T
12840401 GAAAGTGGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.46
Consensus pattern (29 bp):
TTGTCACCTGCTACTTATTTAAATTTCAC
Found at i:12844178 original size:92 final size:94
Alignment explanation
Indices: 12844064--12844234 Score: 240
Period size: 95 Copynumber: 1.8 Consensus size: 94
12844054 TCTTTTTATA
* * * * * *
12844064 AACATACTCGGTGCCATTCAC-G-ACTAC-AAAGAATGAACTATTCTTCATTTTAAATTCAATGC
1 AACACACTCGGTCCCATTCACAGTACGACAAAAGAACGAACTATTCTT-AATATAAATTCAATGC
12844126 AAACGCAACGCATCTTCAGGAGATTCATAG
65 AAACGCAACGCATCTTCAGGAGATTCATAG
*
12844156 AACACACTCGGTCCCATTCACGAGTACGACAAAAGAACGAATTATTCTTAATATAAATTCAATGC
1 AACACACTCGGTCCCATTCAC-AGTACGACAAAAGAACGAACTATTCTTAATATAAATTCAATGC
12844221 AAACGCAACGCATC
65 AAACGCAACGCATC
12844235 ATCATCAGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 19 0.28
94 1 0.01
95 32 0.47
96 16 0.24
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (94 bp):
AACACACTCGGTCCCATTCACAGTACGACAAAAGAACGAACTATTCTTAATATAAATTCAATGCA
AACGCAACGCATCTTCAGGAGATTCATAG
Found at i:12846325 original size:16 final size:16
Alignment explanation
Indices: 12846292--12846331 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
12846282 TATCACTACT
*
12846292 AATTTAAAATTTTATA
1 AATTTAAAAATTTATA
12846308 AATTATAAAAATTT-TA
1 AATT-TAAAAATTTATA
12846324 AATTTAAA
1 AATTTAAA
12846332 TTTTATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTAAAAATTTATA
Found at i:12848652 original size:24 final size:24
Alignment explanation
Indices: 12848625--12848671 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12848615 TGGTGTGGCA
*
12848625 ACAGGAGTTGATGATGAAGCAGCT
1 ACAGGAGTTGATGATGAAACAGCT
12848649 ACAGGAGTTGATGATGAAACAGC
1 ACAGGAGTTGATGATGAAACAGC
12848672 ATCAGATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (24 bp):
ACAGGAGTTGATGATGAAACAGCT
Found at i:12858501 original size:21 final size:21
Alignment explanation
Indices: 12858462--12858502 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12858452 CCACAAGAAA
* * *
12858462 CCTCTTTATAAATATATTTCT
1 CCTCTTTAAAAAGAGATTTCT
12858483 CCTCTTTAAAAAGAGATTTC
1 CCTCTTTAAAAAGAGATTTC
12858503 ATAGGGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (21 bp):
CCTCTTTAAAAAGAGATTTCT
Found at i:12863793 original size:21 final size:22
Alignment explanation
Indices: 12863767--12863813 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12863757 CTCTGCTCAA
*
12863767 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
12863788 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
12863810 ACTC
1 ACTC
12863814 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:12867462 original size:29 final size:30
Alignment explanation
Indices: 12867414--12867472 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
12867404 AAATTAGATC
* *
12867414 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAATTCCATATATAAAATTGCACA
*
12867444 AAATC-AAATTCCATATATACAATTGCACA
1 AAATCAAAATTCCATATATAAAATTGCACA
12867473 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTCCATATATAAAATTGCACA
Found at i:12867614 original size:13 final size:13
Alignment explanation
Indices: 12867598--12867628 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
12867588 AATTATATTC
12867598 TAAAATTTGAATT
1 TAAAATTTGAATT
*
12867611 TAAAATTTTAATT
1 TAAAATTTGAATT
12867624 TAAAA
1 TAAAA
12867629 ATGTAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TAAAATTTGAATT
Found at i:12869722 original size:19 final size:18
Alignment explanation
Indices: 12869680--12869722 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
12869670 ATATAAAAAG
* *
12869680 AAATTAAAAATTTATTGT
1 AAATTAAAAATATATTAT
12869698 AGAATTAAAAATATATATAT
1 A-AATTAAAAATATAT-TAT
