Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_pilon, whole genome shotgun sequence
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: 2490255
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:913359 original size:48 final size:48
Alignment explanation
Indices: 913306--913465 Score: 154
Period size: 48 Copynumber: 3.4 Consensus size: 48
913296 GGATGACATC
913306 GTTCCTACGTGATGAGGATGACTGGACATCTTTAGGGATGATAACACG
1 GTTCCTACGTGATGAGGATGACTGGACATCTTTAGGGATGATAACACG
* ** **
913354 GTTCCTACATGATGAGGATGGTTGGTTATC--TAGGCG-TG---ACACG
1 GTTCCTACGTGATGAGGATGACTGGACATCTTTAGG-GATGATAACACG
* * * * **
913397 GCTCCTACGTGATGAGAATGACAT-GCCATATTTAGGGATGATAACATA
1 GTTCCTACGTGATGAGGATGAC-TGGACATCTTTAGGGATGATAACACG
913445 GTTCCTACGTGATGAGGATGA
1 GTTCCTACGTGATGAGGATGA
913466 TTGATTATCT
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
43 25 0.29
44 2 0.02
45 6 0.07
46 6 0.07
47 1 0.01
48 47 0.54
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (48 bp):
GTTCCTACGTGATGAGGATGACTGGACATCTTTAGGGATGATAACACG
Found at i:913433 original size:91 final size:91
Alignment explanation
Indices: 913308--913503 Score: 277
Period size: 91 Copynumber: 2.2 Consensus size: 91
913298 ATGACATCGT
* * *
913308 TCCTACGTGATGAGGATGACTGGACATCTTTAGGGATGATAACACGGTTCCTACATGATGAGGAT
1 TCCTACGTGATGAGAATGACTGGACATATTTAGGGATGATAACACAGTTCCTACATGATGAGGAT
* * *
913373 GGTTGGTTATCTAGGCGTGACACGGC
66 GATTGATTATCTAGGCGTGACACAGC
* * *
913399 TCCTACGTGATGAGAATGACAT-GCCATATTTAGGGATGATAACATAGTTCCTACGTGATGAGGA
1 TCCTACGTGATGAGAATGAC-TGGACATATTTAGGGATGATAACACAGTTCCTACATGATGAGGA
* *
913463 TGATTGATTATCTAGGGGTGACATAGC
65 TGATTGATTATCTAGGCGTGACACAGC
913490 TCCTACGTGATGAG
1 TCCTACGTGATGAG
913504 GAGGTCTAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 92 0.99
92 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (91 bp):
TCCTACGTGATGAGAATGACTGGACATATTTAGGGATGATAACACAGTTCCTACATGATGAGGAT
GATTGATTATCTAGGCGTGACACAGC
Found at i:913494 original size:43 final size:43
Alignment explanation
Indices: 913356--913505 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
913346 ATAACACGGT
* * * * **
913356 TCCTACATGATGAGGATGGTTGGTTATCTAGGCGTGACACGGC
1 TCCTACGTGATGAGGATGATTGATTATCTAGGGGTGACATAGC
* * * * *
913399 TCCTACGTGATGAGAATGACATGCCA-TATTTAGGGATGATAACATAGT
1 TCCTACGTGATGAGGATGA-TTG--ATTATCTAGGG--G-TGACATAGC
913447 TCCTACGTGATGAGGATGATTGATTATCTAGGGGTGACATAGC
1 TCCTACGTGATGAGGATGATTGATTATCTAGGGGTGACATAGC
913490 TCCTACGTGATGAGGA
1 TCCTACGTGATGAGGA
913506 GGTCTAGTCG
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
43 39 0.46
44 3 0.04
45 8 0.10
46 8 0.10
47 3 0.04
48 23 0.27
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
TCCTACGTGATGAGGATGATTGATTATCTAGGGGTGACATAGC
Found at i:913604 original size:20 final size:20
Alignment explanation
Indices: 913579--913620 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
913569 ATTTTAAGAG
*
913579 AAACTGTCTCAAGGGAGACA
1 AAACTGTCTCAAGGGAAACA
*
913599 AAACTGTTTCAAGGGAAACA
1 AAACTGTCTCAAGGGAAACA
913619 AA
1 AA
913621 CTCAAGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (20 bp):
AAACTGTCTCAAGGGAAACA
Found at i:915160 original size:15 final size:14
Alignment explanation
Indices: 915117--915164 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
915107 TTTCACTTTG
*
915117 TCTTT-TTCTTTAC
1 TCTTTGTTCTTTTC
915130 TCTTTGTT-TTTT-
1 TCTTTGTTCTTTTC
915142 TCTTTGCTTCTTTTC
1 TCTTTG-TTCTTTTC
915157 TCTTTGTT
1 TCTTTGTT
915165 TTGATTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.20
13 10 0.33
14 8 0.27
15 6 0.20
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.73
Consensus pattern (14 bp):
TCTTTGTTCTTTTC
Found at i:920786 original size:3 final size:3
Alignment explanation
Indices: 920778--920809 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
920768 AAGATGATAT
*
920778 TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
920810 TTTTTGTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:924487 original size:66 final size:65
Alignment explanation
Indices: 924381--924515 Score: 207
Period size: 66 Copynumber: 2.1 Consensus size: 65
924371 AATAAGATGT
* **
924381 TCAAGTAGAAACTTTTTGGCATCATGGTCATTTTGTTCTCTATTTTTCCAACGTTTCAAATTTTG
1 TCAAGTAGAAACTTTTTGGCATAATAATCATTTTGTTCTCTATTTTT-CAACGTTTCAAATTTTG
924446 A
65 A
* * *
924447 TCAAGTAGAAATTTTTTGGCATAATAATCATTTTGTTCTCTATTTTTCAACTTTTTAAATTTTGA
1 TCAAGTAGAAACTTTTTGGCATAATAATCATTTTGTTCTCTATTTTTCAACGTTTCAAATTTTGA
924512 TCAA
1 TCAA
924516 ATTATCCTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 20 0.32
66 43 0.68
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.47
Consensus pattern (65 bp):
TCAAGTAGAAACTTTTTGGCATAATAATCATTTTGTTCTCTATTTTTCAACGTTTCAAATTTTGA
Found at i:927820 original size:81 final size:81
Alignment explanation
Indices: 927742--928098 Score: 342
Period size: 81 Copynumber: 4.4 Consensus size: 81
927732 TATACAAAAT
* * *
927742 GCCGCTACAGAGTAGTACTTTAGCGGCGTTTTTATAC-AATGCCGCAATAGGTTCATCCATAGTA
1 GCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTTCATCTATAGTG
*
927806 TTTTTTTTCAACAAAC
66 CTTTTTTTCAACAAAC
* ** * * * *
927822 GCCGCAACAAAGTAGTTA-TTTAGCGGCGTTTTTATACAAATGTGGTAATATGATAATCTATAGT
1 GCCGCAACAGAGTAG-TACTTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTTCATCTATAGT
* *
927886 GGTTTTTTTGAGA-AAAC
65 GCTTTTTTTCA-ACAAAC
** * * *
927903 GCCGCAACAGAACAGTACTTTAGTGGCGTTTTTATACAAACGCCGCAATAGGGTCATCTATAGTG
1 GCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTTCATCTATAGT-
* * *
927968 GCCTTTTTTCAACAGAT
65 GCTTTTTTTCAACAAAC
* * ** * * *
927985 ACCGCAATAGAGTAGTACTTTAATGGCATTTTTATACAAATGCCGTAATAGGGTTCATCTGTAGT
1 GCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGCAATA-GGTTCATCTATAGT
* *
928050 GGCGTTTTTTCAATAAAC
65 -GCTTTTTTTCAACAAAC
** * *
928068 GCTACAACATAGTAGTATTTTAGCGGCGTTT
1 GCCGCAACAGAGTAGTACTTTAGCGGCGTTT
928099 AAAAACATTC
Statistics
Matches: 219, Mismatches: 51, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
80 34 0.16
81 84 0.38
82 53 0.24
83 48 0.22
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (81 bp):
GCCGCAACAGAGTAGTACTTTAGCGGCGTTTTTATACAAATGCCGCAATAGGTTCATCTATAGTG
CTTTTTTTCAACAAAC
Found at i:927976 original size:41 final size:40
Alignment explanation
Indices: 927923--928059 Score: 116
Period size: 41 Copynumber: 3.3 Consensus size: 40
927913 AACAGTACTT
* *
927923 TAGTGGCGTTTTTATACAAACGCCGCAATAGGGTCATCTA
1 TAGTGGCTTTTTTATACAAATGCCGCAATAGGGTCATCTA
* * * *
927963 TAGTGGCCTTTTTTCA-ACAGATACCGCAATAGAGT-AGTACTT
1 TAGTGG-CTTTTTT-ATACAAATGCCGCAATAGGGTCA-T-CTA
* * * *
928005 TAATGGCATTTTTATACAAATGCCGTAATAGGGTTCATCTG
1 TAGTGGCTTTTTTATACAAATGCCGCAATAGGG-TCATCTA
928046 TAGTGGCGTTTTTT
1 TAGTGGC-TTTTTT
928060 CAATAAACGC
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
40 8 0.11
41 50 0.68
42 15 0.20
43 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
TAGTGGCTTTTTTATACAAATGCCGCAATAGGGTCATCTA
Found at i:931177 original size:21 final size:20
Alignment explanation
Indices: 931151--931207 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 20
931141 TGATTTATTA
931151 TTATGGAGTTCAAGTTGGTTG
1 TTATGGA-TTCAAGTTGGTTG
*
931172 TTATGGATTTCAAGTTTGTTG
1 TTATGGA-TTCAAGTTGGTTG
931193 TTATGGATGTCAAGT
1 TTATGGAT-TCAAGT
931208 ATATTGATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.46
Consensus pattern (20 bp):
TTATGGATTCAAGTTGGTTG
Found at i:935327 original size:21 final size:21
Alignment explanation
Indices: 935274--935321 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
935264 ACTGTGGTAA
935274 TGCATCAGTACAGTGTAGCAG
1 TGCATCAGTACAGTGTAGCAG
935295 TGCATCAGTACAGTGTAGCAG
1 TGCATCAGTACAGTGTAGCAG
935316 TGCATC
1 TGCATC
935322 GATACACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (21 bp):
TGCATCAGTACAGTGTAGCAG
Found at i:935428 original size:19 final size:19
Alignment explanation
Indices: 935399--935449 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
935389 CACTGTTCAC
*
935399 AGTACTGTTCATA-CAGTAT
1 AGTACTATTCATACCA-TAT
*
935418 AGTATTATTCATACCATAT
1 AGTACTATTCATACCATAT
935437 AGTACTATTCATA
1 AGTACTATTCATA
935450 AAATGTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
AGTACTATTCATACCATAT
Found at i:940433 original size:20 final size:20
Alignment explanation
Indices: 940408--940445 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
940398 CACATGTTAA
940408 AGAATGTATCAATGCACTGT
1 AGAATGTATCAATGCACTGT
*
940428 AGAATGTATCGATGCACT
1 AGAATGTATCAATGCACT
940446 TCAATGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (20 bp):
AGAATGTATCAATGCACTGT
Found at i:942066 original size:23 final size:22
Alignment explanation
Indices: 942008--942066 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
941998 TGGGACTACG
*
942008 GTGCATTTCTACGTGGCACTTC
1 GTGCATTTCTACGTGGCACTCC
* *
942030 GATGAAATTCTACGTGGCACTCC
1 G-TGCATTTCTACGTGGCACTCC
*
942053 AGTGCATTTATACG
1 -GTGCATTTCTACG
942067 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (22 bp):
GTGCATTTCTACGTGGCACTCC
Found at i:946437 original size:106 final size:107
Alignment explanation
Indices: 946316--946558 Score: 350
Period size: 106 Copynumber: 2.3 Consensus size: 107
946306 ATTCGGTGAT
* * *
946316 AAACTTTTTAGTGATATATCATTTTATTTCAGAA-AAC-GTCATTTTCTCATAGACCATTTAATG
1 AAACTTTTTAGTGATATATCACTTCATTTCAAAAGAACAGTC-TTTTCTCATAGACCATTTAATG
* * *
946379 CACAA-TAATAAAAACTTTTTATTGCCCAATTACTTCACTTCAG
65 CACAACGAA-AAAAACATTTTAGTGCCCAATTACTTCACTTCAG
*
946422 AAACTTTTTAGTGATATATCACTTCATTT-AAAAGAACATTCTTTTCTCATAGACCATTTAATGC
1 AAACTTTTTAGTGATATATCACTTCATTTCAAAAGAACAGTCTTTTCTCATAGACCATTTAATGC
* *
946486 ACAACGAAAAAAACATTTTAGTGCCTATTTACTTCACTTCAG
66 ACAACGAAAAAAACATTTTAGTGCCCAATTACTTCACTTCAG
*
946528 AAACTTTTCAGTGATATATCACTTCATTTCA
1 AAACTTTTTAGTGATATATCACTTCATTTCA
