Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008985.1 Hibiscus syriacus cultivar Beakdansim tig00112349_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: 1528252
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 6 of 9
Found at i:960241 original size:19 final size:19
Alignment explanation
Indices: 960186--960241 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
960176 ACGGGTCGTG
*
960186 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
960205 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
960225 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
960242 TCCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:962917 original size:24 final size:24
Alignment explanation
Indices: 962887--962935 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
962877 AGCACTCTTC
962887 CCTATTGTTCTTATTATAGTTGTT
1 CCTATTGTTCTTATTATAGTTGTT
962911 CCTATTGTTCTTATTATAGTTGTT
1 CCTATTGTTCTTATTATAGTTGTT
962935 C
1 C
962936 TTGCAGGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.57
Consensus pattern (24 bp):
CCTATTGTTCTTATTATAGTTGTT
Found at i:964848 original size:27 final size:27
Alignment explanation
Indices: 964807--964861 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
964797 TCCATTTCCG
964807 GTGTACATCTCTGTTTCAAGAGTAAAT
1 GTGTACATCTCTGTTTCAAGAGTAAAT
*
964834 GTGTACATCTTTGTTTCAAGAGTAAAT
1 GTGTACATCTCTGTTTCAAGAGTAAAT
964861 G
1 G
964862 ACATTCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (27 bp):
GTGTACATCTCTGTTTCAAGAGTAAAT
Found at i:965312 original size:39 final size:39
Alignment explanation
Indices: 965269--965352 Score: 143
Period size: 39 Copynumber: 2.1 Consensus size: 39
965259 AAATCCTACC
965269 TCTTTCAATGAAAATTTCAGTT-GAGTTCCATCTGCATA
1 TCTTTCAATGAAAATTTCAGTTAGAGTTCCATCTGCATA
965307 TTCTTTCAATGAAAATTTCAGTTAAGAGTTCCATCTGCATA
1 -TCTTTCAATGAAAATTTCAGTT-AGAGTTCCATCTGCATA
965348 TCTTT
1 TCTTT
965353 ATCAAGGGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
39 22 0.51
40 5 0.12
41 16 0.37
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (39 bp):
TCTTTCAATGAAAATTTCAGTTAGAGTTCCATCTGCATA
Found at i:969547 original size:12 final size:13
Alignment explanation
Indices: 969509--969554 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
969499 GGTAATCCCT
*
969509 GCCCCGATTACCC
1 GCCCCGATTATCC
969522 GCCCCGATTATCC
1 GCCCCGATTATCC
969535 GCCCCGA-TATCC
1 GCCCCGATTATCC
*
969547 GACCCGAT
1 GCCCCGAT
969555 AAATATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (13 bp):
GCCCCGATTATCC
Found at i:969655 original size:31 final size:31
Alignment explanation
Indices: 969582--969655 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
969572 ATTTATATAT
969582 ATATATATATAATATTAATAAATTTAATTTAA
1 ATATATATAT-ATATTAATAAATTTAATTTAA
* * * *
969614 ATAAAAATATATATTTATATATTTAATTTAA
1 ATATATATATATATTAATAAATTTAATTTAA
969645 ATATATATATA
1 ATATATATATA
969656 CCCGGCCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 28 0.78
32 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATATATATATATTAATAAATTTAATTTAA
Found at i:969688 original size:12 final size:12
Alignment explanation
Indices: 969653--969707 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
969643 AAATATATAT
969653 ATACCCGGCCCA
1 ATACCCGGCCCA
* *
969665 ATTCTCGGCCCA
1 ATACCCGGCCCA
*
969677 ATACCCGACCCA
1 ATACCCGGCCCA
*
969689 ATACCTGGCCCA
1 ATACCCGGCCCA
969701 ATACCCG
1 ATACCCG
969708 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.45, G:0.15, T:0.15
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:974490 original size:15 final size:15
Alignment explanation
Indices: 974470--974506 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
974460 TCACTTGCAC
974470 TTCTTTTTTGGATTT
1 TTCTTTTTTGGATTT
974485 TTC-TTTTTGGATTT
1 TTCTTTTTTGGATTT
974499 TTCTTTTT
1 TTCTTTTT
974507 GTTGTTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.05, C:0.08, G:0.11, T:0.76
Consensus pattern (15 bp):
TTCTTTTTTGGATTT
Found at i:974493 original size:14 final size:14
Alignment explanation
Indices: 974474--974507 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
974464 TTGCACTTCT
974474 TTTTTGGATTTTTC
1 TTTTTGGATTTTTC
974488 TTTTTGGATTTTTC
1 TTTTTGGATTTTTC
974502 TTTTTG
1 TTTTTG
974508 TTGTTGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.06, C:0.06, G:0.15, T:0.74
Consensus pattern (14 bp):
TTTTTGGATTTTTC
Found at i:979687 original size:2 final size:2
Alignment explanation
Indices: 979680--979709 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
979670 TAAAATAAAC
979680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
979710 CAAAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:980151 original size:39 final size:39
Alignment explanation
Indices: 980108--980211 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 39
980098 GGAGTCCGTG
*
980108 GTAAGGTCTTATCTTGTGCACAAAGCAAATGAG-CATGCA
1 GTAAGGTCTTATCTTGTGCACAAAGCAAAGGAGAC-TGCA
* * *
980147 GTAAGGTCTTATCATGTGCACAAAGTAGAGGAGACTGCA
1 GTAAGGTCTTATCTTGTGCACAAAGCAAAGGAGACTGCA
* * * *
980186 GTAAGGACTTACCTTGGGCATAAAGC
1 GTAAGGTCTTATCTTGTGCACAAAGC
980212 CGAGGAGCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (39 bp):
GTAAGGTCTTATCTTGTGCACAAAGCAAAGGAGACTGCA
Found at i:980211 original size:78 final size:78
Alignment explanation
Indices: 980067--980211 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
980057 CATGTACACC
* * * ** * * *
980067 CAGTAAGGGCTTACCCTGTGCACAAAGTTGAGGAGTCCGTGGTAAGGTCTTATCTTGTGCACAAA
1 CAGTAAGGGCTTACCATGTGCACAAAGTAGAGGAGACCGCAGTAAGGACTTACCTTGGGCACAAA
980132 GCAAATGAGCATG
66 GCAAATGAGCATG
* * * *
980145 CAGTAAGGTCTTATCATGTGCACAAAGTAGAGGAGACTGCAGTAAGGACTTACCTTGGGCATAAA
1 CAGTAAGGGCTTACCATGTGCACAAAGTAGAGGAGACCGCAGTAAGGACTTACCTTGGGCACAAA
980210 GC
66 GC
980212 CGAGGAGCCT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (78 bp):
CAGTAAGGGCTTACCATGTGCACAAAGTAGAGGAGACCGCAGTAAGGACTTACCTTGGGCACAAA
GCAAATGAGCATG
Found at i:980217 original size:39 final size:39
Alignment explanation
Indices: 980164--980268 Score: 120
Period size: 39 Copynumber: 2.7 Consensus size: 39
980154 CTTATCATGT
** * * ** *
980164 GCACAAAGTAGAGGAGACTGCAGTAAGGACTTACCTTGG
1 GCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCCCGA
* * *
980203 GCATAAAGCCGAGGAGCCTACGGAAAGGACTTACCCCGA
1 GCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCCCGA
980242 GCACAAAGCCGAGGAGCCTGCGGTAAG
1 GCACAAAGCCGAGGAGCCTGCGGTAAG
980269 CAATATGGTC
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.32, C:0.24, G:0.31, T:0.12
Consensus pattern (39 bp):
GCACAAAGCCGAGGAGCCTGCGGTAAGGACTTACCCCGA
Found at i:985917 original size:19 final size:19
Alignment explanation
Indices: 985893--985931 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
985883 ATTACCGTGG
985893 ATTATAAATCGAAAGTAAC
1 ATTATAAATCGAAAGTAAC
985912 ATTATAAATCGAAAGTAAC
1 ATTATAAATCGAAAGTAAC
985931 A
1 A
985932 GTAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (19 bp):
ATTATAAATCGAAAGTAAC
Found at i:986670 original size:16 final size:17
Alignment explanation
Indices: 986633--986684 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
986623 ATGTCTTTCC
*
986633 TAATTTTAATCTTATTA
1 TAATTTTAATATTATTA
*
986650 -CATTTTAATATT-TTA
1 TAATTTTAATATTATTA
986665 TAATTTT-ATATTATTA
1 TAATTTTAATATTATTA
986681 TAAT
1 TAAT
986685 ACATTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTTAATATTATTA
Found at i:987077 original size:19 final size:17
Alignment explanation