12869718 AAATT
1 AAATT
12869723 TCGAGTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 17 0.81
20 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
AAATTAAAAATATATTAT
Found at i:12870342 original size:4 final size:4
Alignment explanation
Indices: 12870335--12870378 Score: 79
Period size: 4 Copynumber: 11.0 Consensus size: 4
12870325 TATATATATC
*
12870335 TATG TATG TATG TATG TATG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
12870379 ACTGCGCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:12871146 original size:18 final size:18
Alignment explanation
Indices: 12871123--12871162 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
12871113 CAATTCATCG
*
12871123 ATATAAA-TCTATAGATAT
1 ATATAAATTCAATA-ATAT
12871141 ATATAAATTCAATAATAT
1 ATATAAATTCAATAATAT
12871159 ATAT
1 ATAT
12871163 CCAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATAAATTCAATAATAT
Found at i:12875185 original size:5 final size:5
Alignment explanation
Indices: 12875157--12875203 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
12875147 AAATTTAGCA
* *
12875157 CAATT GAATA CAATT CATATT CAATT CAATT CAATT CAATT CAATT C
1 CAATT CAATT CAATT CA-ATT CAATT CAATT CAATT CAATT CAATT C
12875204 CTAGGAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 32 0.86
6 5 0.14
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.38
Consensus pattern (5 bp):
CAATT
Found at i:12877052 original size:21 final size:22
Alignment explanation
Indices: 12877028--12877072 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
12877018 AGAAAAAGAG
12877028 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
12877049 AAATCAAAAAGGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
12877071 AA
1 AA
12877073 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:12882771 original size:12 final size:12
Alignment explanation
Indices: 12882754--12882781 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12882744 TAAAAATTTT
12882754 AAAAAATTTAAA
1 AAAAAATTTAAA
12882766 AAAAAATTTAAA
1 AAAAAATTTAAA
12882778 AAAA
1 AAAA
12882782 TTTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAAATTTAAA
Found at i:12882773 original size:22 final size:22
Alignment explanation
Indices: 12882745--12882789 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12882735 TTTTTATTTT
*
12882745 AAAAATTTTAAAAAATTTAAAA
1 AAAAATTTAAAAAAATTTAAAA
*
12882767 AAAAATTTAAAAAAATTTTAAA
1 AAAAATTTAAAAAAATTTAAAA
12882789 A
1 A
12882790 TTAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAATTTAAAAAAATTTAAAA
Found at i:12882806 original size:38 final size:37
Alignment explanation
Indices: 12882752--12882915 Score: 211
Period size: 38 Copynumber: 4.2 Consensus size: 37
12882742 TTTAAAAATT
* *
12882752 TTAAAAAATTTAAAAAAAAATTTAAAAAAATTTTAAAA
1 TTAAAAAA-TTAAAAAATAATTTAAAAATATTTTAAAA
*
12882790 TTAAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TT--AAAAAATTAAAAAA-TAATTTAAAAATATTTTAAAA
*
12882830 TTAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAA-TAATTTAAAAATATTTTAAAA
* *
12882868 TTAAAAAATTAAAAAATTATGTAAAAATATTTTAAAA
1 TTAAAAAATTAAAAAATAATTTAAAAATATTTTAAAA
12882905 TTTTAAAAAAT
1 --TTAAAAAAT
12882916 AAATATATTT
Statistics
Matches: 115, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
37 18 0.16
38 54 0.47
39 17 0.15
40 26 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (37 bp):
TTAAAAAATTAAAAAATAATTTAAAAATATTTTAAAA
Found at i:12882818 original size:11 final size:11
Alignment explanation
Indices: 12882803--12882867 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
12882793 AAAAAAATTA
12882803 AAAAAGTATTTT
1 AAAAA-TATTTT
12882815 AAAAATATTTT
1 AAAAATATTTT
12882826 --AAA-A--TT
1 AAAAATATTTT
*
12882832 AAAAA-A-TTA