946559 TAAACTTTTC
Statistics
Matches: 123, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
105 3 0.02
106 115 0.93
107 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.39
Consensus pattern (107 bp):
AAACTTTTTAGTGATATATCACTTCATTTCAAAAGAACAGTCTTTTCTCATAGACCATTTAATGC
ACAACGAAAAAAACATTTTAGTGCCCAATTACTTCACTTCAG
Found at i:946564 original size:32 final size:33
Alignment explanation
Indices: 946516--946595 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 33
946506 GTGCCTATTT
* * * *
946516 ACTTCACTTCAGAAACTTTTCAGTGAT-ATATC
1 ACTTCATTTCATAAACTTTTCAATGATAACATC
946548 ACTTCATTTCATAAACTTTTCAATGATAACATC
1 ACTTCATTTCATAAACTTTTCAATGATAACATC
946581 ACTTCATTTCATAAA
1 ACTTCATTTCATAAA
946596 AATGTACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 24 0.56
33 19 0.44
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (33 bp):
ACTTCATTTCATAAACTTTTCAATGATAACATC
Found at i:946638 original size:140 final size:138
Alignment explanation
Indices: 946410--946691 Score: 345
Period size: 140 Copynumber: 2.0 Consensus size: 138
946400 TTGCCCAATT
* * * *
946410 ACTTCACTTCAGAAACTTTTTAGTGATATATCACTTCATTTAAAAGAACATTCTTTTCTCATAGA
1 ACTTCACTTCAGAAACTTTTCAATGATACATCACTTCATTTAAAAGAACATTCTTTTCTCATACA
* * * * * *
946475 CCATTTAATGCACAACGAAAAAAACATTTTAGTG-CCTATTTACTTCACTTCAGAAACTTTTCAG
66 CCATTTAATACACAACGAAAAAAACATTTCAGTGTCC-AATCACTTCACTTCAGAAACATTTCAA
946539 TGATATATC
130 TGATATATC
* * *
946548 ACTTCATTTCATAAACTTTTCAATGATAACATCACTTCATTTCATAA-AA-ATGTACTTTTCTCA
1 ACTTCACTTCAGAAACTTTTCAATGAT-ACATCACTTCATTT-AAAAGAACAT-T-CTTTTCTCA
* * * *
946611 TACACTATTTAATACACAATGATAAAAATATTTCAGTGTCCAATCACTTCACTTCAGAAACATTT
62 TACACCATTTAATACACAACGAAAAAAACATTTCAGTGTCCAATCACTTCACTTCAGAAACATTT
946676 CAATGATATATC
127 CAATGATATATC
946688 ACTT
1 ACTT
946692 TTTTTCAGTG
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
138 25 0.20
139 16 0.13
140 79 0.65
141 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (138 bp):
ACTTCACTTCAGAAACTTTTCAATGATACATCACTTCATTTAAAAGAACATTCTTTTCTCATACA
CCATTTAATACACAACGAAAAAAACATTTCAGTGTCCAATCACTTCACTTCAGAAACATTTCAAT
GATATATC
Found at i:948634 original size:27 final size:25
Alignment explanation
Indices: 948578--948633 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 25
948568 AAAGTTATTT
* *
948578 TTTTAGTCAAAATATATACTAAGTA
1 TTTTAGTCAAAATAGATACTAACTA
948603 TTTTATGTCAAAATAGATACCTAAACTA
1 TTTTA-GTCAAAATAGATA-CT-AACTA
948631 TTT
1 TTT
948634 AAACTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 12 0.46
27 2 0.08
28 7 0.27
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (25 bp):
TTTTAGTCAAAATAGATACTAACTA
Found at i:953869 original size:27 final size:25
Alignment explanation
Indices: 953839--953934 Score: 103
Period size: 27 Copynumber: 3.8 Consensus size: 25
953829 TAAATTTTAA
953839 AAATTATATCAAATATTTAAAAATAT
1 AAATTATAT-AAATATTTAAAAATAT
953865 GAAATTATA-AAAT-TTTAAGAAATAT
1 -AAATTATATAAATATTTAA-AAATAT
953890 AAA--AT-TAAATATTTAAAAATATCT
1 AAATTATATAAATATTTAAAAATA--T
*
953914 AAATTAAATAAATATTTAAAA
1 AAATTATATAAATATTTAAAA
953935 TATTAAAAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
22 11 0.18
23 5 0.08
24 12 0.20
25 10 0.17
26 1 0.02
27 21 0.35
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
AAATTATATAAATATTTAAAAATAT
Found at i:953922 original size:23 final size:22
Alignment explanation
Indices: 953823--953923 Score: 91
Period size: 23 Copynumber: 4.5 Consensus size: 22
953813 ATTTAGGTTA
953823 AAAATGTAAAT-TTTAAAAAT-T
1 AAAAT-TAAATATTTAAAAATAT
* *
953844 -ATATCAAATATTTAAAAATAT
1 AAAATTAAATATTTAAAAATAT
* *
953865 GAAATTATAAAATTTTAAGAAATAT
1 AAAATTA-AATA-TTTAA-AAATAT
953890 AAAATTAAATATTTAAAAATAT
1 AAAATTAAATATTTAAAAATAT
*
953912 CTAAATTAAATA
1 -AAAATTAAATA
953924 AATATTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
19 4 0.06
20 12 0.18
21 1 0.02
22 10 0.15
23 18 0.28
24 8 0.12
25 12 0.18
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (22 bp):
AAAATTAAATATTTAAAAATAT
Found at i:957380 original size:45 final size:45
Alignment explanation
Indices: 957319--957426 Score: 155
Period size: 46 Copynumber: 2.4 Consensus size: 45
957309 TGGTATATGG
* * *
957319 TTATGGAATAATGGTAAGTGTATTGGTATA-ATAAGCTTACGAGC
1 TTATGGAAAAATGGTAAGTATATTGGTAAATATAAGCTTACGAGC
957363 TTATGGAACAAATGGTAAGTATATTGGTAAATATAAGCTTACGAGC
1 TTATGGAA-AAATGGTAAGTATATTGGTAAATATAAGCTTACGAGC
*
957409 TTATGGGATAAATGGTAA
1 TTAT-GGAAAAATGGTAA
957427 ACGATTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 8 0.14
45 19 0.33
46 27 0.47
47 3 0.05
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.32
Consensus pattern (45 bp):
TTATGGAAAAATGGTAAGTATATTGGTAAATATAAGCTTACGAGC
Found at i:958010 original size:21 final size:20
Alignment explanation
Indices: 957964--958026 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
957954 CAATGCAAAC
*
957964 TCCAATTTCGCAACACAATT
1 TCCAAATTCGCAACACAATT
957984 TCCAAATTCGCAACACTGAATT
1 TCCAAATTCGCAACAC--AATT
*
958006 T-CAAATTCGCAACTCAATT
1 TCCAAATTCGCAACACAATT
958025 TC
1 TC
958027 TGAATTCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.13
20 15 0.39
21 13 0.34
22 5 0.13
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (20 bp):
TCCAAATTCGCAACACAATT
Found at i:958033 original size:41 final size:41
Alignment explanation
Indices: 957967--958096 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 41
957957 TGCAAACTCC
* ** *
957967 AATTTCGCAACACAATTTCCAAATTCGCAACACTGAATTTC
1 AATTTCGCAACTCAATTTCTGAATTCGCAACACTGAATTTT
* * *
958008 AAATTCGCAACTCAATTTCTGAATTCACAACGC-GAATTTT
1 AATTTCGCAACTCAATTTCTGAATTCGCAACACTGAATTTT
** * *
958048 GTTTTCGCAACTCGATTT-TCGAATTTGCAACA-TGAATTTT
1 AATTTCGCAACTCAATTTCT-GAATTCGCAACACTGAATTTT
958088 AATTTCGCA
1 AATTTCGCA
958097 CCAGGTTTTA
Statistics
Matches: 71, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 43 0.61
41 27 0.38
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (41 bp):
AATTTCGCAACTCAATTTCTGAATTCGCAACACTGAATTTT
Found at i:958276 original size:16 final size:16
Alignment explanation
Indices: 958255--958294 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
958245 TCCCCATCTC
*
958255 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
*
958271 TAATTTTTTTTCTATA
1 TAATTTTTTTTCTACA
958287 TAATTTTT
1 TAATTTTT
958295 CAATGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:959090 original size:24 final size:24
Alignment explanation
Indices: 959032--959078 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
959022 AGTCAGTATT
*
959032 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
959056 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
959079 TCGGATTTTG
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:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:961723 original size:19 final size:20
Alignment explanation
Indices: 961699--961746 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
961689 CGAAAGTGTA
961699 CCTTCAACAGGTCTTTTTT-
1 CCTTCAACAGGTCTTTTTTG
*
961718 CCTTCAACGGGTCTTTTTTG
1 CCTTCAACAGGTCTTTTTTG
*
961738 GCTTCAACA
1 CCTTCAACA
961747 TAATGCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.42
Consensus pattern (20 bp):
CCTTCAACAGGTCTTTTTTG
Found at i:963222 original size:21 final size:21
Alignment explanation
Indices: 963198--963315 Score: 123
Period size: 21 Copynumber: 5.6 Consensus size: 21
963188 GAGAATTGGG
* *
963198 CTCTTGAACGGTGGGAGAGAC
1 CTCTTGAACGATGGGAGAGGC
** *
963219 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGAGGC
963240 CTCTTGAAC-AGTGGGATG-GGC
1 CTCTTGAACGA-TGGGA-GAGGC
* *
963261 CTCTTGAATGATGAGAGAGGC
1 CTCTTGAACGATGGGAGAGGC
* *
963282 CTCTTGAACGATAGGAGGGGC
1 CTCTTGAACGATGGGAGAGGC
963303 CTCTTGAACGATG
1 CTCTTGAACGATG
963316 ACATGTGAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.03
21 75 0.95
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGAGGC
Found at i:963264 original size:42 final size:40
Alignment explanation
Indices: 963198--963318 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 40
963188 GAGAATTGGG
* *
963198 CTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAAC-GTGGGAG-GGCCTCTTGAACGATGACAGAGGC
* *
963240 CTCTTGAACAGTGGGATGGGCCTCTTGAATGATGAGAGAGGC
1 CTCTTGAAC-GTGGGA-GGGCCTCTTGAACGATGACAGAGGC
*
963282 CTCTTGAACGATAGGAGGGGCCTCTTGAACGATGACA
1 CTCTTGAACG-TGGGA-GGGCCTCTTGAACGATGACA
963319 TGTGAATCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.97
43 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (40 bp):
CTCTTGAACGTGGGAGGGCCTCTTGAACGATGACAGAGGC
Found at i:963301 original size:63 final size:62
Alignment explanation
Indices: 963194--963311 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 62
963184 CCATGAGAAT
* *
963194 TGGGCTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGGGGCCTCTTGAACAGTGGGA
1 TGGGCTCTTGAACGATGAGAGAGACCTCTTGAACGATGACAGGGGCCTCTTGAACAGTGGGA
* * *
963256 TGGGCCTCTTGAATGATGAGAGAGGCCTCTTGAACGAT-AGGAGGGGCCTCTTGAAC
1 TGGG-CTCTTGAACGATGAGAGAGACCTCTTGAACGATGA-CAGGGGCCTCTTGAAC
963312 GATGACATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 5 0.10
63 44 0.90
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (62 bp):
TGGGCTCTTGAACGATGAGAGAGACCTCTTGAACGATGACAGGGGCCTCTTGAACAGTGGGA
Found at i:963480 original size:4 final size:4
Alignment explanation
Indices: 963459--963500 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
963449 GGCCCGCTAA
* *
963459 AAAT AAAT TAAT ACAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
963501 TGCCAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:964484 original size:117 final size:117
Alignment explanation
Indices: 964343--964577 Score: 454
Period size: 117 Copynumber: 2.0 Consensus size: 117
964333 TAATTAATTA