Indices: 987042--987074 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
987032 AAACAAACGT
987042 TATAAAAAAATAAATAA
1 TATAAAAAAATAAATAA
*
987059 TATAAAAAAATCAATA
1 TATAAAAAAATAAATA
987075 TAAATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
TATAAAAAAATAAATAA
Found at i:987542 original size:22 final size:20
Alignment explanation
Indices: 987517--987562 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
987507 TATTATACTT
*
987517 TTATTTTAATAATATATAATA
1 TTATTTTAATAAGAT-TAATA
987538 --ATTATTAATAAGATTAATA
1 TTATT-TTAATAAGATTAATA
987557 TTATTT
1 TTATTT
987563 ATTAATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATTTTAATAAGATTAATA
Found at i:989111 original size:21 final size:20
Alignment explanation
Indices: 989062--989113 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
989052 CTCATTTAAG
989062 AAGTATCGATACTCGGGGTCC
1 AAGTATCGATACTCGGGG-CC
989083 AA-TATCGATACTCAGAGGG-C
1 AAGTATCGATACTC-G-GGGCC
989103 AAGTATCGATA
1 AAGTATCGATA
989114 TTAGAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 14 0.50
21 11 0.39
22 3 0.11
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (20 bp):
AAGTATCGATACTCGGGGCC
Found at i:989996 original size:64 final size:64
Alignment explanation
Indices: 989922--990076 Score: 197
Period size: 64 Copynumber: 2.4 Consensus size: 64
989912 ACACCCTATT
* * *
989922 TCGAATGCATTTTGTGTATCGATGCACA-ACCATGCATCGATCCAATCTTGG-TTTTATTGAAAC
1 TCGAATGCATTTTGTGTA-CGATGCACAGACCATGCATCGATACAATCCTGGCTCTT-TTGAAAC
989985 A
64 A
* *
989986 TCGAATGCATTTTGTGTACCATGCACAGACCATGCATCGATACACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTGTGTACGATGCACAGACCATGCATCGATACAATCCTGGCTCTTTTGAAACA
* * *
990050 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTA-CGATGCAC
990077 CCTAATTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
63 8 0.10
64 61 0.77
65 10 0.13
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACGATGCACAGACCATGCATCGATACAATCCTGGCTCTTTTGAAACA
Found at i:991547 original size:21 final size:21
Alignment explanation
Indices: 991506--991548 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
991496 GTAGACCTCG
* *
991506 AAAAGACGGACGAGATAAAGA
1 AAAAGACGGACGAAAAAAAGA
991527 AAAAGACGGA-GAAAAAGAAGA
1 AAAAGACGGACGAAAAA-AAGA
991548 A
1 A
991549 CGTTGGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.63, C:0.07, G:0.28, T:0.02
Consensus pattern (21 bp):
AAAAGACGGACGAAAAAAAGA
Found at i:995923 original size:44 final size:44
Alignment explanation
Indices: 995855--995946 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 44
995845 TATACATTAG
*
995855 TACACTATGAAAGTGTACCAATGCATCCCTTGAATATGCACCGA
1 TACACTATGAAAGTGCACCAATGCATCCCTTGAATATGCACCGA
* * * * * *
995899 TACACTATGAAGGTGCATCGATGCATGCCTTGAATGTGCATCGA
1 TACACTATGAAAGTGCACCAATGCATCCCTTGAATATGCACCGA
995943 TACA
1 TACA
995947 TTTTGCAGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
TACACTATGAAAGTGCACCAATGCATCCCTTGAATATGCACCGA
Found at i:997911 original size:22 final size:22
Alignment explanation
Indices: 997867--997913 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
997857 TTGGATTGAT
**
997867 TTTGGATGTTTGAATATGGATG
1 TTTGGATGTTTGAATATAAATG
997889 TTTGGATGTTTGAACT-TAAATG
1 TTTGGATGTTTGAA-TATAAATG
997911 TTT
1 TTT
997914 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (22 bp):
TTTGGATGTTTGAATATAAATG
Found at i:998186 original size:13 final size:13
Alignment explanation
Indices: 998164--998197 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
998154 AGGGGAAGTA
*
998164 ATTTTCAAAATTG
1 ATTTTCAAAAATG
998177 A-TTTCAAAAATG
1 ATTTTCAAAAATG
998189 ATTTTCAAA
1 ATTTTCAAA
998198 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:998645 original size:65 final size:64
Alignment explanation
Indices: 998518--998673 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 64
998508 ACACCCTATT
* * * *
998518 TCGAATGCATTTTGTGTACCGATGCATAACCATGCATCGATCCACTCTTGATTTTATTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATACACTCTGGATCTTATTGAAACA
* *
998582 TCGAATGCATTTTGTGTACCAATGCACAGACCATGCATCGATACACTCCTGGCTCTT-TTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACA-ACCATGCATCGATACACT-CTGGATCTTATTGAAAC
998646 A
64 A
* * * *
998647 TTGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
998674 CCCAAGTGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 26 0.33
65 47 0.59
66 6 0.08
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATACACTCTGGATCTTATTGAAACA
Found at i:1001221 original size:21 final size:23
Alignment explanation
Indices: 1001186--1001228 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1001176 AATATATAAT
*
1001186 TTTATATATTTAAAT-TTTAAAA
1 TTTATATATTAAAATCTTTAAAA
1001208 TTTA-ATATTAAAATCTTTAAA
1 TTTATATATTAAAATCTTTAAA
1001229 TTTTTTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTATATATTAAAATCTTTAAAA
Found at i:1005079 original size:15 final size:16
Alignment explanation
Indices: 1005057--1005104 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
1005047 CAAGCCTATA
1005057 AAAT-ATATATAAT-T
1 AAATAATATATAATAT
1005071 AAATAATAT-TAATAT
1 AAATAATATATAATAT
*
1005086 TAATAATA-ATAATAAT
1 AAATAATATATAAT-AT
1005102 AAA
1 AAA
1005105 ATATTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
15 16 0.57
16 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATATATAATAT
Found at i:1005589 original size:111 final size:111
Alignment explanation
Indices: 1005238--1005605 Score: 439
Period size: 111 Copynumber: 3.4 Consensus size: 111
1005228 GAAATATGAT
* * * * * * *
1005238 GAGGGATCTGTTCCGCTAT--TATTCAGGGAATATCAGATTTGGGGATGTTGGTTTATTGAATCA
1 GAGGGATCTGTTCCGCT-TCCT-TTGAGGGAATATCAGATCTGAGAAAGTTGATTCATTGAATCA
* *
1005301 GGGTAGAATTGTTCTGCTGTCACTTAGGGAATATTAAATCTTGAAAAA
64 GGGTAGAATTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAA
* * * *
1005349 GAGGAATCTGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTCATTGAATTAGG
1 GAGGGATCTGTTCCGCTTCCTTTGAGGGAATATCAGATCTGAGAAAGTTGATTCATTGAATCAGG
* ** *
1005414 GTAGACTTGTTC--C-GT-TGTC---GAATATCAAATCTTGAAAGA
66 GTAGAATTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAA
* *
1005453 GAGGGATCTGTTCCGCTTCCTTTGAGGGAATATTAGATCTGAGAAAGTTGATTCATTGAATCGGG
1 GAGGGATCTGTTCCGCTTCCTTTGAGGGAATATCAGATCTGAGAAAGTTGATTCATTGAATCAGG
* *
1005518 GCAGATTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAA
66 GTAGAATTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAA
* * *
1005564 GAGGGATATGTTCCGTTTTCTTTGAGGGAATATCAGATCTGA
1 GAGGGATCTGTTCCGCTTCCTTTGAGGGAATATCAGATCTGA
1005606 ATTTGCTTCA
Statistics
Matches: 218, Mismatches: 30, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
104 87 0.40
106 1 0.00
107 3 0.01
108 4 0.02
109 1 0.00
110 1 0.00
111 120 0.55
112 1 0.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (111 bp):
GAGGGATCTGTTCCGCTTCCTTTGAGGGAATATCAGATCTGAGAAAGTTGATTCATTGAATCAGG
GTAGAATTGTTCTGCTGTCACTCAGGGAATATCAAATCTTGAAAAA
Found at i:1005647 original size:37 final size:37
Alignment explanation
Indices: 1005606--1005679 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
1005596 TCAGATCTGA
* **
1005606 ATTTGCTTCATTACTCTTTTGTGAAGGCTTAAGATTG
1 ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTG
*
1005643 ATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATTG
1 ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTG
1005680 CCCGGAGGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (37 bp):
ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTG
Found at i:1005743 original size:42 final size:42
Alignment explanation