1 AAAAATATTTT
12882841 AAAAAGTATTTT
1 AAAAA-TATTTT
12882853 AAAAATATTTT
1 AAAAATATTTT
12882864 AAAA
1 AAAA
12882868 TTAAAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 9 0.20
11 17 0.38
12 12 0.27
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12882843 original size:7 final size:8
Alignment explanation
Indices: 12882826--12882886 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
12882816 AAAATATTTT
12882826 AAAATTAA
1 AAAATTAA
12882834 AAAATTAAA
1 AAAATT-AA
12882843 AAAGTATTTTAA
1 AAA--A--TTAA
**
12882855 AAATATTTT
1 AAA-ATTAA
12882864 AAAATTAA
1 AAAATTAA
12882872 AAAATTAA
1 AAAATTAA
12882880 AAAATTA
1 AAAATTA
12882887 TGTAAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 24 0.55
9 10 0.23
11 3 0.07
12 5 0.11
13 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (8 bp):
AAAATTAA
Found at i:12882903 original size:11 final size:10
Alignment explanation
Indices: 12882740--12882915 Score: 80
Period size: 10 Copynumber: 18.2 Consensus size: 10
12882730 GCCCATTTTT
12882740 ATTTT-AAAA
1 ATTTTAAAAA
12882749 ATTTTAAAAA
1 ATTTTAAAAA
*
12882759 ATTTAAAAAAAA
1 ATTT--TAAAAA
*
12882771 ATTTAAAAAA
1 ATTTTAAAAA
12882781 ATTTT--AAA
1 ATTTTAAAAA
*
12882789 A-TTAAAAAA
1 ATTTTAAAAA
* *
12882798 AATTAAAAAA
1 ATTTTAAAAA
12882808 GTATTTTAAAAA
1 --ATTTTAAAAA
12882820 TATTTT--AAA
1 -ATTTTAAAAA
12882829 A--TTAAAAA
1 ATTTTAAAAA
*
12882837 A-TTAAAAAA
1 ATTTTAAAAA
12882846 GTATTTTAAAAA
1 --ATTTTAAAAA
12882858 TATTTT--AAA
1 -ATTTTAAAAA
12882867 A--TTAAAAA
1 ATTTTAAAAA
12882875 A--TTAAAAA
1 ATTTTAAAAA
12882883 ATTATGTAAAAA
1 ATT-T-TAAAAA
12882895 TATTTT--AAA
1 -ATTTTAAAAA
12882904 ATTTTAAAAA
1 ATTTTAAAAA
12882914 AT
1 AT
12882916 AAATATATTT
Statistics
Matches: 137, Mismatches: 7, Indels: 45
0.72 0.04 0.24
Matches are distributed among these distances:
6 4 0.03
7 2 0.01
8 27 0.20
9 24 0.18
10 31 0.23
11 15 0.11
12 31 0.23
13 3 0.02
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:12888666 original size:17 final size:18
Alignment explanation
Indices: 12888640--12888673 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12888630 TTTGTCACAA
12888640 TTTATAATTAT-ATATTT
1 TTTATAATTATAATATTT
*
12888657 TTTATCATTATAATATT
1 TTTATAATTATAATATT
12888674 AAAGGAGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATAATTATAATATTT
Found at i:12892650 original size:25 final size:24
Alignment explanation
Indices: 12892603--12892652 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
12892593 ATTTATAATT
*
12892603 TATAAAAATTAAATCAAACTAAAA
1 TATAAAAATTAAATCAAAATAAAA
12892627 TATATAAAATTAAA-CAAAAATAAAA
1 TATA-AAAATTAAATC-AAAATAAAA
12892652 T
1 T
12892653 TAATATACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
TATAAAAATTAAATCAAAATAAAA
Found at i:12901558 original size:41 final size:41
Alignment explanation
Indices: 12901463--12901547 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
12901453 CGCTTCTAGG
* * * * **
12901463 AAAGCGCCGTTAATGCTCAGGTCTTTAGCGGCGTTTTTGGA
1 AAAGTGCCGCTAATTCTTAGGTCTTTAGCGGCGTTTTTAAA
*
12901504 GAAGTGCCGCTAATTCTTAGGTCTTTAGCGGCG-TTTTAAA
1 AAAGTGCCGCTAATTCTTAGGTCTTTAGCGGCGTTTTTAAA
12901544 AAAG
1 AAAG
12901548 GCGCTGCTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
40 8 0.22
41 28 0.78
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
AAAGTGCCGCTAATTCTTAGGTCTTTAGCGGCGTTTTTAAA
Found at i:12903516 original size:3 final size:3
Alignment explanation
Indices: 12903508--12903552 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
12903498 ATGATTTTGC
12903508 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12903553 AAAAAATCGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12906398 original size:24 final size:22