964343 TAATTTTGGAAACATTATATAGAAATTCTTACCTTAAAATCCCAAATAAAGCCTACC-AAGTGTA
1 TAATTTTGGAAACATTATATAGAAATTCTTACCTTAAAATCCCAAATAAAGCCTACCAAAGTGTA
964407 TTTGGAACCATCCACCACGCAAACTACGACAGTCCTCAAAGGCAGACGACAAC
66 TTTGGAACCAT-CACCACGCAAACTACGACAGTCCTCAAAGGCAGACGACAAC
964460 TAATTTTGGAAACATTATATAGAAATTCTTACCTTAAAATCCCAAATAAAGCCTACCAAAGTGTA
1 TAATTTTGGAAACATTATATAGAAATTCTTACCTTAAAATCCCAAATAAAGCCTACCAAAGTGTA
964525 TTTGGAACCATCACCACGCAAACTACGACAGTCCTCAAAGGCAGACGACAAC
66 TTTGGAACCATCACCACGCAAACTACGACAGTCCTCAAAGGCAGACGACAAC
964577 T
1 T
964578 TTTTCCATGT
Statistics
Matches: 117, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 99 0.85
118 18 0.15
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (117 bp):
TAATTTTGGAAACATTATATAGAAATTCTTACCTTAAAATCCCAAATAAAGCCTACCAAAGTGTA
TTTGGAACCATCACCACGCAAACTACGACAGTCCTCAAAGGCAGACGACAAC
Found at i:965429 original size:20 final size:20
Alignment explanation
Indices: 965406--965468 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
965396 AAACTTAAAT
*
965406 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
965426 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
965446 TCGCAACGCGAAACT-AAAA
1 TCGCAACGCGAAAATGAAAA
965465 TCGC
1 TCGC
965469 GTTGCGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 8 0.20
20 33 0.80
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:965500 original size:20 final size:20
Alignment explanation
Indices: 965475--965513 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
965465 TCGCGTTGCG
965475 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
965495 ATTTTCGTGTTGCGAATTT
1 ATTTTCGTGTTGCGAATTT
965514 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:965520 original size:20 final size:20
Alignment explanation
Indices: 965477--965520 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
965467 GCGTTGCGAT
* *
965477 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
965497 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
965517 TTTC
1 TTTC
965521 AAATACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:965864 original size:22 final size:22
Alignment explanation
Indices: 965837--965883 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
965827 GATGGAGATA
965837 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
965859 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
965881 GAC
1 GAC
965884 AGATGTTGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.45, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:966675 original size:6 final size:6
Alignment explanation
Indices: 966664--966734 Score: 56
Period size: 6 Copynumber: 12.2 Consensus size: 6
966654 TCGATTGAAG
* * * *
966664 CTCAAA CTCAAA CT-AAG TTCAAA CTTAAA ATCAAA CTCAAA CTCAAA
1 CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA CTCAAA
* * * *
966711 TTCAAA TTC-AA TTCAAA TTCAAA C
1 CTCAAA CTCAAA CTCAAA CTCAAA C
966735 ATGAACTTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
5 8 0.15
6 45 0.85
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.25
Consensus pattern (6 bp):
CTCAAA
Found at i:966705 original size:18 final size:18
Alignment explanation
Indices: 966664--966734 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 18
966654 TCGATTGAAG
* *
966664 CTCAAACTCAAACT-AAG
1 CTCAAACTCAAAATCAAA
* *
966681 TTCAAACTTAAAATCAAA
1 CTCAAACTCAAAATCAAA
*
966699 CTCAAACTCAAATTCAAA
1 CTCAAACTCAAAATCAAA
* * *
966717 TTC-AATTCAAATTCAAA
1 CTCAAACTCAAAATCAAA
966734 C
1 C
966735 ATGAACTTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 24 0.56
18 19 0.44
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.25
Consensus pattern (18 bp):
CTCAAACTCAAAATCAAA
Found at i:966705 original size:29 final size:29
Alignment explanation
Indices: 966665--966734 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
966655 CGATTGAAGC
*
966665 TCAAACTCAAACT-AAGTTCAAACTTAAAA
1 TCAAACTCAAACTCAAATTCAAA-TTAAAA
* *
966694 TCAAACTCAAACTCAAATTCAAATTCAAT
1 TCAAACTCAAACTCAAATTCAAATTAAAA
*
966723 TCAAATTCAAAC
1 TCAAACTCAAAC
966735 ATGAACTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 28 0.78
30 8 0.22
ACGTcount: A:0.50, C:0.23, G:0.01, T:0.26
Consensus pattern (29 bp):
TCAAACTCAAACTCAAATTCAAATTAAAA
Found at i:966969 original size:40 final size:40
Alignment explanation
Indices: 966925--967109 Score: 160
Period size: 40 Copynumber: 4.6 Consensus size: 40
966915 TATGTATATT
*** * *
966925 GCAACACAGAAGTCAAATTCGTTTCACATAAGTTAAATTC
1 GCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAATTC
*** *
966965 GCAACACTTTAGTAAAATTCGCAACACAAAAGTCAAATTC
1 GCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAATTC
* *
967005 GCAACGC-GAATTTGT-AAA-TCGCAACACAGAAGTCAAATTC
1 GCAACACAGAA---GTCAAATTCGCAACACAAAAGTCAAATTC
** * *
967045 GCAACACAGAAGTCAAATTCGCAATGCGATAGTCAAATTC
1 GCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAATTC
* *
967085 GCAACACTGAATTTCAAATTCGCAA
1 GCAACACAGAA-GTCAAATTCGCAA
967110 AGCGCATTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.02
39 4 0.03
40 91 0.78
41 18 0.15
42 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (40 bp):
GCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAATTC
Found at i:967002 original size:20 final size:20
Alignment explanation
Indices: 966925--967091 Score: 131
Period size: 20 Copynumber: 8.3 Consensus size: 20
966915 TATGTATATT
*
966925 GCAACACAGAAGTCAAATTC
1 GCAACACAAAAGTCAAATTC
*** * *
966945 GTTTCACATAAGTTAAATTC
1 GCAACACAAAAGTCAAATTC
*** *
966965 GCAACACTTTAGTAAAATTC
1 GCAACACAAAAGTCAAATTC
966985 GCAACACAAAAGTCAAATTC
1 GCAACACAAAAGTCAAATTC
* **
967005 GCAACGCGAATTTGT-AAA-TC
1 GCAACAC-AA-AAGTCAAATTC
*
967025 GCAACACAGAAGTCAAATTC
1 GCAACACAAAAGTCAAATTC
*
967045 GCAACACAGAAGTCAAATTC
1 GCAACACAAAAGTCAAATTC
** * *
967065 GCAATGCGATAGTCAAATTC
1 GCAACACAAAAGTCAAATTC
967085 GCAACAC
1 GCAACAC
967092 TGAATTTCAA
Statistics
Matches: 114, Mismatches: 29, Indels: 8
0.75 0.19 0.05
Matches are distributed among these distances:
18 2 0.02
19 4 0.04
20 101 0.89
21 5 0.04
22 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (20 bp):
GCAACACAAAAGTCAAATTC
Found at i:967027 original size:60 final size:61
Alignment explanation
Indices: 966958--967109 Score: 175
Period size: 60 Copynumber: 2.5 Consensus size: 61
966948 TCACATAAGT
***
966958 TAAATTCGCAACACTTTAGTAAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAATTTG
1 TAAATTCGCAACACAGAAGTAAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAATTTG
* * * *
967019 TAAA-TCGCAACACAGAAGTCAAATTCGCAACACAGAAGTCAAATTCGCAATGCG-A-TAG
1 TAAATTCGCAACACAGAAGTAAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAATTTG
* * *
967077 TCAAATTCGCAACACTGAATTTCAAATTCGCAA
1 T-AAATTCGCAACACAGAA-GTAAAATTCGCAA
967110 AGCGCATTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 3 0.04
59 4 0.05
60 56 0.71
61 16 0.20
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.22
Consensus pattern (61 bp):
TAAATTCGCAACACAGAAGTAAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAATTTG
Found at i:967677 original size:14 final size:14
Alignment explanation
Indices: 967658--967696 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
967648 ACGAAAAATG
* *
967658 AAAATCGCAACCCC
1 AAAATCGCAACACA
967672 AAAATCGCAACACA
1 AAAATCGCAACACA
967686 AAAATCGCAAC
1 AAAATCGCAAC
967697 GCGTTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.33, G:0.08, T:0.08
Consensus pattern (14 bp):
AAAATCGCAACACA
Found at i:967728 original size:14 final size:14
Alignment explanation
Indices: 967706--967738 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
967696 CGCGTTTTAG
967706 TTTCACGTTGCGAT
1 TTTCACGTTGCGAT
*
967720 TTTCTCGTTGCGAT
1 TTTCACGTTGCGAT
967734 TTTCA
1 TTTCA
967739 TTTTCGCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.48
Consensus pattern (14 bp):
TTTCACGTTGCGAT
Found at i:967763 original size:20 final size:20
Alignment explanation
Indices: 967720--967763 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
967710 ACGTTGCGAT
* * * *
967720 TTTCTCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTAAC
967740 TTTCGCGTTGCGAATTTAAC
1 TTTCGCGTTGCGAATTTAAC
967760 TTTC
1 TTTC
967764 AGAAACTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.20, G:0.16, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTAAC
Found at i:969107 original size:21 final size:21
Alignment explanation
Indices: 969065--969107 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
969055 TTTCTGGGCT
* *
969065 AGGGGAATCGCTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
969086 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
969107 A
1 A
969108 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:969832 original size:103 final size:103
Alignment explanation
Indices: 969653--969868 Score: 414
Period size: 103 Copynumber: 2.1 Consensus size: 103
969643 AGAGGGTTTG
*
969653 TGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTT
969718 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
66 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
*
969756 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAGGTCTGGTGAGACACATACTT
1 TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTT
969821 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
66 GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
969859 TGTGGTCCTT
1 TGTGGTCCTT
969869 ATGGACATTA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (103 bp):
TGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTT
GATCCTTGGCATATGTATATGATTCTTAAGGAATGATA
Found at i:970769 original size:303 final size:302
Alignment explanation
Indices: 970222--970828 Score: 1124
Period size: 303 Copynumber: 2.0 Consensus size: 302
970212 GTTTCACACG
*
970222 TAGGATCCGATAAAGTAGACGATCGAGGTTAAGCAACTGGACAACATTACTCCTGTAACTATCAG