Indices: 1005717--1005902 Score: 318
Period size: 42 Copynumber: 4.4 Consensus size: 42
1005707 AAGGCTTAAA
*
1005717 GATGACCCGAAGTATTTAAGCATCATGCTCGGAAGACTAACT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
1005759 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
* *
1005801 GATGACACGAAGGATTTAAGCATCATGCTCGGAAGACTTACT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
* *
1005843 GATGACCCGGAGGATTTAAGCATCATGCTCGGAAGACTTACT
1 GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
*
1005885 GATGACCTGAAGGATTTA
1 GATGACCCGAAGGATTTA
1005903 TAAATTTTGG
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 137 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (42 bp):
GATGACCCGAAGGATTTAAGCATCATGCTCGGAAGACTAACT
Found at i:1011305 original size:19 final size:18
Alignment explanation
Indices: 1011269--1011306 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1011259 TTTCAACTTT
1011269 ATAAAATATTATTTTAAA
1 ATAAAATATTATTTTAAA
1011287 ATAAATATATT-TTTGTAAA
1 ATAAA-ATATTATTT-TAAA
1011306 A
1 A
1011307 AACTAGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATATTATTTTAAA
Found at i:1011339 original size:2 final size:2
Alignment explanation
Indices: 1011332--1011384 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1011322 TTTAGTTTAC
1011332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1011374 AT AT AT AT AT A
1 AT AT AT AT AT A
1011385 AACTTTCAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1015299 original size:61 final size:61
Alignment explanation
Indices: 1015234--1015349 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
1015224 ACTGCAGGAA
* * * * *
1015234 GGTGGATACGATCTTATGTATCATGTCCGGATTAGCACTATAGTGTAAGCTTAGTTTAGGT
1 GGTGGACACGACCTTATGTATAATATCCGGATTAGCACTATAGCGTAAGCTTAGTTTAGGT
* * *
1015295 GGTGGGCACGACCTTATGTGTAATATCCGGATTAGCACTATGGCGTAAGCTTAGT
1 GGTGGACACGACCTTATGTATAATATCCGGATTAGCACTATAGCGTAAGCTTAGT
1015350 GCATGTTTAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (61 bp):
GGTGGACACGACCTTATGTATAATATCCGGATTAGCACTATAGCGTAAGCTTAGTTTAGGT
Found at i:1015781 original size:47 final size:47
Alignment explanation
Indices: 1015718--1015818 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 47
1015708 CTGTTATGGT
1015718 AAAAATAAGCTTACGAGCTTATGGAAT-AATAACAAGTATATTGGTAA
1 AAAAATAAGCTTACGAGCTTATGGAATAAATAACAAGTATATTGG-AA
*
1015765 AAAAATAAGCTTACGAGCTTATGGAATAAATGACAAGTATATTGGAA
1 AAAAATAAGCTTACGAGCTTATGGAATAAATAACAAGTATATTGGAA
1015812 AGAAAAT
1 A-AAAAT
1015819 TTATATTCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 30 0.59
48 21 0.41
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (47 bp):
AAAAATAAGCTTACGAGCTTATGGAATAAATAACAAGTATATTGGAA
Found at i:1017703 original size:19 final size:19
Alignment explanation
Indices: 1017681--1017742 Score: 124
Period size: 19 Copynumber: 3.3 Consensus size: 19
1017671 AAATCTATGA
1017681 AAGTATACACAATCGATGC
1 AAGTATACACAATCGATGC
1017700 AAGTATACACAATCGATGC
1 AAGTATACACAATCGATGC
1017719 AAGTATACACAATCGATGC
1 AAGTATACACAATCGATGC
1017738 AAGTA
1 AAGTA
1017743 ATATAGTAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (19 bp):
AAGTATACACAATCGATGC
Found at i:1020053 original size:3 final size:3
Alignment explanation
Indices: 1020045--1020069 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1020035 TTTTTCGAGG
1020045 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1020070 TGTTCAGATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1020904 original size:24 final size:23
Alignment explanation
Indices: 1020863--1020918 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
1020853 TTTTTTGTTG
* **
1020863 TTTTTACTAATTTTATTATTTTTA
1 TTTTTA-TTATTTTATTAAGTTTA
1020887 TTTTTATTATTTTAATTAAGTTTA
1 TTTTTATTATTTT-ATTAAGTTTA
*
1020911 TTATTATT
1 TTTTTATT
1020919 TTAACTTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTTTATTATTTTATTAAGTTTA
Found at i:1029021 original size:133 final size:129
Alignment explanation
Indices: 1028798--1029168 Score: 410
Period size: 128 Copynumber: 2.8 Consensus size: 129
1028788 ACCTCAATTC
1028798 AATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGAGAAATAGGTCCCTGTCCCTCT
1 AATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGAGAAATA--TCCC--T--CTC-
* *
1028863 TTTCCAAGATTTGATATTCCCTGAGTAACAGCAGAACAAGTCTACCCCGATCCAATCTTTCCTGA
59 TTTCCAAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATCCAATCTTCCCTGA
1028928 GTGACAGT
124 GTGAC--T
* * *
1028936 GGAATGGATTAAC-CCTCCAGATCTGATATTCCCTTCAGAAAAAGCAGAATATATCCCTCTCTTT
1 --AATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAG-AGAA-ATATCCCTCTCTTT
* * * * *
1029000 -CAAGATTTGATATTCCCTGAGTAATAGCGGAATAAGTCTGCCCTGATTCAATCTTCCCTGAGTG
62 CCAAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATCCAATCTTCCCTGAGTG
1029064 ACT
127 ACT
* * * * *
1029067 --TGGATCAACTCCCCCAGATATAATTTTCCCTTCAGAAGAAGTGGAACATGTCCCTCT-TTTCC
1 AATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAG-AGAA-ATATCCCTCTCTTTCC
* * *
1029129 AAGATTTGATATTCCATGAGTGACAGTGGAACAAGTCTAC
64 AAGATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTAC
1029169 ATCGATTCAA
Statistics
Matches: 201, Mismatches: 26, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
127 11 0.05
128 73 0.36
131 1 0.00
133 59 0.29
134 3 0.01
135 3 0.01
137 1 0.00
139 33 0.16
140 14 0.07
141 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (129 bp):
AATGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGAGAAATATCCCTCTCTTTCCAA
GATTTGATATTCCCTGAGTAACAGCGGAACAAGTCTACCCCGATCCAATCTTCCCTGAGTGACT
Found at i:1029276 original size:111 final size:111
Alignment explanation
Indices: 1029067--1029520 Score: 493
Period size: 111 Copynumber: 4.0 Consensus size: 111
1029057 CTGAGTGACT
* * *
1029067 TGGATCAACTCCCCCAGATATAATTTTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAG
1 TGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAG
* *
1029132 ATTTGATATTCCATGAGTGACAGTGGAACAAGTCTACATCGATTCAA
66 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTAC-TCGATTCAA
*
1029179 TGGATCAACT-CCCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTATTTTCCAAG
1 TGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAG
* * * * *
1029243 ATTTAATATTCCCTGAGTGATAGCGGAATAAGTCTGTCTTGATTCAA
66 ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT-ACTCGATTCAA
* * * *
1029290 TGGATCTATATTCCCCCAAATCTGATATTCCCTTTAGAAGAAGTGGAACATGTCTCTCTTTTCCA
1 TGGATC-A-ACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCA
* * *
1029355 AGATTTGATATTCCCTGAGTGACAGCGAAACAAGTCTACCCCGATCCACA
64 AGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTA-CTCGATTCA-A
* * * * * * * *
1029405 -AG-TCAAACATCAAGTCCAAGATCTTATATTCCCTTCAG-AGAAAGCGCAACAGGTCTCTCTTT
1 TGGATC-AAC-TC---CCCCAGATCTGATATTCCCTTCAGAAG-AAGTGGAACATGTCCCTCTTT
* * * *
1029467 TCCAAGATTTGATATTCCCTAAGTTACAGTGGAACAAGTCTACCCTGATTCAA
60 TCCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACTC-GATTCAA
1029520 T
1 T
1029521 CTTCCCTAAG
Statistics
Matches: 289, Mismatches: 40, Indels: 22
0.82 0.11 0.06
Matches are distributed among these distances:
111 94 0.33
112 13 0.04
113 7 0.02
114 88 0.30
115 7 0.02
116 80 0.28
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (111 bp):
TGGATCAACTCCCCCAGATCTGATATTCCCTTCAGAAGAAGTGGAACATGTCCCTCTTTTCCAAG
ATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACTCGATTCAA
Found at i:1030118 original size:45 final size:45
Alignment explanation
Indices: 1030028--1030196 Score: 241
Period size: 45 Copynumber: 3.7 Consensus size: 45