Alignment explanation
Indices: 12906370--12906413 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
12906360 AATTTAAAAA
12906370 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
12906394 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
12906414 ACTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:12906490 original size:84 final size:85
Alignment explanation
Indices: 12906397--12906563 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
12906387 ATTTATCATA
* * *
12906397 AAAATAAATATTATTTAACTAAAAT-ATTTTTTTTAAAGGTTATGTTTTTAGCGGCGTTTTTGAG
1 AAAATAAATATTATTTAACTAAAATAACTTTCTTTAAAGGTTATGTTTTTAGCGGCGTTTTTAAG
12906461 AGAAGCGCCGCTAAAGGTAT
66 AGAAGCGCCGCTAAAGGTAT
* * * *
12906481 AAAATAAATATTATTTGATTAAAATAACTTTCTTTAAATGTTATGTTTTTAGCGGTGTTTTTAAG
1 AAAATAAATATTATTTAACTAAAATAACTTTCTTTAAAGGTTATGTTTTTAGCGGCGTTTTTAAG
* *
12906546 AGAAGCGTCTCTAAAGGT
66 AGAAGCGCCGCTAAAGGT
12906564 TTGTTCTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 23 0.32
85 50 0.68
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.41
Consensus pattern (85 bp):
AAAATAAATATTATTTAACTAAAATAACTTTCTTTAAAGGTTATGTTTTTAGCGGCGTTTTTAAG
AGAAGCGCCGCTAAAGGTAT
Found at i:12906627 original size:43 final size:43
Alignment explanation
Indices: 12906572--12906727 Score: 192
Period size: 43 Copynumber: 3.6 Consensus size: 43
12906562 GTTTGTTCTT
12906572 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTTTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTTTA
* * *
12906615 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGT-GTCCTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT-TTA
* * * *
12906658 TAGCGGCGTTTATGGGAAAAGCGCTGCTAAAGGTCATGACCTTTA
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG--GTTTA
*
12906703 -A-CGGCGTTTGTGGAAAAAACGCCGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGC
12906728 AAATGTTAGT
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.02
43 91 0.94
44 1 0.01
45 2 0.02
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTTTA
Found at i:12910245 original size:18 final size:18
Alignment explanation
Indices: 12910218--12910310 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
12910208 TACGACCGTT
* *
12910218 TACGGTACTATTTACGTA
1 TACGGCACTATTCACGTA
* *
12910236 TACGACACTATTTACGTA
1 TACGGCACTATTCACGTA
*
12910254 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
12910272 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
12910290 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
12910308 TAC
1 TAC
12910311 AGTAGTTGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:12910265 original size:36 final size:36
Alignment explanation
Indices: 12910218--12910310 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
12910208 TACGACCGTT
* *
12910218 TACGGTACTATTTACGTATACGACACTATTTACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
* *
12910254 TACGGTACTATTCACGTATATGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGACACTATTCACGTA
* *
12910290 TACAGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
12910311 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGACACTATTCACGTA
Found at i:12917278 original size:18 final size:17
Alignment explanation
Indices: 12917237--12917283 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
12917227 CAAATAATTT
*
12917237 AAAATT-ATAAAAATAA
1 AAAATTCATAAAAAAAA
12917253 AAAATTCA-AAAAAAAA
1 AAAATTCATAAAAAAAA
12917269 ACAAAGTTCATAAAA
1 A-AAA-TTCATAAAA
12917284 GTTTAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 14 0.54
17 4 0.15
18 4 0.15
19 4 0.15
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATTCATAAAAAAAA
Found at i:12924837 original size:22 final size:21
Alignment explanation