1 TAGGATCCGATAAAGTAGACGATCGAGGTTAAGCAACTGGACAACATTACTCCTGCAACTATCAG
970287 ATCAGAAGCAACTTAATCAGTAGGTCATTTTGTTATGAAAATGGATGTTGGCATGTAACTAAAGA
66 ATCAGAAGCAACTTAATCAGTAGGTCATTTTGTTATGAAAATGGATGTTGGCATGTAACTAAAGA
970352 GTTAAGTTGTGTATGCTCTGAATATTTTGATAAACTTATATCACCATATGTATATTATTGTATTT
131 GTTAAGTTGTGTATGCTCTGAATATTTTGATAAACTTATATCACCATATGTATATTATTGTATTT
970417 CTCGTAATATAAGTTCAAGTATTTTGATATTATTTATAATGAGTTGTGTTTTAAAAGTCAATGTA
196 CTCGTAATATAAGTTCAAGTATTTTGATATTATTTATAATGAGTTGTGTTTTAAAAGTCAATGTA
*
970482 ATATCTCTGACTCGTATCCAGGTTGGATACGGATTGGGGGTGT
261 ATATCTCTGACTCGTAT-CAGGCTGGATACGGATTGGGGGTGT
*
970525 TAGGATCCGATAAAGTAGACGATCGAGGTTAAGCAGCTGGACAACATTACTCCTGCAACTATCAG
1 TAGGATCCGATAAAGTAGACGATCGAGGTTAAGCAACTGGACAACATTACTCCTGCAACTATCAG
970590 ATCAGAAGCAACTTAATCAGTAGGTCATTTTGTTATGAAAATGGATGTTGGCATGTAACTAAAGA
66 ATCAGAAGCAACTTAATCAGTAGGTCATTTTGTTATGAAAATGGATGTTGGCATGTAACTAAAGA
970655 GTTAAGTTGTGTATGCTCTGAATATTTTGATAAACTTATATCACCATATGTATATTATTGTATTT
131 GTTAAGTTGTGTATGCTCTGAATATTTTGATAAACTTATATCACCATATGTATATTATTGTATTT
* * *
970720 TTCGTAATATAAGTTCAAGTATTTTGCTATTATTTGTAATGAGTTGTGTTTTAAAAGTCAATGTA
196 CTCGTAATATAAGTTCAAGTATTTTGATATTATTTATAATGAGTTGTGTTTTAAAAGTCAATGTA
** *
970785 ATATCTCTGACTCGTATTGGGCTGGATACGGGTTGGGGGTGT
261 ATATCTCTGACTCGTATCAGGCTGGATACGGATTGGGGGTGT
970827 TA
1 TA
970829 CATTTAATGG
Statistics
Matches: 295, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
302 23 0.08
303 272 0.92
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (302 bp):
TAGGATCCGATAAAGTAGACGATCGAGGTTAAGCAACTGGACAACATTACTCCTGCAACTATCAG
ATCAGAAGCAACTTAATCAGTAGGTCATTTTGTTATGAAAATGGATGTTGGCATGTAACTAAAGA
GTTAAGTTGTGTATGCTCTGAATATTTTGATAAACTTATATCACCATATGTATATTATTGTATTT
CTCGTAATATAAGTTCAAGTATTTTGATATTATTTATAATGAGTTGTGTTTTAAAAGTCAATGTA
ATATCTCTGACTCGTATCAGGCTGGATACGGATTGGGGGTGT
Found at i:976254 original size:18 final size:18
Alignment explanation
Indices: 976231--976265 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
976221 AGAATGCTAG
*
976231 AGGGGAATCGATACCCCA
1 AGGGGAACCGATACCCCA
*
976249 AGGGGAACCGATTCCCC
1 AGGGGAACCGATACCCC
976266 CATAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.29, T:0.11
Consensus pattern (18 bp):
AGGGGAACCGATACCCCA
Found at i:976971 original size:103 final size:102
Alignment explanation
Indices: 976746--976971 Score: 407
Period size: 103 Copynumber: 2.2 Consensus size: 102
976736 GTAGAGGGTC
976746 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTT-GGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
976811 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
976849 TATATGGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTTG-GACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
976914 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
976952 TATGTGGTCCTTATGGACAT
1 TATGTGGTCCTT-TGGACAT
976972 TATTATATGG
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
102 1 0.01
103 115 0.98
104 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (102 bp):
TATGTGGTCCTTTGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACT
TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:977013 original size:23 final size:23
Alignment explanation
Indices: 976980--977031 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
976970 ATTATTATAT
976980 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
977003 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
977026 GGCACT
1 GGCACT
977032 TAGGTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:977041 original size:23 final size:23
Alignment explanation
Indices: 976979--977042 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
976969 CATTATTATA
976979 TGGCAC-TACGGTGCAATTCTACG
1 TGGCACTTA-GGTGCAATTCTACG
* **
977002 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTTAGGTGCAATTCTACG
*
977025 TGGCACTTAGGTTCAATT
1 TGGCACTTAGGTGCAATT
977043 ATATGAGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (23 bp):
TGGCACTTAGGTGCAATTCTACG
Found at i:978733 original size:21 final size:21
Alignment explanation
Indices: 978709--978758 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
978699 GTTAGGGGAG
* *
978709 TTACGTGATGAGGTCGGTGCT
1 TTACGTGACGAGGTCGGTACT
*
978730 TTACGTCACGAGGTCGGTACT
1 TTACGTGACGAGGTCGGTACT
978751 TTACGTGA
1 TTACGTGA
978759 AGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGACGAGGTCGGTACT
Found at i:979217 original size:21 final size:21
Alignment explanation
Indices: 979193--979260 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
979183 CATCCTATCG
979193 TTCAATAGGCCTCTCCCACCA
1 TTCAATAGGCCTCTCCCACCA
* * ** * *
979214 TTCAAGAGGCCCCTGTCATCG
1 TTCAATAGGCCTCTCCCACCA
* * *
979235 TTCAATGGGTCTCTCCCACTA
1 TTCAATAGGCCTCTCCCACCA
979256 TTCAA
1 TTCAA
979261 GAGCCCGATT
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCAATAGGCCTCTCCCACCA
Found at i:980648 original size:64 final size:66
Alignment explanation
Indices: 980573--980743 Score: 216
Period size: 66 Copynumber: 2.6 Consensus size: 66
980563 CTGGGTACAC
980573 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAG-TGATTTGTTTAA-TGA-G-G-AAATAA
1 TTTTTTTGCTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAATTGATGTGTAAATAA
980632 GAATTA
61 GAATTA
980638 -TTTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAA-TTGATGTGTAAATAAGAAT
980701 TA
65 TA
*
980703 TTTTTTTTCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTT
980744 GTTTTAAATA
Statistics
Matches: 97, Mismatches: 1, Indels: 15
0.86 0.01 0.13
Matches are distributed among these distances:
59 4 0.04
60 12 0.12
62 4 0.04
63 5 0.05
64 21 0.22
65 12 0.12
66 39 0.40
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (66 bp):
TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATT
A
Found at i:980871 original size:20 final size:20
Alignment explanation
Indices: 980843--980888 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
980833 TTTTATTGTT
*
980843 GCGATAGTCAAATTCACAAC
1 GCGAAAGTCAAATTCACAAC
*
980863 GCGAAAGTCAAATTCACAAT
1 GCGAAAGTCAAATTCACAAC
980883 GCGAAA
1 GCGAAA
980889 TAAGCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
GCGAAAGTCAAATTCACAAC
Found at i:980886 original size:54 final size:54
Alignment explanation
Indices: 980797--980911 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
980787 GTTGAAGGTA
* * ** ** * **
980797 CAAATTCGCAACGCGAAAGTCAAATTCTCGTTGCGATTTTATTGTTGCGATAGT
1 CAAATTCACAACGCGAAAGTCAAATTCACAATGCGAAATAAGCGTTGCGATAGT
980851 CAAATTCACAACGCGAAAGTCAAATTCACAATGCGAAATAAGCGTTGCGATAGT
1 CAAATTCACAACGCGAAAGTCAAATTCACAATGCGAAATAAGCGTTGCGATAGT
980905 CAAATTC
1 CAAATTC
980912 GCGTTGCGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (54 bp):
CAAATTCACAACGCGAAAGTCAAATTCACAATGCGAAATAAGCGTTGCGATAGT
Found at i:981195 original size:18 final size:18
Alignment explanation
Indices: 981172--981207 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
981162 AAGCCAGTTG
*
981172 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
981190 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
981208 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:983513 original size:24 final size:24
Alignment explanation
Indices: 983455--983514 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
983445 CTGAAACATC
* *
983455 ATCAAAATCCGAGTATTGATCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
983479 ATCAAAGTTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
983503 ATCAAATTTCGA
1 ATCAAAATTCGA
983515 ATACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:983522 original size:24 final size:24
Alignment explanation
Indices: 983475--983522 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
983465 GAGTATTGAT
* *
983475 CAAGATCAAAGTTCGAGTATTGAC
1 CAAGATCAAAGTTCGAATACTGAC
*
983499 CAAGATCAAATTTCGAATACTGAC
1 CAAGATCAAAGTTCGAATACTGAC
983523 TAGTACTCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
CAAGATCAAAGTTCGAATACTGAC
Found at i:984293 original size:14 final size:15
Alignment explanation
Indices: 984257--984294 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
984247 GAAATCATTG
984257 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
984272 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
984287 AAAAATTA
1 AAAAATTA
984295 GAGATGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:984474 original size:19 final size:18
Alignment explanation
Indices: 984431--984483 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
984421 CAAAACATTT
*
984431 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAATTAAAAC
* *
984449 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAATTAAA-AC
984468 GTGTTGC-AAATTAAAA
1 GTGTTGCGAAATTAAAA
984484 AATCGAGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAATTAAAAC
Found at i:984499 original size:20 final size:18
Alignment explanation
Indices: 984470--984536 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
984460 TTAAATTCGT
*
984470 GTTGCAAATTAAAAAATCGA
1 GTTGCGAATT-AAAAATC-A
* *
984490 GTTGCGAATTGAAATTCA
1 GTTGCGAATTAAAAATCA
* *
984508 GTTGCGAATTTGAAATTCA
1 GTTGCGAA-TTAAAAATCA
*
984527 GTTACGAATT
1 GTTGCGAATT
984537 TGAAATTCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.26
19 22 0.52
20 9 0.21
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (18 bp):
GTTGCGAATTAAAAATCA
Found at i:984522 original size:19 final size:19
Alignment explanation
Indices: 984489--984557 Score: 104
Period size: 19 Copynumber: 3.6 Consensus size: 19
984479 TAAAAAATCG
984489 AGTTGCGAA-TTGAAATTC
1 AGTTGCGAATTTGAAATTC
984507 AGTTGCGAATTTGAAATTC
1 AGTTGCGAATTTGAAATTC
*
984526 AGTTACGAATTTGAAATTC
1 AGTTGCGAATTTGAAATTC
984545 AGCGTTGCGAATT
1 A--GTTGCGAATT
984558 CGACTATCGC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