1030018 CCTCCATTCA
* * * *
1030028 TGTTTATAACGCA-CCATTATGCACTTTAAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGTATACTTTTC
*
1030074 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATAATTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
*
1030119 TGTTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* *
1030164 TGTTGATAATGTACCCATATACATTTCAACTAT
1 TGTTGATAATGCACCCATATGCATTTCAACTAT
1030197 GACATCATTT
Statistics
Matches: 114, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
45 94 0.82
46 17 0.15
47 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
Found at i:1030219 original size:90 final size:90
Alignment explanation
Indices: 1030045--1030233 Score: 247
Period size: 90 Copynumber: 2.1 Consensus size: 90
1030035 AACGCACCAT
* *
1030045 TATGCACTTTAAACTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGT
1 TATGCA-TTTAAACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGC
* ** *
1030110 ATAATTTTCTGTTGATAATGTACCCA
65 ATAATTTTATGTCCATAATGCACCCA
* * *
1030136 TATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTAT-GAC
1 TATGCATTTAAACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAG-C
*
1030200 ATCATTTTATG-CCACTAATGCACCCA
65 ATAATTTTATGTCCA-TAATGCACCCA
1030226 TATGCATT
1 TATGCATT
1030234 AGTATTTTCA
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
89 2 0.02
90 78 0.91
91 6 0.07
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (90 bp):
TATGCATTTAAACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGCA
TAATTTTATGTCCATAATGCACCCA
Found at i:1030762 original size:20 final size:21
Alignment explanation
Indices: 1030737--1030789 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
1030727 AAAGTTTCTC
*
1030737 GGTATCGATAC-ACTTACCAT
1 GGTATCGATACAACCTACCAT
*
1030757 GGTATCGATACTAACCTACTAT
1 GGTATCGATAC-AACCTACCAT
1030779 GGTATCGATAC
1 GGTATCGATAC
1030790 CGTAAGGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
GGTATCGATACAACCTACCAT
Found at i:1030904 original size:96 final size:95
Alignment explanation
Indices: 1030704--1030883 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 95
1030694 CTTCCTCCTG
* *
1030704 GTATCGATACCATAATTAGGTTCAAAGTTTCTCGGTATCGATACACTTACCATGGTATCGATACT
1 GTATCGATACCAAAATTAGATTCAAAGTTTCTCGGTATCGATACACTTACCATGGTATCGATACT
* * *
1030769 AACCTACTATGGTATCGATACCGTAAGGGG
66 AACCTACAACGGTATCGATACCGTAAGGGA
* * * * *
1030799 GTATCGATACCAAAATTATATTCGATGTTTGCTTGGTATCGATACCCTTACCATGGTATCGATA-
1 GTATCGATACCAAAATTAGATTCAAAGTTT-CTCGGTATCGATACACTTACCATGGTATCGATAC
**
1030863 TTGCCT-CAACGGTATCGATAC
65 TAACCTACAACGGTATCGATAC
1030884 GGATTGAATT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
94 13 0.18
95 29 0.40
96 31 0.42
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (95 bp):
GTATCGATACCAAAATTAGATTCAAAGTTTCTCGGTATCGATACACTTACCATGGTATCGATACT
AACCTACAACGGTATCGATACCGTAAGGGA
Found at i:1037183 original size:45 final size:45
Alignment explanation
Indices: 1036869--1037172 Score: 405
Period size: 45 Copynumber: 6.7 Consensus size: 45
1036859 CCTCCATTCA
* * * *
1036869 TATTTATAATGCACCAATATGCACTTTAAACTATA-TCATACTTTTC
1 TATTGATAATGTACCCATATGCA-TTTCAACTATAGT-ATACTTTTC
* *
1036915 TGTTGATAAT-TCACCCATATGTATTTCAACTATAGTATACTTTTC
1 TATTGATAATGT-ACCCATATGCATTTCAACTATAGTATACTTTTC
* * *
1036960 TATTGATAATGTACCTATATACATTTCAACTATAGTATACGTTTC
1 TATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
* **
1037005 TGTTGATAATGTACCCATATATATTTCAACTATAGTATACTTTTC
1 TATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
*
1037050 TATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
* * *
1037095 TATTGAAAATGTACACATATACATTTCAACTATAGTATACTTTTC
1 TATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
* *
1037140 TGTTGGTAATGTACCCATATGCATTTCAACTAT
1 TATTGATAATGTACCCATATGCATTTCAACTAT
1037173 GACATCCTTT
Statistics
Matches: 227, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
45 208 0.92
46 19 0.08
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (45 bp):
TATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTC
Found at i:1037183 original size:135 final size:135
Alignment explanation
Indices: 1036874--1037172 Score: 456
Period size: 135 Copynumber: 2.2 Consensus size: 135
1036864 ATTCATATTT
* * * * * * *
1036874 ATAATGCACCAATATGCACTTTAAACTATATCATACTTTTCTGTTGATAATTCACCCATATGTAT
1 ATAATGTACCCATATGCA-TTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATATGCAT
*
1036939 TTCAACTATAGTATACTTTTCTATTGATAATGTACCTATATACATTTCAACTATAGTATACGTTT
65 TTCAACTATAGTATACTTTTCTATTGAAAATGTACCTATATACATTTCAACTATAGTATACGTTT
1037004 CTGTTG
130 CTGTTG
** *
1037010 ATAATGTACCCATATATATTTCAACTATAGTATACTTTTCTATTGATAATGCACCCATATGCATT
1 ATAATGTACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATATGCATT
*
1037075 TCAACTATAGTATACTTTTCTATTGAAAATGTACAC-ATATACATTTCAACTATAGTATACTTTT
66 TCAACTATAGTATACTTTTCTATTGAAAATGTAC-CTATATACATTTCAACTATAGTATACGTTT
1037139 CTGTTG
130 CTGTTG
*
1037145 GTAATGTACCCATATGCATTTCAACTAT
1 ATAATGTACCCATATGCATTTCAACTAT
1037173 GACATCCTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
135 132 0.90
136 15 0.10
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (135 bp):
ATAATGTACCCATATGCATTTCAACTATAGCATACTTTTCTATTGATAATGCACCCATATGCATT
TCAACTATAGTATACTTTTCTATTGAAAATGTACCTATATACATTTCAACTATAGTATACGTTTC
TGTTG
Found at i:1037194 original size:135 final size:135
Alignment explanation
Indices: 1036920--1037209 Score: 413
Period size: 135 Copynumber: 2.1 Consensus size: 135
1036910 TTTTCTGTTG
* * *
1036920 ATAATTCACCCATATGTATTTCAACTATAGTATACTTTTCTATTGATAATGTACCTATATACATT
1 ATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTATTGAAAATGTACCTATATACATT
* * *
1036985 TCAACTATAGTATACGTTTCTGTTGATAATGTACCCATATATATTTCAACTATAGTATACTTTTC
66 TCAACTATAGTATACGTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCATACTTTTA
***
1037050 TATTG
131 TACCA
*
1037055 ATAATGCACCCATATGCATTTCAACTATAGTATACTTTTCTATTGAAAATGTACAC-ATATACAT
1 ATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTATTGAAAATGTAC-CTATATACAT
* * * *
1037119 TTCAACTATAGTATACTTTTCTGTTGGTAATGTACCCATATGCATTTCAACTAT-GACATCCTTT
65 TTCAACTATAGTATACGTTTCTGTTGATAATGTACCCATATACATTTCAACTATAG-CATACTTT
*
1037183 TATGCCA
129 TATACCA
1037190 ATAATACACCCATATGCATT
1 ATAATACACCCATATGCATT
1037210 AGTATTTTGA
Statistics
Matches: 138, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
134 1 0.01
135 136 0.99
136 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (135 bp):
ATAATACACCCATATGCATTTCAACTATAGTATACTTTTCTATTGAAAATGTACCTATATACATT
TCAACTATAGTATACGTTTCTGTTGATAATGTACCCATATACATTTCAACTATAGCATACTTTTA
TACCA
Found at i:1037204 original size:90 final size:88
Alignment explanation
Indices: 1036920--1037209 Score: 316
Period size: 90 Copynumber: 3.2 Consensus size: 88
1036910 TTTTCTGTTG
* ** * *
1036920 ATAATTCACCCATATGTATTTCAACTATAGTATACTTTTCTATTGATAATGTACCTATATACATT
1 ATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATT
* *
1036985 TCAACTATAGTATACGTTTCTGTTG-
66 TCAACTATAGTAT-CCTTT-T-ATGA
* * *
1037010 ATAATGTACCCATATATATTTCAACTATAGTATACTTTTCTATTGATAATGCACCCATATGCATT
1 ATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATT
*
1037075 TCAACTATAGTATACTTTTCTATTGA
66 TCAACTATAGTAT-CCTTT-TA-TGA
* * * *
1037101 A-AATGTACACATATACATTTCAACTATAGTATACTTTTCTGTTGGTAATGTACCCATATGCATT
1 ATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATT
*
1037165 TCAACTAT-GACATCCTTTTATGCCA
66 TCAACTATAG-TATCCTTTTATG--A
* *
1037190 ATAATACACCCATATGCATT
1 ATAATGCACCCATATACATT