Indices: 12924812--12924855 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
12924802 ATAATAATTT
12924812 TATTT-ATATTTTAAATTGTAAA
1 TATTTAAT-TTTTAAATT-TAAA
12924834 TATTTAATTTTTAAATTTAAA
1 TATTTAATTTTTAAATTTAAA
12924855 T
1 T
12924856 TTATGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 14 0.67
23 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATTTAATTTTTAAATTTAAA
Found at i:12928094 original size:18 final size:18
Alignment explanation
Indices: 12928056--12928091 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12928046 TTATTATTTT
*
12928056 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
12928074 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
12928092 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:12941654 original size:21 final size:21
Alignment explanation
Indices: 12941628--12941668 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12941618 ATCTGCTCAA
* *
12941628 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
12941649 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
12941669 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:12959272 original size:18 final size:18
Alignment explanation
Indices: 12959246--12959282 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
12959236 ATTTTTCAAG
12959246 TTTTTAAAT-TTTGAATT
1 TTTTTAAATATTTGAATT
12959263 TTTTTGAAATATTTGAATT
1 TTTTT-AAATATTTGAATT
12959282 T
1 T
12959283 GGACTAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTTAAATATTTGAATT
Found at i:12966233 original size:40 final size:40
Alignment explanation
Indices: 12966142--12966311 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
12966132 TCCTCGTTCA
* * * * *
12966142 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
12966181 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
12966221 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
12966261 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
12966301 AAGGCCTTCGG
1 AATGCCTTCGG
12966312 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:12967931 original size:41 final size:41
Alignment explanation
Indices: 12967874--12967975 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
12967864 GCTTAGCGCT
*
12967874 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACTAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
* * *
12967915 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
12967956 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
12967976 TACTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
40 3 0.05
41 53 0.95
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACTAAATGTC
Found at i:12972884 original size:3 final size:3
Alignment explanation
Indices: 12972876--12972904 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
12972866 TATATATGAT
12972876 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
12972905 TTTTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12978403 original size:22 final size:21
Alignment explanation
Indices: 12978345--12978403 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
12978335 AAATGACAGT
*
12978345 AAAACAATGAGAAAATAGCAAG
1 AAAACAA-CAGAAAATAGCAAG
**
12978367 AAAACAACAGCAAAATAGTGAG
1 AAAACAACAG-AAAATAGCAAG
*
12978389 GAAACAACAAGAAAA
1 AAAACAAC-AGAAAA
12978404 CAACTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.64, C:0.12, G:0.17, T:0.07
Consensus pattern (21 bp):
AAAACAACAGAAAATAGCAAG
Found at i:12986132 original size:7 final size:7
Alignment explanation
Indices: 12986120--12986145 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12986110 TAATTATCAA
12986120 CATGAAC
1 CATGAAC
12986127 CATGAAC
1 CATGAAC
12986134 CATGAAC
1 CATGAAC