18 9 0.20
19 28 0.61
21 9 0.20
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (19 bp):
AGTTGCGAATTTGAAATTC
Found at i:984594 original size:20 final size:20
Alignment explanation
Indices: 984548--984613 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
984538 GAAATTCAGC
* *
984548 GTTGCGAATTCGAC-TATCGC
1 GTTGCGAATTTGACTTAT-GT
984568 G-TGCGAATTTGACTTATGT
1 GTTGCGAATTTGACTTATGT
* *
984587 GTTGCGAATTTAACTTCTGT
1 GTTGCGAATTTGACTTATGT
984607 GTTGCGA
1 GTTGCGA
984614 TTGGTCACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGACTTATGT
Found at i:986152 original size:20 final size:19
Alignment explanation
Indices: 986127--986180 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
986117 GCGAAATAAA
986127 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
986147 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
986167 AATCGCAACGCGAT
1 AATCGCAACGCGAT
986181 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:986335 original size:20 final size:20
Alignment explanation
Indices: 986230--986521 Score: 232
Period size: 20 Copynumber: 14.5 Consensus size: 20
986220 GATTTTTCAT
** *
986230 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
* **
986250 AATTGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
*
986270 AATCGCAACGC-AATTC-TGA
1 AATCGCAACGCGAATCCGT-A
* * *
986289 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
986311 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
986331 AATCGTAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
* *
986352 AATCGCAACGCGTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
986372 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
** *
986392 AATCGCAACGCTTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
986412 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
986432 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
986452 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATCCGTA
**
986472 AATCGCAACGCGAAAACGTA
1 AATCGCAACGCGAATCCGTA
* *
986492 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCCGTA
986512 AATCGCAACG
1 AATCGCAACG
986522 AGATTCTGAC
Statistics
Matches: 215, Mismatches: 48, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
18 1 0.00
19 3 0.01
20 174 0.81
21 35 0.16
22 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:986408 original size:40 final size:40
Alignment explanation
Indices: 986291--986521 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
986281 AATTCTGACT
* *
986291 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* * *
986332 ATCGTAACGACAATACGTAAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
* *
986373 ATCGCAACGAGAATACGTAAATCGCAACGCTTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
986413 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* * * **
986453 ATCGCAATGCGAATACGTAAATCGCAACGCGAAAACGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
* *
986493 ATCGCAATGCGAAT-CTGTAAATCGCAACG
1 ATCGCAACGAGAATAC-GTAAATCGCAACG
986522 AGATTCTGAC
Statistics
Matches: 172, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 119 0.69
41 52 0.30
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:988339 original size:209 final size:210
Alignment explanation
Indices: 987978--988396 Score: 795
Period size: 209 Copynumber: 2.0 Consensus size: 210
987968 GTTCAAGAAC
*
987978 CCAAGTTTTTCCTCACCATAGACAGCAAACAAAAAGGTGTTGGGTGGTTTTCTGGCTGAGTTAAT
1 CCAAGTTTTTCCTCACCATAGACAACAAACAAAAAGGTGTTGGGTGGTTTTCTGGCTGAGTTAAT
988043 GTTTTTGAATGGTAGGGTATATCAGGGACTTGAAATTATGACTGACATGAATGCTCGGTTCAAGA
66 GTTTTTGAATGGTAGGGTATATCAGGGACTTGAAATTATGACTGACATGAATGCTCGGTTCAAGA
*
988108 TTAGTATCTCATATTATCAAGCTTGGAGAGCCAAATGTTATGCCTTGGAATTGTTTA-GGGGTCG
131 TTAGTATCTCATATTATCAAGCTTGGAGAGCCAAATGTTATGCCTTGGAATTGTTAAGGGGGTCG
988172 CCAGAAGCATCGTTT
196 CCAGAAGCATCGTTT
988187 CCAAGTTTTTCCTCACCATAGACAACAAACAAAAAGGTGTTGGGTGGTTTTCTGGCTGAGTTAAT
1 CCAAGTTTTTCCTCACCATAGACAACAAACAAAAAGGTGTTGGGTGGTTTTCTGGCTGAGTTAAT
*
988252 GTTTTTGAATGGTAGGGTATATCGGGGACTTGAAATTATGACTGACATGAATGCTCGGTTCAAGA
66 GTTTTTGAATGGTAGGGTATATCAGGGACTTGAAATTATGACTGACATGAATGCTCGGTTCAAGA
*
988317 TTAGTATCTCATATTCTCAAGCTTGGAGAGCCAAATGTTATGCCTTGGAATTGTTAAGGGGGTCG
131 TTAGTATCTCATATTATCAAGCTTGGAGAGCCAAATGTTATGCCTTGGAATTGTTAAGGGGGTCG
988382 CCAGAAGCATCGTTT
196 CCAGAAGCATCGTTT
988397 GCCCAACTGC
Statistics
Matches: 205, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
209 183 0.89
210 22 0.11
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (210 bp):
CCAAGTTTTTCCTCACCATAGACAACAAACAAAAAGGTGTTGGGTGGTTTTCTGGCTGAGTTAAT
GTTTTTGAATGGTAGGGTATATCAGGGACTTGAAATTATGACTGACATGAATGCTCGGTTCAAGA
TTAGTATCTCATATTATCAAGCTTGGAGAGCCAAATGTTATGCCTTGGAATTGTTAAGGGGGTCG
CCAGAAGCATCGTTT
Found at i:990625 original size:19 final size:19
Alignment explanation
Indices: 990601--990679 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 19
990591 ACAACGAGAG
*
990601 AATCGCAGCGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
990620 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATGAA
*
990639 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
990653 AATCGCAACACGAAATGAA
1 AATCGCAACGCGAAATGAA
990672 AATCGCAA
1 AATCGCAA
990680 TGCAATTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
14 9 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 35 0.70
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:990649 original size:52 final size:53
Alignment explanation
Indices: 990547--990679 Score: 169
Period size: 52 Copynumber: 2.5 Consensus size: 53
990537 TTGAAATGAA
* * * **
990547 AATCGCAACGAGAGAATGAAAATCGTAATGCGGAAATGACTATCACAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAG
* * *
990601 AATCGCAGCGCGAAATGAAAATCGCAACGC-GAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAG
*
990653 AATCGCAACACGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
990680 TGCAATTTTG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 43 0.62
53 15 0.22
54 11 0.16
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (53 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAG
Found at i:990730 original size:21 final size:21
Alignment explanation
Indices: 990704--990767 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
990694 CGCGTTGCGA
990704 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
990725 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
990746 TT-TCGT-GTTGCGATTTTCAT
1 TTCTC-TCGTTGCGATTTTCAT
990766 TT
1 TT
990768 TCAATATTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.52
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:990757 original size:20 final size:20
Alignment explanation
Indices: 990732--990769 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
990722 CATTTCTCTC
990732 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
990752 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
990770 AATATTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:991234 original size:20 final size:20
Alignment explanation
Indices: 991209--991380 Score: 191
Period size: 20 Copynumber: 8.5 Consensus size: 20
991199 TTTAAAAATT
991209 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
991229 GCGTTGCGAGTTTACGTATTC
1 GCGTTGCGA-TTTACGGATAC
*
991250 TCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* * * *
991270 GCATTGCGATTTATGTATTC
1 GCGTTGCGATTTACGGATAC
* * *
991290 TCGTTGCTATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
* *
991310 GCGTTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* *
991330 TCGTTGCCATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
991350 GCGTTGCGATTTTACGGATAC
1 GCGTTGCGA-TTTACGGATAC
*
991371 TCGTTGCGAT
1 GCGTTGCGAT
991381 AGTCAGAATC
Statistics
Matches: 121, Mismatches: 29, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
20 85 0.70
21 36 0.30
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:991302 original size:40 final size:40
Alignment explanation
Indices: 991210--991380 Score: 261
Period size: 40 Copynumber: 4.2 Consensus size: 40
991200 TTAAAAATTG
991210 CGTTGCGATTTACGGATACGCGTTGCGAGTTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
* *
991251 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* *
991291 CGTTGCTATTTACAGATACGCGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
* * *
991331 CGTTGCCATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGTATTCT
991372 CGTTGCGAT
1 CGTTGCGAT
991381 AGTCAGAATC
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 73 0.62
41 45 0.38
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGTATTCT
Found at i:991345 original size:80 final size:81
Alignment explanation
Indices: 991210--991380 Score: 263
Period size: 81 Copynumber: 2.1 Consensus size: 81
991200 TTAAAAATTG
* *
991210 CGTTGCGATTTACGGATACGCGTTGCGAGTTTACGTATTCTCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACAGATACGCGTTGCGAGTTTACGTATTCTCGTTGCCATTTACGGATACGCATT
991275 GCGATTTATGTATTCT
66 GCGATTTATGTATTCT
* *
991291 CGTTGCTATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCCATTTACGGATACGCGTT
1 CGTTGCGATTTACAGATACGCGTTGCGAGTTTACGTATTCTCGTTGCCATTTACGGATACGCATT
* * *
991355 GCGATTTTACGGATACT
66 GCGA-TTTATGTATTCT
991372 CGTTGCGAT
1 CGTTGCGAT
991381 AGTCAGAATC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 38 0.47
81 43 0.53
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (81 bp):
CGTTGCGATTTACAGATACGCGTTGCGAGTTTACGTATTCTCGTTGCCATTTACGGATACGCATT
GCGATTTATGTATTCT
Found at i:991412 original size:20 final size:20
Alignment explanation
Indices: 991389--991441 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
991379 ATAGTCAGAA
*
991389 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
991409 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