1037210 AGTATTTTGA
Statistics
Matches: 175, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
89 7 0.04
90 163 0.93
91 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (88 bp):
ATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTATTGATAATGTACCCATATGCATT
TCAACTATAGTATCCTTTTATGA
Found at i:1037837 original size:20 final size:21
Alignment explanation
Indices: 1037808--1037857 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
1037798 CCTTACCATG
*
1037808 GTATCAATATTGCA-TCAATC-
1 GTATCGATATTG-ATTCAATCA
*
1037828 GTATCGATATTGATTGAATCA
1 GTATCGATATTGATTCAATCA
1037849 GTATCGATA
1 GTATCGATA
1037858 CTATCCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (21 bp):
GTATCGATATTGATTCAATCA
Found at i:1038414 original size:13 final size:14
Alignment explanation
Indices: 1038389--1038417 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1038379 TAAAACGCTC
1038389 ATCATTATACATTT
1 ATCATTATACATTT
1038403 ATCATT-TACATTT
1 ATCATTATACATTT
1038416 AT
1 AT
1038418 ACGTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (14 bp):
ATCATTATACATTT
Found at i:1044422 original size:12 final size:12
Alignment explanation
Indices: 1044407--1044431 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1044397 ATAAACAGTG
1044407 ATGAACAGTACC
1 ATGAACAGTACC
1044419 ATGAACAGTACC
1 ATGAACAGTACC
1044431 A
1 A
1044432 AGATGTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:1044499 original size:21 final size:22
Alignment explanation
Indices: 1044461--1044504 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
1044451 AATGTTGGAG
1044461 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGATTCCCCTGCTACA
1044483 GGGAACCGATT-CCCTGCTACA
1 GGGAACCGATTCCCCTGCTACA
1044504 G
1 G
1044505 TACCTCAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCTGCTACA
Found at i:1047035 original size:20 final size:20
Alignment explanation
Indices: 1047010--1047188 Score: 125
Period size: 20 Copynumber: 8.8 Consensus size: 20
1047000 ATGCGAAACA
*
1047010 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* * *
1047030 AAAATCGCAATGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
1047050 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
1047070 AAAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
*
1047091 AAGAATCGCAATGCGATTCAA-
1 AA-AATCGCAACGCGATT-AAG
* *
1047112 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTAAG
*
1047132 AAAATCGCAACGCGATTCCAG
1 AAAATCGCAACGCGATT-AAG
* * *
1047153 -GAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTAAG
1047172 AAAATCGCAACGCGATT
1 AAAATCGCAACGCGATT
1047189 CCAAGAATCG
Statistics
Matches: 125, Mismatches: 23, Indels: 22
0.74 0.14 0.13
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 98 0.78
21 9 0.07
22 14 0.11
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:1047148 original size:40 final size:40
Alignment explanation
Indices: 1047094--1047201 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
1047084 ATCTTCCAAG
* *
1047094 AATCGCAATGCGATTCAAAGAATCGCAACGCGATTGAGAA
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAA
* *
1047134 AATCGCAACGCGATTCCAGGAATCGCAATGCGATTGAGAA
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAA
1047174 AATCGCAACGCGATTCCAAGAATCGCAA
1 AATCGCAACGCGATTCCAAGAATCGCAA
1047202 AACGGCAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAA
Found at i:1047180 original size:60 final size:61
Alignment explanation
Indices: 1047068--1047188 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 61
1047058 AACGGTCAAA
1047068 AGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
1 AGAAAATCGCAACGCGA-CTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
* *
1047130 AGAAAATCGCAACGCGA-TTCCAGGAATCGCAATGCGATTGAGAA-AATCGCAACGCGATT
1 AGAAAATCGCAACGCGACTTCCAAGAATCGCAATGCGATTCA-AAGAATCGCAACGCGATT
1047189 CCAAGAATCG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 37 0.66
61 2 0.04
62 17 0.30
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (61 bp):
AGAAAATCGCAACGCGACTTCCAAGAATCGCAATGCGATTCAAAGAATCGCAACGCGATTG
Found at i:1047197 original size:20 final size:20
Alignment explanation
Indices: 1047072--1047201 Score: 138
Period size: 20 Copynumber: 6.4 Consensus size: 20
1047062 GTCAAAAGAA
1047072 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
* *
1047094 AATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* *
1047114 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
1047134 AATCGCAACGCGATTCCAGG
1 AATCGCAACGCGATTCCAAG
* * *
1047154 AATCGCAATGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
1047174 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
1047194 AATCGCAA
1 AATCGCAA
1047202 AACGGCAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.02
20 73 0.82
21 2 0.02
22 12 0.13
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:1048036 original size:20 final size:20
Alignment explanation
Indices: 1048011--1048282 Score: 266
Period size: 20 Copynumber: 13.4 Consensus size: 20
1048001 TTTTGCCGTT
*
1048011 TTGCGATTCTTGGAATCGCA
1 TTGCGATTCTTGGAATCGCG
**
1048031 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
** *
1048051 TTGCGATT-TTCTCAATCACG
1 TTGCGATTCTT-GGAATCGCG
1048071 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
1048091 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
*
1048111 TTGCGATTATTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
**
1048131 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GGAATCGCG
*
1048151 TTGCGATTATTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
*
1048171 TTGCGATTATTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
* *
1048191 TTGCGATTCTTCGAAGATCGCA
1 TTGCGATTCTT-GGA-ATCGCG
*
1048213 TTGCGATTCTTGGAATCGCA
1 TTGCGATTCTTGGAATCGCG
* *
1048233 TTGCGATTCTTTGG-CTCGCA
1 TTGCGATTC-TTGGAATCGCG
1048253 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGG-A-ATCGCG
1048275 TTGCGATT
1 TTGCGATT
1048283 TTCTTTTGAC
Statistics
Matches: 218, Mismatches: 22, Indels: 22
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.05
20 166 0.76
21 14 0.06
22 28 0.13
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:1048257 original size:62 final size:62
Alignment explanation
Indices: 1048071--1048282 Score: 238
Period size: 62 Copynumber: 3.5 Consensus size: 62
1048061 CTCAATCACG
* ** * *
1048071 TTGCGATTCTT-GGA-ATCGCGTTGCGATT-TTCTCAATCGCGTTGCGATTATTGGAATCGCG
1 TTGCGATTCTTCGAAGATCGCGTTGCGATTATT-GGAATCGCATTGCGATTATTGGAATCGCA
** * *
1048131 TTGCGATT-TTCTCA-ATCGCGTTGCGATTATTGGAATCGCGTTGCGATTATTGGAATCGCG
1 TTGCGATTCTTCGAAGATCGCGTTGCGATTATTGGAATCGCATTGCGATTATTGGAATCGCA
* * * *
1048191 TTGCGATTCTTCGAAGATCGCATTGCGATTCTTGGAATCGCATTGCGATTCTTTGG-CTCGCA
1 TTGCGATTCTTCGAAGATCGCGTTGCGATTATTGGAATCGCATTGCGATT-ATTGGAATCGCA
*
1048253 TTGCGATTCTTGGAAGATCGCGTTGCGATT
1 TTGCGATTCTTCGAAGATCGCGTTGCGATT
1048283 TTCTTTTGAC
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
59 2 0.02
60 58 0.44
61 6 0.05
62 63 0.47
63 4 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.36
Consensus pattern (62 bp):
TTGCGATTCTTCGAAGATCGCGTTGCGATTATTGGAATCGCATTGCGATTATTGGAATCGCA
Found at i:1048298 original size:20 final size:20
Alignment explanation
Indices: 1048273--1048326 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1048263 TGGAAGATCG
* *
1048273 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
1048293 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
1048313 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