12986141 CATGA
1 CATGA
12986146 CATACTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (7 bp):
CATGAAC
Found at i:12994552 original size:55 final size:54
Alignment explanation
Indices: 12994481--12994590 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 54
12994471 CCACATTAGA
*
12994481 AGATTTAACAAAGTATAAAGGCCAATTATGTCATAATCTTTTTTTTATCAAATTC
1 AGATTTAACAAAGTATAAAGGCCAATTATGTCATAA-CTTTTTATTATCAAATTC
* *
12994536 AGATTTAATAATGTATAAAGGCCAATTATGTCATAACTTTTTATTATCAAATTC
1 AGATTTAACAAAGTATAAAGGCCAATTATGTCATAACTTTTTATTATCAAATTC
12994590 A
1 A
12994591 ACCTTAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (54 bp):
AGATTTAACAAAGTATAAAGGCCAATTATGTCATAACTTTTTATTATCAAATTC
Found at i:12994599 original size:54 final size:55
Alignment explanation
Indices: 12994493--12994599 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 55
12994483 ATTTAACAAA
* *
12994493 GTATAAAGGCCAATTATGTCATAATCTTTTTTTTATCAAATTCAGATTTAATAAT
1 GTATAAAGGCCAATTATGTCATAATCTTTTTATTATCAAATTCAGACTTAATAAT
12994548 GTATAAAGGCCAATTATGTCATAA-CTTTTTATTATCAAATTCA-ACCTTAATA
1 GTATAAAGGCCAATTATGTCATAATCTTTTTATTATCAAATTCAGA-CTTAATA
12994600 TATTTTATCA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
53 1 0.02
54 24 0.49
55 24 0.49
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.41
Consensus pattern (55 bp):
GTATAAAGGCCAATTATGTCATAATCTTTTTATTATCAAATTCAGACTTAATAAT
Found at i:12995345 original size:13 final size:12
Alignment explanation
Indices: 12995300--12995355 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
12995290 TAGATAAATA
12995300 TTATTTTATTA-
1 TTATTTTATTAT
* *
12995311 ATATTTTAATGAT
1 TTATTTT-ATTAT
*
12995324 ATATTTTATTAT
1 TTATTTTATTAT
12995336 TTATTATTATTATT
1 TTATT-TTATTA-T
12995350 TTATTT
1 TTATTT
12995356 AGTATATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 6 0.16
12 11 0.30
13 14 0.38
14 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:12998653 original size:46 final size:45
Alignment explanation
Indices: 12998600--12998739 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 45
12998590 ACATTACTAT
* *
12998600 AACTCAGTATGGTTTCCTTCACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTT-CTTCACTGAAACACCATACCTACTTTTCAC
*
12998646 AACTCAGTATGGCTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTCTTCACTGAAACACCATACCTACTTTTCAC
*
12998692 AACTCAGTATGCTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATG-GTTTCTTCACTGAAACACCATACCTACTTTTCAC
12998738 AA
1 AA
12998740 TTTGCCATGG
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
46 84 0.97
47 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (45 bp):
AACTCAGTATGGTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:13000013 original size:16 final size:17
Alignment explanation
Indices: 12999967--13000014 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
12999957 AAATTCTTTT
*
12999967 TAAATCTCAAAATTCAA
1 TAAATCACAAAATTCAA
*
12999984 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
13000001 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
13000015 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:13000201 original size:21 final size:21
Alignment explanation
Indices: 13000177--13000257 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
13000167 CGAGCTTCTG
* *
13000177 TTAACTCATATGAGTTTCGGT
1 TTAACTCTTATGAGTTTCAGT
* *
13000198 TTAACACTTATGGGTTTCCA-T
1 TTAACTCTTATGAGTTT-CAGT
* * *
13000219 TCAACTCTTTTGAGCTTCAGT
1 TTAACTCTTATGAGTTTCAGT
*
13000240 TTAACCCTTATGAGTTTC
1 TTAACTCTTATGAGTTTC
13000258 TGTTCAGCTC
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 2 0.04
21 42 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (21 bp):
TTAACTCTTATGAGTTTCAGT