991429 TCGCGTTGCGATT
1 TCGCGTTGCGATT
991442 ATGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:991434 original size:121 final size:121
Alignment explanation
Indices: 991210--991441 Score: 299
Period size: 121 Copynumber: 1.9 Consensus size: 121
991200 TTAAAAATTG
* * * * *
991210 CGTTGCGATTTACGGATACGCGTTGCGAGTTTACGTATTCTCGTTGCGATTTACGGATACGCATT
1 CGTTGCCATTTACGGATACGCGTTGCGAGTTTACGGATACTCGTTGCGATTCACGAATACGCATT
* *
991275 GCGATTTATGTATTCTCGTTGCTATTTACAGATACGCGTTGCGATTTACGTATTCT
66 GCGATTTATATATTCGCGTTGCTATTTACAGATACGCGTTGCGATTTACGTATTCT
* *
991331 CGTTGCCATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAAT-CGCG
1 CGTTGCCATTTACGGATACGCGTTGCGAGTTTACGGATACTCGTTGCGAT--TCACGAATACGCA
* * * *
991394 TTGCGATTTATATGTTCGCGTTG-TGATTTTCATATTCGCGTTGCGATT
64 TTGCGATTTATATATTCGCGTTGCT-ATTTACAGATACGCGTTGCGATT
991442 ATGGAAAATC
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
120 1 0.01
121 89 0.94
122 3 0.03
123 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (121 bp):
CGTTGCCATTTACGGATACGCGTTGCGAGTTTACGGATACTCGTTGCGATTCACGAATACGCATT
GCGATTTATATATTCGCGTTGCTATTTACAGATACGCGTTGCGATTTACGTATTCT
Found at i:991679 original size:22 final size:22
Alignment explanation
Indices: 991661--991702 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
991651 TTTTATTTTA
991661 ATTTTAATTAATTAC-TATTATT
1 ATTTT-ATTAATTACATATTATT
*
991683 ATTTTCTTAATTACATATTA
1 ATTTTATTAATTACATATTA
991703 CATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTATTAATTACATATTATT
Found at i:994811 original size:28 final size:28
Alignment explanation
Indices: 994775--994828 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
994765 CTTTAAGTTA
* *
994775 TTGTTTTTGCTATTTTAGTCTTTTAACT
1 TTGTCTTTGCTATTTTAGTCCTTTAACT
994803 TTGTCTTTGCTATTTTAGTCCTTTAA
1 TTGTCTTTGCTATTTTAGTCCTTTAA
994829 ATTTTTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.61
Consensus pattern (28 bp):
TTGTCTTTGCTATTTTAGTCCTTTAACT
Found at i:994848 original size:30 final size:29
Alignment explanation
Indices: 994728--994853 Score: 83
Period size: 30 Copynumber: 4.3 Consensus size: 29
994718 GTAATTACTG
* ** *
994728 TTTAGTCCTTTAAGTTTATGTTAATAACAG
1 TTTAGTCCTTTAAGTTTTTGTT-ATGCCAT
* * * *
994758 TTTGGTCCTTTAAGTTATTGTTTTTGCTAT
1 TTTAGTCCTTTAAGTTTTTG-TTATGCCAT
* * * * *
994788 TTTAGTCTTTTAACTTTGTCTT-TGCTAT
1 TTTAGTCCTTTAAGTTTTTGTTATGCCAT
*
994816 TTTAGTCCTTTAAATTTTTGTTAGTGCCAT
1 TTTAGTCCTTTAAGTTTTTGTTA-TGCCAT
*
994846 TTTGGTCC
1 TTTAGTCC
994854 CTAAAATCCC
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
28 24 0.33
29 2 0.03
30 45 0.62
31 2 0.03
ACGTcount: A:0.18, C:0.13, G:0.14, T:0.55
Consensus pattern (29 bp):
TTTAGTCCTTTAAGTTTTTGTTATGCCAT
Found at i:995166 original size:58 final size:58
Alignment explanation
Indices: 995076--995191 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
995066 CTACTTTCAA
995076 GAACATCGATTTTGTAGAATGAGCGTGGAAAGCTTCACTTGGTCAAAGTGATACGATC
1 GAACATCGATTTTGTAGAATGAGCGTGGAAAGCTTCACTTGGTCAAAGTGATACGATC
995134 GAACATCGATTTTGTAGAATGAGCGTGGAAAGCTTCACTTGGTCAAAGTGATACGATC
1 GAACATCGATTTTGTAGAATGAGCGTGGAAAGCTTCACTTGGTCAAAGTGATACGATC
995192 CGATACGACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (58 bp):
GAACATCGATTTTGTAGAATGAGCGTGGAAAGCTTCACTTGGTCAAAGTGATACGATC
Found at i:999434 original size:2 final size:2
Alignment explanation
Indices: 999427--999465 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
999417 CCGTACACCC
*
999427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
999466 CAATAAAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1000919 original size:67 final size:66
Alignment explanation
Indices: 1000848--1001102 Score: 263
Period size: 66 Copynumber: 3.8 Consensus size: 66
1000838 TTGCTCTCAC
* *
1000848 TTGAGACAGTTTTTCTTTAAAATACAAA-CTTTGAAGT-TGTTTCTTTGAAAACAAAATTTTATC
1 TTGAGACAGTTTTTCTTTAAAA-A-AAATCTTTG-AGTCTGTTTCTTTGGAAACAAAATTTTGTC
1000911 TCTT
63 TCTT
* * *
1000915 TTGAGACAGTTTCTT-TTGAAGAAAAAATATTTGAGTCTGTTTCTTTGGAAACAAAATATTGTCT
1 TTGAGACAGTTT-TTCTTTAA-AAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCT
*
1000979 CTA
64 CTT
* * * *
1000982 TTGAGACA--TTTTCTTTTGAAGAAAAATCTTTGAGTCTTTTTCTTTGGAAATAAAGTTTTGTCT
1 TTGAGACAGTTTTTC-TTT-AAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCT
1001045 CTT
64 CTT
* * *
1001048 TTGAGATAGTTTCTT-TTGAAGAAAAATCTTTGAGTCTGTTTCTGTT-GAAACAAAA
1 TTGAGACAGTTT-TTCTTTAAAAAAAATCTTTGAGTCTGTTTCT-TTGGAAACAAAA
1001103 GTCTTTGAGA
Statistics
Matches: 158, Mismatches: 19, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
64 2 0.01
65 2 0.01
66 85 0.54
67 61 0.39
68 6 0.04
69 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (66 bp):
TTGAGACAGTTTTTCTTTAAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCT
T
Found at i:1000971 original size:29 final size:30
Alignment explanation
Indices: 1000914--1000974 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
1000904 TTTTATCTCT
*
1000914 TTTGAGACAGTTTCTTTTGAAGAAAAAATA
1 TTTGAGACAGTTTCTTTGGAAGAAAAAATA
* * *
1000944 TTTGAGTCTGTTTCTTTGGAA-ACAAAATA
1 TTTGAGACAGTTTCTTTGGAAGAAAAAATA
1000973 TT
1 TT
1000975 GTCTCTATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTGAGACAGTTTCTTTGGAAGAAAAAATA
Found at i:1001043 original size:66 final size:66
Alignment explanation
Indices: 1000876--1001102 Score: 323
Period size: 66 Copynumber: 3.4 Consensus size: 66
1000866 AAAATACAAA
* *
1000876 CTTTGAAGT-TGTTTCTTTGAAAACAAAATTTTATCTCTTTTGAGACAGTTTCTTTTGAAGAAAA
1 CTTTG-AGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTTTGAAG-AAA
1000940 AAT
64 AAT
* * * *
1000943 ATTTGAGTCTGTTTCTTTGGAAACAAAATATTGTCTCTATTGAGACATTTTCTTTTGAAGAAAAA
1 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTTTGAAGAAAAA
1001008 T
66 T
* * * *
1001009 CTTTGAGTCTTTTTCTTTGGAAATAAAGTTTTGTCTCTTTTGAGATAGTTTCTTTTGAAGAAAAA
1 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTTTGAAGAAAAA
1001074 T
66 T
1001075 CTTTGAGTCTGTTTCTGTT-GAAACAAAA
1 CTTTGAGTCTGTTTCT-TTGGAAACAAAA
1001103 GTCTTTGAGA
Statistics
Matches: 141, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
66 89 0.63
67 52 0.37
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (66 bp):
CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTTTTGAGACAGTTTCTTTTGAAGAAAAA
T
Found at i:1001110 original size:30 final size:29
Alignment explanation
Indices: 1001047--1001167 Score: 104
Period size: 30 Copynumber: 4.1 Consensus size: 29
1001037 TTTTGTCTCT
* *
1001047 TTTGAGATAGTTTCTTTTGAAGA-AAAATC
1 TTTGAGATTGTTTCTCTTGAA-ACAAAATC
*
1001076 TTTGAG-TCTGTTTCTGTTGAAACAAAAGTC
1 TTTGAGAT-TGTTTCTCTTGAAACAAAA-TC
*
1001106 TTTGAGATTGTTTCTCATGAAACAAACATC
1 TTTGAGATTGTTTCTCTTGAAACAAA-ATC
* * * * *
1001136 TTTAAGATCGATTCCCTTGAAAAAAAAT-
1 TTTGAGATTGTTTCTCTTGAAACAAAATC
1001164 TTTG
1 TTTG
1001168 TCTCTTGAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.07
29 23 0.30
30 46 0.61
31 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (29 bp):
TTTGAGATTGTTTCTCTTGAAACAAAATC
Found at i:1001537 original size:133 final size:130
Alignment explanation
Indices: 1001248--1001569 Score: 337
Period size: 133 Copynumber: 2.4 Consensus size: 130
1001238 TGGTCAGCCA
* ** *
1001248 TCCTCATCATGTAGGAAACGTGTCACCCCT-GATAACCAGCCATCCTCATCACGTAGGAACCATG
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCC-TCCTCATCACGTATGAACCATG
* * *
1001312 TTATCATTCCTAAAGATGACATGCCGTCCTCATCGCGTAGGAATCGTGTCATCCACCGACCAGAT
65 TTATCATTCCTAAAGATGACATGACGTCCTCATCGCGTAGGAACCGTGTCATCCACCAACCAGAT
1001377 C
130 C
* *
1001378 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCGCGTATGAACCGTG
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCC-TCCTCATCACGTATGAACCATG
* * * * * * * *
1001443 TTATCGCCCTTCCTAAAGATGGCCA-GAAC-TCTTCATCGTGTATGAGCCGTGTCATTC-TCAAC
65 TTAT---CATTCCTAAAGAT-GACATG-ACGTCCTCATCGCGTAGGAACCGTGTCATCCACCAAC
1001505 CAGATC
125 CAGATC
* * * * * *
1001511 TCCTCTTCACGTAGGCGTCGTGTCACCCTTAGATGACCAGACCTCTTCATCACGTATGA
1 TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAG-CCTCCTCATCACGTATGA
1001570 GCAGTGTCAT
Statistics
Matches: 160, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
130 27 0.17
131 34 0.21
133 58 0.36
134 37 0.23
135 4 0.03
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (130 bp):
TCCTCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCTCCTCATCACGTATGAACCATGT
TATCATTCCTAAAGATGACATGACGTCCTCATCGCGTAGGAACCGTGTCATCCACCAACCAGATC
Found at i:1005077 original size:24 final size:24
Alignment explanation
Indices: 1005011--1005097 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
1005001 TGAATTATTT
*
1005011 TATGATACATGACATGGATTCTGA
1 TATGATACATGACCTGGATTCTGA
*
1005035 TCTGATAC-TGACCTGGATTCTGA
1 TATGATACATGACCTGGATTCTGA
* * *
1005058 TTTAATACATGACCTAGATTCTGA
1 TATGATACATGACCTGGATTCTGA
*
1005082 TATGATACTTGACCTG
1 TATGATACATGACCTG
1005098 AATTATGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 20 0.38
24 33 0.62
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (24 bp):
TATGATACATGACCTGGATTCTGA
Found at i:1005111 original size:24 final size:24
Alignment explanation
Indices: 1005013--1005111 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
1005003 AATTATTTTA
* * *
1005013 TGATACATGACATGGATTCTGATC
1 TGATACATGACCTGAATTCTGATT
*
1005037 TGATAC-TGACCTGGATTCTGATT
1 TGATACATGACCTGAATTCTGATT
* *
1005060 TAATACATGACCT-AGATTCTGATA
1 TGATACATGACCTGA-ATTCTGATT
* * *
1005084 TGATACTTGACCTGAATTATGTTT
1 TGATACATGACCTGAATTCTGATT
1005108 TGAT
1 TGAT
1005112 TTTTGATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
23 20 0.32
24 41 0.66
25 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (24 bp):
TGATACATGACCTGAATTCTGATT
Found at i:1007298 original size:113 final size:114
Alignment explanation
Indices: 1007100--1007320 Score: 435