1048327 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:1048336 original size:20 final size:20
Alignment explanation
Indices: 1048313--1048363 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1048303 TTCTTTTCAA
**
1048313 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGGAATCG
1048333 CGTTGCGATTTT--GATATCG
1 CGTTGCGATTTTCGGA-ATCG
1048352 CGTTGCGATTTT
1 CGTTGCGATTTT
1048364 GTTGGTCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.03
19 16 0.55
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGGAATCG
Found at i:1048944 original size:13 final size:13
Alignment explanation
Indices: 1048906--1048947 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1048896 AACACTCAAA
1048906 ATATTATTTT-AT
1 ATATTATTTTAAT
*
1048918 ATATTTACTATTAAT
1 ATA-TTA-TTTTAAT
1048933 ATATTATTTTAAT
1 ATATTATTTTAAT
1048946 AT
1 AT
1048948 CATTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 6 0.24
15 5 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATTTTAAT
Found at i:1049819 original size:25 final size:26
Alignment explanation
Indices: 1049789--1049848 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
1049779 ATACTTTTAA
* *
1049789 TAAATTAAAAT-AAATTATATATTTT
1 TAAATTAAAATAAAATAAAATATTTT
1049814 TAAATTAAAATAAAAATAAAATATTTT
1 TAAATTAAAAT-AAAATAAAATATTTT
1049841 TAAATTAA
1 TAAATTAA
1049849 GCTAATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 11 0.35
27 20 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAATTAAAATAAAATAAAATATTTT
Found at i:1049860 original size:27 final size:27
Alignment explanation
Indices: 1049807--1049924 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 27
1049797 AATAAATTAT
* * *
1049807 ATATTTTTAAATTAAAATAAAAATAAA
1 ATATTTTTAAATTAAACTAATAGTAAA
*
1049834 ATATTTTTAAATTAAGCTAATAGTAAA
1 ATATTTTTAAATTAAACTAATAGTAAA
* * ***** *
1049861 ATATATATAATATGCTTTTAATAGTCAA
1 ATATTTTTAA-ATTAAACTAATAGTAAA
* *
1049889 CTATTTTTAAATTAAATTAATAGTAAA
1 ATATTTTTAAATTAAACTAATAGTAAA
1049916 ATATATTTT
1 ATAT-TTTT
1049925 TAAAAATAAA
Statistics
Matches: 68, Mismatches: 21, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
27 46 0.68
28 22 0.32
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (27 bp):
ATATTTTTAAATTAAACTAATAGTAAA
Found at i:1049949 original size:18 final size:18
Alignment explanation
Indices: 1049922--1049956 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1049912 TAAAATATAT
1049922 TTTTAAAAA-TAAAATAC
1 TTTTAAAAATTAAAATAC
1049939 TTTTAATAAATTAAAATA
1 TTTTAA-AAATTAAAATA
1049957 AATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTTAAAAATTAAAATAC
Found at i:1057883 original size:7 final size:7
Alignment explanation
Indices: 1057863--1057905 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
1057853 AAAATTATAT
1057863 AATTTTA
1 AATTTTA
*
1057870 TATTTTTA
1 -AATTTTA
1057878 AATTTTA
1 AATTTTA
1057885 AATTTTA
1 AATTTTA
1057892 AATTTTTA
1 AA-TTTTA
1057900 AATTTT
1 AATTTT
1057906 TTTACAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
7 19 0.59
8 13 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
AATTTTA
Found at i:1057883 original size:15 final size:14
Alignment explanation
Indices: 1057863--1057905 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
1057853 AAAATTATAT
*
1057863 AATTTTATATTTTTA
1 AATTTTA-AATTTTA
1057878 AATTTTAAATTTTA
1 AATTTTAAATTTTA
1057892 AATTTTTAAATTTT
1 AA-TTTTAAATTTT
1057906 TTTACAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTAAATTTTA
Found at i:1057906 original size:8 final size:8
Alignment explanation
Indices: 1057865--1057906 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
1057855 AATTATATAA
*
1057865 TTTTATAT
1 TTTTAAAT
1057873 TTTTAAA-
1 TTTTAAAT
1057880 TTTTAAA-
1 TTTTAAAT
1057887 TTTTAAAT
1 TTTTAAAT
1057895 TTTTAAAT
1 TTTTAAAT
1057903 TTTT
1 TTTT
1057907 TTACAAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 14 0.44
8 18 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTAAAT
Found at i:1063175 original size:24 final size:24
Alignment explanation
Indices: 1063148--1063195 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1063138 ATTGTTGGAA
1063148 AATGTCAAAATTGGTGGGCAATTT
1 AATGTCAAAATTGGTGGGCAATTT
1063172 AATGTCAAAATTGGTGGGCAATTT
1 AATGTCAAAATTGGTGGGCAATTT
1063196 CGGTGGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (24 bp):
AATGTCAAAATTGGTGGGCAATTT
Found at i:1063931 original size:18 final size:18
Alignment explanation
Indices: 1063878--1063932 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
1063868 AGGATTGGTT
1063878 AAGGAATAAAAGAAAAGGAG
1 AAGGAATAAAAGAAAA--AG
* **
1063898 AAGG--TAAAGGCTAAAG
1 AAGGAATAAAAGAAAAAG
1063914 AAGGAATAAAAGAAAAAG
1 AAGGAATAAAAGAAAAAG
1063932 A
1 A
1063933 CAAGGTCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 6 0.22
18 17 0.63
20 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.27, T:0.07
Consensus pattern (18 bp):
AAGGAATAAAAGAAAAAG
Found at i:1063950 original size:36 final size:36
Alignment explanation
Indices: 1063878--1063951 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
1063868 AGGATTGGTT
* * * *
1063878 AAGGAATAAAAGAAAAGGAGAAGGTAAAGGCTAAAG
1 AAGGAATAAAAGAAAAAGACAAGGTAAACGCAAAAG
*
1063914 AAGGAATAAAAGAAAAAGACAAGGTCAACGCAAAAG
1 AAGGAATAAAAGAAAAAGACAAGGTAAACGCAAAAG
1063950 AA
1 AA
1063952 AACTAAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.61, C:0.07, G:0.26, T:0.07
Consensus pattern (36 bp):
AAGGAATAAAAGAAAAAGACAAGGTAAACGCAAAAG
Found at i:1066816 original size:11 final size:11
Alignment explanation
Indices: 1066800--1066836 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1066790 CGGTTGTAGA
1066800 AAGAAAGGGAG
1 AAGAAAGGGAG
1066811 AAGAAA-GGA-
1 AAGAAAGGGAG
1066820 AAGGAAAGGGAG
1 AA-GAAAGGGAG
1066832 AAGAA
1 AAGAA
1066837 GGGCCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.09
10 7 0.30
11 12 0.52
12 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (11 bp):
AAGAAAGGGAG
Found at i:1066827 original size:21 final size:20
Alignment explanation
Indices: 1066798--1066836 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1066788 TTCGGTTGTA
1066798 GAAAGAAAGGGAGAAGAAAG
1 GAAAGAAAGGGAGAAGAAAG
1066818 GAAAGGAAAGGGAGAAGAA
1 GAAA-GAAAGGGAGAAGAA
1066837 GGGCCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGGGAGAAGAAAG
Found at i:1067176 original size:35 final size:35
Alignment explanation
Indices: 1067129--1067199 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
1067119 TGAAGTTATA
* * *
1067129 ATATATATAAAAATTAGTCAACTAGTTTTTTAGTT
1 ATATATAAAAAAAATAGTCAACTAGTTTGTTAGTT
* * *
1067164 ATATATAAAAAAAATATTTAATTAGTTTGTTAGTT
1 ATATATAAAAAAAATAGTCAACTAGTTTGTTAGTT
1067199 A
1 A
1067200 AATAGTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (35 bp):
ATATATAAAAAAAATAGTCAACTAGTTTGTTAGTT
Found at i:1067524 original size:79 final size:76
Alignment explanation
Indices: 1067350--1067525 Score: 178
Period size: 79 Copynumber: 2.3 Consensus size: 76
1067340 TTAAGGGCAA
* **
1067350 AATTTA-C-GTTTAAGTTATATTTTAAAAAATTTAGTTTGTTAGTTTATTAGTTTATTATATTAT
1 AATTTATCAGTTTAAGTTATATTTTAAAAAATTTAATTAATTAGTTTATTAGTTTATTATATTAT
** *
1067413 AAGTTATTATAT
66 AAG-TAAAAAAT
* ** * *
1067425 AATTTTTTTGTTGAATTTATATTATATAAAAAATTTAATTAATTAGTTTATTAGTTTTAGTTATA
1 AATTTATCAGTTTAAGTTATATT-T-TAAAAAATTTAATTAATTAGTTTATTAG-TTTA-TTATA
1067490 TTATAA-TAAAAAAT
62 TTATAAGTAAAAAAT
*
1067504 AGTTTATCAGTTTAAGTTATAT
1 AATTTATCAGTTTAAGTTATAT
1067526 AAAAGAATAG
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
75 5 0.06
77 12 0.15
78 1 0.01
79 46 0.58