Found at i:13000243 original size:42 final size:42
Alignment explanation
Indices: 13000179--13000299 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
13000169 AGCTTCTGTT
* * * *
13000179 AACTCATATGAGTTTCGGTTTAACACTTATGGGTTTCCATTC
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTC
* * **
13000221 AACTCTTTTGAGCTTCAGTTTAACCCTTATGAGTTTCTGTTC
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTC
* * * * *
13000263 AGCTCTTACGAGCTCCCGTTCAACCCTTATGGGTTTC
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTC
13000300 TATTTAGCAC
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.40
Consensus pattern (42 bp):
AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCCATTC
Found at i:13005882 original size:24 final size:26
Alignment explanation
Indices: 13005845--13005898 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
13005835 TAGAATCCAA
* *
13005845 AAAAAAAAACATTA-TTTTTAGAAAT
1 AAAAAAAAACATTACCTTTAAGAAAT
*
13005870 AAAAACAAA-ATTACCTTTAAGAAAT
1 AAAAAAAAACATTACCTTTAAGAAAT
13005895 AAAA
1 AAAA
13005899 TATCATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAAAAAACATTACCTTTAAGAAAT
Found at i:13035287 original size:128 final size:126
Alignment explanation
Indices: 13035067--13035328 Score: 330
Period size: 128 Copynumber: 2.1 Consensus size: 126
13035057 GACTACCAGA
* * * *
13035067 AAAGAGCATAATCCATTGAAACAAGACCTGATTTCCAACATGTATTGCAGCAAATTGATAAAAAC
1 AAAGAGCATAATCCATTGAAACAAGACCAGATTTCCAACATGTATGGAAGCAAATTAATAAAAAC
* **
13035132 AACTCAAAATTGCATCCTAAACTTCACAAAAATATGTGCACAGATGAGCAAGCTTACTTGT
66 AACTCAAAATTGCATCCTAAACGTCACAAAAATATGTAAACAGATGAGCAAGCTTACTTGT
* * * *
13035193 AAAGAGCATAATTCATTGAACAACCAAGATCCAG-TTTCCAATATTTATGGAAGCAAATTAAT-G
1 AAAGAGCATAATCCATTG-A-AA-CAAGA-CCAGATTTCCAACATGTATGGAAGCAAATTAATAA
* * * * *
13035256 AAACAATTCAAAATTGCATCCTAGACGTCACAAAAGTATGTAAATAGATGAGCAGGCTTACTTGT
62 AAACAACTCAAAATTGCATCCTAAACGTCACAAAAATATGTAAACAGATGAGCAAGCTTACTTGT
13035321 AAAGAGCA
1 AAAGAGCA
13035329 GCAAGTCGAA
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
126 17 0.15
127 1 0.01
128 67 0.58
129 28 0.24
130 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (126 bp):
AAAGAGCATAATCCATTGAAACAAGACCAGATTTCCAACATGTATGGAAGCAAATTAATAAAAAC
AACTCAAAATTGCATCCTAAACGTCACAAAAATATGTAAACAGATGAGCAAGCTTACTTGT
Found at i:13037362 original size:22 final size:22
Alignment explanation
Indices: 13037337--13037405 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
13037327 ACAAATCCCA
*
13037337 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
13037359 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
13037381 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
13037403 TCT
1 TCT
13037406 TAAACTCTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:13037440 original size:52 final size:52
Alignment explanation
Indices: 13037358--13037457 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
13037348 TTCAAAAATT
* * * *
13037358 CTCTCAAATTCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
* * *
13037410 CTCTCGAATTCCTTCCAAAATCCTCACAATTTCTTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCT
13037458 CAACTCAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.32, C:0.30, G:0.01, T:0.37
Consensus pattern (52 bp):
CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
Found at i:13037547 original size:28 final size:29
Alignment explanation
Indices: 13037495--13037550 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
13037485 TTCAATTTCA
13037495 TTTTTTAAGAAAATTTTAAATATTTTTAT
1 TTTTTTAAGAAAATTTTAAATATTTTTAT
13037524 TTTTTTAA-AATAATTTTAAA-ATTTTTA
1 TTTTTTAAGAA-AATTTTAAATATTTTTA
13037551 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTTTAAGAAAATTTTAAATATTTTTAT
Done.