Period size: 113 Copynumber: 1.9 Consensus size: 114
1007090 GTTGTTTTTT
1007100 ACAACTTTAAGTGATATAGAAGCTTAAGGAAGGATTAATTGAGATTAAAACCATGAAAAGAATGA
1 ACAACTTTAAGTGATATAGAAGCTTAAGGAAGGATTAATTGAGATTAAAACCATGAAAAGAATGA
1007165 AATATTAGATATTTGAAAAAATGGGTTTTGCAA-GATATGTTATACTGG
66 AATATTAGATATTTGAAAAAATGGGTTTTGCAATGATATGTTATACTGG
1007213 ACAACTTTAAGTGATATAGAAGCTTAAGGAAGGATTAATTGAGATTAAAACCATGAAAAGAATGA
1 ACAACTTTAAGTGATATAGAAGCTTAAGGAAGGATTAATTGAGATTAAAACCATGAAAAGAATGA
1007278 AATATTAGATATTTGAAAAAATGGGTTTTGCAATGATATGTTA
66 AATATTAGATATTTGAAAAAATGGGTTTTGCAATGATATGTTA
1007321 CTATACTGGT
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
113 98 0.92
114 9 0.08
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (114 bp):
ACAACTTTAAGTGATATAGAAGCTTAAGGAAGGATTAATTGAGATTAAAACCATGAAAAGAATGA
AATATTAGATATTTGAAAAAATGGGTTTTGCAATGATATGTTATACTGG
Found at i:1007807 original size:22 final size:22
Alignment explanation
Indices: 1007780--1007823 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1007770 ACCGGTAGGG
1007780 GTATCAGTACCATAGT-AGGGTA
1 GTATCA-TACCATAGTAAGGGTA
*
1007802 GTATCATACCATGGTAAGGGTA
1 GTATCATACCATAGTAAGGGTA
1007824 TCGATACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
GTATCATACCATAGTAAGGGTA
Found at i:1007828 original size:93 final size:96
Alignment explanation
Indices: 1007703--1007905 Score: 250
Period size: 93 Copynumber: 2.1 Consensus size: 96
1007693 ATACCGATAA
* *
1007703 GGTAGTATCGATACCATGATCATGGGTATCGATACCAAGAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGATCAAGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
* *
1007768 ATACCGGTA-GGGGTATCAGTACCATAGTAG
66 ATACCCGAAGGGGGTATCAGTACCATAGTAG
* * * * * *
1007798 GGTAGTATC-ATACCATGGT-AAGGGTATCGATACTAGGCAGCATCGAACCTATTTTTGGTATCG
1 GGTAGTATCGATACCATGATCAAGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
* * *
1007861 ATACCCGAAGGGGGTATCGGTACCATAATAT
66 ATACCCGAAGGGGGTATCAGTACCATAGTAG
* *
1007892 AGAAGTATCGATAC
1 GGTAGTATCGATAC
1007906 TAGGGTAGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
93 44 0.48
94 34 0.37
95 13 0.14
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (96 bp):
GGTAGTATCGATACCATGATCAAGGGTATCGATACCAAGAAACATCGAACCTAATTTTGGTATCG
ATACCCGAAGGGGGTATCAGTACCATAGTAG
Found at i:1008335 original size:56 final size:55
Alignment explanation
Indices: 1008248--1008408 Score: 243
Period size: 55 Copynumber: 2.9 Consensus size: 55
1008238 CTATGTGTAT
* * *
1008248 TACAGGCACTTCGTGTGCATATTCACGGAATTTATCATGTGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGTATATTCACGGAATTCATCATGAGTTGATGAATCACCG
1008303 TACAGGCACTTCGTTGTGTATATTCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCG-TGTGTATATTCACGGAATTCATCATGAGTTGATGAATCACCG
* * *
1008359 TACAAGCACCTT-GTGTGTAAATCCACGGAATTCATCATGAGTTGATGAAT
1 TACAGGCA-CTTCGTGTGTATATTCACGGAATTCATCATGAGTTGATGAAT
1008409 TCCTGTATAT
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
55 48 0.49
56 47 0.48
57 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (55 bp):
TACAGGCACTTCGTGTGTATATTCACGGAATTCATCATGAGTTGATGAATCACCG
Found at i:1014396 original size:55 final size:54
Alignment explanation
Indices: 1014329--1014488 Score: 232
Period size: 55 Copynumber: 2.9 Consensus size: 54
1014319 CTATGTGTAC
*
1014329 TACAGACACTTCGTGTGCATATTCACGTAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCATATTCACG-AATTCATCATGAGTTGATGAATCACCG
1014384 TACAGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCG
1 TACAGGCACTTCGTGTGCATATTCAC-GAATTCATCATGAGTTGATGAATCACCG
* * * *
1014439 TACATGCACCTT-GTGTGTAAATCCACAGAATTCATCATGAGTTGATGAAT
1 TACAGGCA-CTTCGTGTGCATATTCAC-GAATTCATCATGAGTTGATGAAT
1014489 TCCTGTATAG
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
55 93 0.96
56 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (54 bp):
TACAGGCACTTCGTGTGCATATTCACGAATTCATCATGAGTTGATGAATCACCG
Found at i:1015601 original size:30 final size:30
Alignment explanation
Indices: 1015566--1015640 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
1015556 CAGTTTGGTT
1015566 CTTTAAGTTTTTGTTTTTGATATTTTAGTC
1 CTTTAAGTTTTTGTTTTTGATATTTTAGTC
* * * * * *
1015596 TTTTAAGTTTCTATCTTTGCTGTTTTAGTC
1 CTTTAAGTTTTTGTTTTTGATATTTTAGTC
*
1015626 CTTTAAATTTTTGTT
1 CTTTAAGTTTTTGTT
1015641 AGTGCCATTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (30 bp):
CTTTAAGTTTTTGTTTTTGATATTTTAGTC
Found at i:1017700 original size:15 final size:16
Alignment explanation
Indices: 1017669--1017704 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1017659 CTTCATGATC
1017669 AACACTCTCACAGAGA
1 AACACTCTCACAGAGA
*
1017685 AACACTGTCA-AGAGA
1 AACACTCTCACAGAGA
1017700 AACAC
1 AACAC
1017705 AGGCCAGCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.47, C:0.28, G:0.14, T:0.11
Consensus pattern (16 bp):
AACACTCTCACAGAGA
Found at i:1026471 original size:13 final size:14
Alignment explanation
Indices: 1026453--1026485 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1026443 TTGGTCAACT
1026453 CGACTCGCCTG-CC
1 CGACTCGCCTGACC
*
1026466 CGACTCGCTTGACC
1 CGACTCGCCTGACC
1026480 CGACTC
1 CGACTC
1026486 AAACCGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.12, C:0.48, G:0.21, T:0.18
Consensus pattern (14 bp):
CGACTCGCCTGACC
Found at i:1026540 original size:22 final size:22
Alignment explanation
Indices: 1026512--1026559 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1026502 ACCCGAACCG
* *
1026512 TTGACCGGTCAGATCGTTGACT
1 TTGACCGGTCAGACCGTTAACT
*
1026534 TTGACCGGTTAGACCGTTAACT
1 TTGACCGGTCAGACCGTTAACT
1026556 TTGA
1 TTGA
1026560 TTGATCTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (22 bp):
TTGACCGGTCAGACCGTTAACT
Found at i:1028467 original size:19 final size:19
Alignment explanation
Indices: 1028431--1028470 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1028421 TAGAATATAG
* *
1028431 TCTGATCTCTGATTTCTGT
1 TCTGATCTATGATCTCTGT
*
1028450 TCTGATCTATTATCTCTGT
1 TCTGATCTATGATCTCTGT
1028469 TC
1 TC
1028471 ATACTGACTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.12, T:0.53
Consensus pattern (19 bp):
TCTGATCTATGATCTCTGT
Found at i:1029600 original size:17 final size:16
Alignment explanation
Indices: 1029576--1029620 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1029566 ATGAGATTAC
1029576 TTTTAAAAATATAAAA
1 TTTTAAAAATATAAAA
*
1029592 TTATT-AAAATATAATA
1 TT-TTAAAAATATAAAA
1029608 TTTATAAAAATAT
1 TTT-TAAAAATAT
1029621 TACATCATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 15 0.60
17 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTTAAAAATATAAAA
Found at i:1029602 original size:16 final size:17
Alignment explanation
Indices: 1029579--1029620 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1029569 AGATTACTTT
1029579 TAAAAATATAA-AATTA
1 TAAAAATATAATAATTA
* *
1029595 TTAAAATATAATATTTA
1 TAAAAATATAATAATTA
1029612 TAAAAATAT
1 TAAAAATAT
1029621 TACATCATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAAATATAATAATTA
Found at i:1034314 original size:70 final size:71
Alignment explanation
Indices: 1034231--1034514 Score: 324
Period size: 70 Copynumber: 4.0 Consensus size: 71
1034221 AGACGGGTTT
* * * *
1034231 TTTTCAAGAGAAAACATATCAAGTGAGA-ATAAATTTT-TTTCAAGAGAAGTTGTCTCGAGTGAA
1 TTTTCAAGGGAAAATATCTCAAGTGAGATA-AAATTTTGTTTCAAGAGAAATTGTCTCGAGTGAA
1034294 ACAAAAA
65 ACAAAAA
* * * * ** * *
1034301 TTTTCAATGGAAAATATTTTAAGTGAGATGAAATTTTGTTTCAACTGAAACTGTCTCGAGTGAGA
1 TTTTCAAGGGAAAATATCTCAAGTGAGATAAAATTTTGTTTCAAGAGAAATTGTCTCGAGTGAAA
**
1034366 TGAAAA
66 CAAAAA
* *
1034372 CTTTCAAGGGAAAATATCTCAAGTGAGATAAAA-TTTGTTTCAAGAGAAATTGTCTCGAGTAAAA
1 TTTTCAAGGGAAAATATCTCAAGTGAGATAAAATTTTGTTTCAAGAGAAATTGTCTCGAGTGAAA
1034436 CAAAAA
66 CAAAAA
* * * * * *
1034442 TTTTCAAGGGAAAATACCTCAAGTGAGATAAAATTTTGTTTCGAGATAAACTATCAT-GAGTGAG
1 TTTTCAAGGGAAAATATCTCAAGTGAGATAAAATTTTGTTTCAAGAGAAATTGTC-TCGAGTGAA
1034506 ACAAAAA
65 ACAAAAA
1034513 TT
1 TT
1034515 ATTTTTGAGG
Statistics
Matches: 177, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
70 91 0.51
71 85 0.48
72 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (71 bp):
TTTTCAAGGGAAAATATCTCAAGTGAGATAAAATTTTGTTTCAAGAGAAATTGTCTCGAGTGAAA
CAAAAA
Found at i:1034397 original size:34 final size:33
Alignment explanation
Indices: 1034354--1034474 Score: 98
Period size: 34 Copynumber: 3.5 Consensus size: 33
1034344 ACTGAAACTG
*
1034354 TCTCGAGTGAGATGAAAACTTTCAAGGGAAAATA
1 TCTCAAGTGAGAT-AAAACTTTCAAGGGAAAATA
* * * *
1034388 TCTCAAGTGAGATAAAATTTGTTTCAAGAGAAATTG
1 TCTCAAGTGAGATAAAA---CTTTCAAGGGAAAATA
* * * * *
1034424 TCTCGAGTAAAACAAAAATTTTCAAGGGAAAATA
1 TCTCAAGTGAGA-TAAAACTTTCAAGGGAAAATA
*
1034458 CCTCAAGTGAGATAAAA
1 TCTCAAGTGAGATAAAA
1034475 TTTTGTTTCG
Statistics
Matches: 65, Mismatches: 18, Indels: 9
0.71 0.20 0.10
Matches are distributed among these distances:
33 8 0.12
34 32 0.49
36 21 0.32
37 4 0.06
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.26
Consensus pattern (33 bp):
TCTCAAGTGAGATAAAACTTTCAAGGGAAAATA
Found at i:1034493 original size:141 final size:141
Alignment explanation
Indices: 1034232--1034506 Score: 378
Period size: 141 Copynumber: 2.0 Consensus size: 141
1034222 GACGGGTTTT
* * *
1034232 TTTCAAGAGAAAACATATCAAGTGAGAATAAATTTTTTTCAAGAGAAGTTGTCTCGAGTGAAACA
1 TTTCAAGAGAAAACATATCAAGTGAGAATAAATTTGTTTCAAGAGAAATTGTCTCGAGTAAAACA
* ** * * *
1034297 AAAATTTTCAATGGAAAATATTTTAAGTGAGATGAAATTTTGTTTCAACTGAAACTGTC-TCGAG
66 AAAATTTTCAAGGGAAAATACCTCAAGTGAGATAAAATTTTGTTTCAACTGAAACTATCAT-GAG
1034361 TGAGATGAAAAC
130 TGAGATGAAAAC
* * *
1034373 TTTCAAGGGAAAATATCTCAAGTGAG-ATAAAATTTGTTTCAAGAGAAATTGTCTCGAGTAAAAC
1 TTTCAAGAGAAAACATATCAAGTGAGAAT-AAATTTGTTTCAAGAGAAATTGTCTCGAGTAAAAC
1034437 AAAAATTTTCAAGGGAAAATACCTCAAGTGAGATAAAATTTTGTTTCGAGA-T-AAACTATCATG