80 4 0.05
81 11 0.14
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.53
Consensus pattern (76 bp):
AATTTATCAGTTTAAGTTATATTTTAAAAAATTTAATTAATTAGTTTATTAGTTTATTATATTAT
AAGTAAAAAAT
Found at i:1067650 original size:16 final size:16
Alignment explanation
Indices: 1067617--1067662 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1067607 TTTTAAAAAA
*
1067617 ATTAGTTTGTTA-ATTT
1 ATTAGTTTATTATA-TT
1067633 ATTAGTTTATTATATT
1 ATTAGTTTATTATATT
*
1067649 A-TAATTTATTATAT
1 ATTAGTTTATTATAT
1067663 AAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 12 0.44
16 14 0.52
17 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (16 bp):
ATTAGTTTATTATATT
Found at i:1070136 original size:24 final size:24
Alignment explanation
Indices: 1070109--1070176 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
1070099 TTTAAATATT
*
1070109 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATTATTATTAG
* *
1070133 TAATTATTA-TAATTTTATTATTAG
1 TAATCATTATTAA-ATTATTATTAG
1070157 TAATCATTATTAAATTATTA
1 TAATCATTATTAAATTATTA
1070177 GTATCAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.08
24 31 0.84
25 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (24 bp):
TAATCATTATTAAATTATTATTAG
Found at i:1070140 original size:21 final size:21
Alignment explanation
Indices: 1070114--1070179 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
1070104 ATATTTAATC
1070114 ATTATTAAATAATTATTAGTA
1 ATTATTAAATAATTATTAGTA
*
1070135 ATTATTATAATTTTATTATTAGTA
1 ATTATTA-AA--TAATTATTAGTA
* *
1070159 ATCATT-ATTAAATTATTAGTA
1 ATTATTAAAT-AATTATTAGTA
1070180 TCAAATCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.03
21 17 0.46
22 3 0.08
24 16 0.43
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
ATTATTAAATAATTATTAGTA
Found at i:1070196 original size:21 final size:22
Alignment explanation
Indices: 1070165--1070211 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1070155 AGTAATCATT
*
1070165 ATTAAATTATTAGT-ATCAAATC
1 ATTAAATTATTAATAAT-AAATC
1070187 ATTAAA-TATTAATAATAAATC
1 ATTAAATTATTAATAATAAATC
1070208 ATTA
1 ATTA
1070212 TTAGTAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTAAATTATTAATAATAAATC
Found at i:1070606 original size:12 final size:12
Alignment explanation
Indices: 1070589--1070623 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1070579 CTACGACTAG
1070589 AAAGCTAAGTTA
1 AAAGCTAAGTTA
* *
1070601 AAAGCTAATTTG
1 AAAGCTAAGTTA
1070613 AAAGCTAAGTT
1 AAAGCTAAGTT
1070624 GTTTCAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.29
Consensus pattern (12 bp):
AAAGCTAAGTTA
Found at i:1071978 original size:23 final size:23
Alignment explanation
Indices: 1071943--1071990 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1071933 ATCAAGTATA
*
1071943 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
1071966 ATAATGTAATAGGTAGTGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
1071989 AT
1 AT
1071991 TGACATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1073014 original size:21 final size:20
Alignment explanation
Indices: 1072928--1073085 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1072918 AAATGACCAA
**
1072928 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1072947 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1072967 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1072987 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1073008 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1073029 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
1073049 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1073070 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1073086 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1073095 original size:20 final size:20
Alignment explanation
Indices: 1073053--1073245 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
1073043 GATTTTCCAG
* ** *
1073053 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1073073 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
1073093 AATTGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1073113 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1073133 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1073153 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1073173 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1073193 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
1073214 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1073234 AATCGCAACGCG
1 AATCGCAACGCG
1073246 ATTTTTAAAG
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 127 0.86
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1073661 original size:33 final size:33
Alignment explanation
Indices: 1073623--1073693 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1073613 TTCACTTAGA
*
1073623 TTTCATTTTGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1073656 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1073689 TTTCA
1 TTTCA
1073694 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1073799 original size:21 final size:21
Alignment explanation
Indices: 1073773--1073849 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1073763 TGCAGAAGAG
1073773 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
* **
1073794 TCGCAACGTGA-AAATGACTA
1 TCGCAACGAGAGAAATGAAAA
*
1073814 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAGAGAAATGAAAA
1073836 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1073850 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.19
21 29 0.62
22 9 0.19
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:1073853 original size:14 final size:14
Alignment explanation
Indices: 1073834--1073890 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1073824 GAAAAATGAA
1073834 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1073848 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1073867 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1073881 AAACGCAACG
1 AATCGCAACG
1073891 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.25, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1073865 original size:33 final size:33
Alignment explanation
Indices: 1073827--1073906 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1073817 GCAACGAGAA
*
1073827 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAAACGCAACGCG
1073860 AAATGAAAATCGCAACGAGAGAAACGCAACGCG
1 AAATGAAAATCGCAACGAGAGAAACGCAACGCG
**
1073893 AAACCAAAATCGCA
1 AAATGAAAATCGCA
1073907 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.07
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAAACGCAACGCG
Found at i:1073924 original size:19 final size:19
Alignment explanation
Indices: 1073902--1074029 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
1073892 GAAACCAAAA
*
1073902 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1073921 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1073935 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1073954 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1073968 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
1073988 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
1074008 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1074028 TC
1 TC
1074030 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1073943 original size:14 final size:14
Alignment explanation
Indices: 1073924--1073980 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1073914 TTTCATTTCG