65 AAAAATTTTCAAGGGAAAATACCTCAAGTGAGATAAAATTTTGTTTC-A-ACTGAAACTATCATG
1034500 AGTGAGA
128 AGTGAGA
1034507 CAAAAATTAT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
140 2 0.02
141 112 0.95
142 3 0.03
143 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (141 bp):
TTTCAAGAGAAAACATATCAAGTGAGAATAAATTTGTTTCAAGAGAAATTGTCTCGAGTAAAACA
AAAATTTTCAAGGGAAAATACCTCAAGTGAGATAAAATTTTGTTTCAACTGAAACTATCATGAGT
GAGATGAAAAC
Found at i:1035270 original size:160 final size:162
Alignment explanation
Indices: 1035005--1035326 Score: 630
Period size: 160 Copynumber: 2.0 Consensus size: 162
1034995 CTTCTTCCTT
1035005 TCTTCTTTGCAGTGACCTCTATTGTTGAAGCTTCAAAGGGATAAAAGCTTGATGGCCTTTGAGAG
1 TCTTCTTTGCAGTGACCTCTATTGTTGAAGCTTCAAAGGGATAAAAGCTTGATGGCCTTTGAGAG
1035070 AAGAAACGTGTAACACCCCCAACCCGTATCCAACCCAGATACGAGTCAGAGATATTACATTGACT
66 AAGAAACGTGTAACACCCCCAACCCGTATCCAACCCAGATACGAGTCAGAGATATTACATTGACT
1035135 TTTAAAACACAACTCATTACAAAT-ATAGCAA
131 TTTAAAACACAACTCATTACAAATAATAGCAA
1035166 TCTTCTTTGCAGTGACCTCTATTGTTGAAGCTTC-AAGGGATAAAAGCTTGATGGCCTTTGAGAG
1 TCTTCTTTGCAGTGACCTCTATTGTTGAAGCTTCAAAGGGATAAAAGCTTGATGGCCTTTGAGAG
1035230 AAGAAACGTGTAACACCCCCAACCCGTATCCAACCCAGATACGAGTCAGAGATATTACATTGACT
66 AAGAAACGTGTAACACCCCCAACCCGTATCCAACCCAGATACGAGTCAGAGATATTACATTGACT
1035295 TTTAAAACACAACTCATTACAAATAATAGCAA
131 TTTAAAACACAACTCATTACAAATAATAGCAA
1035327 AATATTTGAA
Statistics
Matches: 160, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
160 119 0.74
161 41 0.26
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (162 bp):
TCTTCTTTGCAGTGACCTCTATTGTTGAAGCTTCAAAGGGATAAAAGCTTGATGGCCTTTGAGAG
AAGAAACGTGTAACACCCCCAACCCGTATCCAACCCAGATACGAGTCAGAGATATTACATTGACT
TTTAAAACACAACTCATTACAAATAATAGCAA
Found at i:1035766 original size:23 final size:23
Alignment explanation
Indices: 1035740--1035794 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
1035730 CAGCTCATAT
1035740 AATTGCACCTA-AAAGCCAAGTAG
1 AATTGCACC-AGAAAGCCAAGTAG
* ** *
1035763 AATTACACCAGAGTGCCACGTAG
1 AATTGCACCAGAAAGCCAAGTAG
1035786 AATTGCACC
1 AATTGCACC
1035795 GTAGTGCCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (23 bp):
AATTGCACCAGAAAGCCAAGTAG
Found at i:1035800 original size:23 final size:23
Alignment explanation
Indices: 1035754--1035803 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1035744 GCACCTAAAA
1035754 GCCAAGTAGAATTACACCAGAGT
1 GCCAAGTAGAATTACACCAGAGT
* *
1035777 GCCACGTAGAATTGCACC-GTAGT
1 GCCAAGTAGAATTACACCAG-AGT
1035800 GCCA
1 GCCA
1035804 TATAATAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (23 bp):
GCCAAGTAGAATTACACCAGAGT
Found at i:1035990 original size:103 final size:103
Alignment explanation
Indices: 1035819--1036036 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
1035809 TAATGTCCAT
*
1035819 AAGGACCACATATCATTCCTTAAGAATCATATACATATTCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1035884 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
1035922 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
*
1035987 GACCTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
1036025 AAGGACCACATA
1 AAGGACCACATA
1036037 GACCCTCTAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1036594 original size:64 final size:67
Alignment explanation
Indices: 1036485--1036612 Score: 201
Period size: 64 Copynumber: 2.0 Consensus size: 67
1036475 ATTTTCATCT
1036485 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
1036550 TA
66 TA
* *
1036552 TTTAATGG-GG-ATGCATTGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTT
1036613 TCTTTTTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.57
65 14 0.24
66 2 0.03
67 8 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTG
TA
Found at i:1036630 original size:64 final size:63
Alignment explanation
Indices: 1036497--1036657 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
1036487 TAATGGAGGT
* * * *
1036497 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACTCCA-TATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGA
* * * *
1036562 ATGCATTGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGA
* *
1036626 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTCCATATGCATCGATGCA
1036658 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 57 0.70
65 22 0.27
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTCCATATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
Found at i:1042753 original size:23 final size:23
Alignment explanation
Indices: 1042727--1042790 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
1042717 CAGCTCTTAT
1042727 AATTACACCTAAGTGCCACG-TAG
1 AATTACACCT-AGTGCCACGTTAG
* * *
1042750 AATTGCACCGGAGTGCC-GGTTAG
1 AATTACACC-TAGTGCCACGTTAG
1042773 AATTACACCGTAGTGCCA
1 AATTACACC-TAGTGCCA
1042791 TATAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
AATTACACCTAGTGCCACGTTAG
Found at i:1042934 original size:103 final size:103
Alignment explanation
Indices: 1042809--1043023 Score: 403
Period size: 103 Copynumber: 2.1 Consensus size: 103
1042799 TGTCCATAAG
1042809 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
*
1042874 CTCACACATGTTCCAAAGAATACATATATGTCCTGAAA
66 CTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
1042912 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
* *
1042977 CTCACACATGTTCCAAAGAATATATATATGTCCCGAAG
66 CTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
1043015 GACCACATA
1 GACCACATA
1043024 GACCCACTAC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
CTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
Found at i:1043573 original size:19 final size:19
Alignment explanation
Indices: 1043549--1043599 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
1043539 TTTAATGGGG
1043549 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
1043568 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
*
1043587 ATACATCGATGCA
1 ATGCATCGATGCA
1043600 TAAATCCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:1043639 original size:83 final size:83
Alignment explanation
Indices: 1043483--1043664 Score: 210
Period size: 83 Copynumber: 2.2 Consensus size: 83
1043473 TTAATGGAGG
* *
1043483 TATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGG
1 TATGCATCGATGCACTACACCATACATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GG
* *
1043548 GATGCATCGATGCACTCCT-
65 AATACATCGATGCACT-CTA
* *
1043567 TATGCATCGATGCACT-C-CTTATACATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT
1 TATGCATCGATGCACTACAC-CATACATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AAT
* *
1043630 -TAATACATCGATGCACTGTA
63 GGAATACATCGATGCACTCTA
*
1043650 TGTGCATCGATGCAC
1 TATGCATCGATGCAC
1043665 CTTAAACAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
82 2 0.02
83 57 0.67
84 23 0.27
85 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (83 bp):
TATGCATCGATGCACTACACCATACATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGA
ATACATCGATGCACTCTA
Found at i:1047175 original size:16 final size:15
Alignment explanation
Indices: 1047154--1047187 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1047144 TATGTGTTTA
*
1047154 TATGTGATATATGATT
1 TATGTGATA-ATGAGT
1047170 TATGTGATAATGAGT
1 TATGTGATAATGAGT
1047185 TAT
1 TAT
1047188 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (15 bp):
TATGTGATAATGAGT
Found at i:1049666 original size:18 final size:18
Alignment explanation
Indices: 1049643--1049709 Score: 116
Period size: 18 Copynumber: 3.7 Consensus size: 18
1049633 GCACTAAATT
1049643 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1049661 TGTCCCGAAAGACCACTA
1 TGTCCCGAAGGACCACTA
*
1049679 TATCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1049697 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
1049710 ATGATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.16
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1049948 original size:32 final size:32
Alignment explanation
Indices: 1049912--1049999 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 32
1049902 GACACTCCTA
*
1049912 TGCATTATTTGAATGCAACATTGACTATACTC
1 TGCATTATCTGAATGCAACATTGACTATACTC
* * * * ** *
1049944 TGCATTATCTGAATACAACACTAACTCTGTTG
1 TGCATTATCTGAATGCAACATTGACTATACTC
1049976 TGCATTATCTGAATGCAACATTGA
1 TGCATTATCTGAATGCAACATTGA
1050000 ATTTGTTGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (32 bp):
TGCATTATCTGAATGCAACATTGACTATACTC
Found at i:1050007 original size:32 final size:32
Alignment explanation
Indices: 1049912--1050012 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
1049902 GACACTCCTA
* * ** *
1049912 TGCATTATTTGAATGCAACATTGACTATACTC
1 TGCATTATCTGAATGCAACATTGAATATGTTG
* * *
1049944 TGCATTATCTGAATACAACACT-AACTCTGTTG
1 TGCATTATCTGAATGCAACATTGAA-TATGTTG
*
1049976 TGCATTATCTGAATGCAACATTGAATTTGTTG
1 TGCATTATCTGAATGCAACATTGAATATGTTG
*
1050008 GGCAT
1 TGCAT
1050013 CATGGTGTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
31 1 0.02
32 52 0.95
33 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (32 bp):
TGCATTATCTGAATGCAACATTGAATATGTTG
Found at i:1051002 original size:21 final size:21
Alignment explanation
Indices: 1050977--1051031 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1050967 CTCTACTTGT
1050977 AGTATCGATACCCTGAGGTCA
1 AGTATCGATACCCTGAGGTCA
1050998 AGTATCGATACCCTGAGGTCA
1 AGTATCGATACCCTGAGGTCA
*
1051019 AGTATCAATACCC
1 AGTATCGATACCC
1051032 CTATGAGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTATCGATACCCTGAGGTCA
Found at i:1054495 original size:13 final size:13
Alignment explanation
Indices: 1054477--1054501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1054467 AGCAAAAATT
1054477 AAAATTAGATAAA
1 AAAATTAGATAAA
1054490 AAAATTAGATAA
1 AAAATTAGATAA
1054502 TCAATCCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAATTAGATAAA
Done.