1073924 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1073938 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1073957 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1073971 CGTTGCGATT
1 CGTTGCGATT
1073981 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1073949 original size:33 final size:33
Alignment explanation
Indices: 1073907--1074029 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1073897 CAAAATCGCA
1073907 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1073940 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1073973 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
1074014 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1074030 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1073991 original size:21 final size:21
Alignment explanation
Indices: 1073965--1074029 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1073955 CGCGTTGCGA
1073965 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1073986 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1074006 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
1074027 TTC
1 TTC
1074030 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1075884 original size:92 final size:93
Alignment explanation
Indices: 1075713--1075934 Score: 428
Period size: 92 Copynumber: 2.4 Consensus size: 93
1075703 TAGATTGCTT
*
1075713 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1075778 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1075806 AGTAAATTTGTTC-GTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1075870 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1075898 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1075935 AATACCCTGA
Statistics
Matches: 127, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
92 92 0.72
93 35 0.28
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1076069 original size:14 final size:14
Alignment explanation
Indices: 1076050--1076106 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1076040 CGAAACTTAA
1076050 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1076064 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
1076083 AATCGCAACGACAG
1 AATCGCAACGAGAG
1076097 AATCGCAACG
1 AATCGCAACG
1076107 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1076088 original size:19 final size:18
Alignment explanation
Indices: 1076064--1076155 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
1076054 GCAACGAGAG
1076064 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
1076083 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
1076097 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
1076116 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
1076130 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
1076149 AATCGCA
1 AATCGCA
1076156 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:1076090 original size:33 final size:33
Alignment explanation
Indices: 1076032--1076155 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
1076022 TAGTTTACTT
* * *
1076032 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
1076066 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
1076099 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
1076132 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
1076156 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:1076132 original size:14 final size:14
Alignment explanation
Indices: 1076081--1076139 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1076071 ACGCGAAATG
1076081 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1076095 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
1076114 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1076128 AAAATCGCAACG
1 AAAATCGCAACG
1076140 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1076173 original size:19 final size:19
Alignment explanation
Indices: 1076151--1076323 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
1076141 GAAACCAAAA
*
1076151 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1076170 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1076184 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1076203 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1076219 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1076236 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
1076255 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
1076274 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
1076293 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1076313 TCGTGTTGCGA
1 TCGCGTTGCGA
1076324 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1076192 original size:14 final size:14
Alignment explanation
Indices: 1076173--1076229 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1076163 TTTCATTTCG
1076173 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1076187 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
1076204 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
1076220 CGTTGCGATT
1 CGTTGCGATT
1076230 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1076281 original size:38 final size:38
Alignment explanation
Indices: 1076151--1076323 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
1076141 GAAACCAAAA
*
1076151 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1076186 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
1076219 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
1076255 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
1076293 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
1076324 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:1078263 original size:14 final size:14
Alignment explanation
Indices: 1078244--1078279 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1078234 ATTGTTTAAT
1078244 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1078258 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1078272 TGATTTGT
1 TGATTTGT
1078280 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1078401 original size:19 final size:19
Alignment explanation
Indices: 1078385--1078482 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
1078375 AAAAATGACT
1078385 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1078404 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1078423 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
1078437 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1078456 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1078476 ATCGCAA
1 ATCGCAA
1078483 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 9 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 38 0.55
20 16 0.23
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1078514 original size:53 final size:53
Alignment explanation
Indices: 1078389--1078501 Score: 210
Period size: 53 Copynumber: 2.2 Consensus size: 53
1078379 ATGACTATCG
1078389 CAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
*
1078441 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCG
1 CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
1078494 CAATGCGA
1 CAATGCGA
1078502 TTTTCATTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 25 0.42
53 34 0.58
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (53 bp):
CAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCA
Found at i:1078560 original size:53 final size:53
Alignment explanation
Indices: 1078497--1078700 Score: 383
Period size: 53 Copynumber: 3.9 Consensus size: 53
1078487 AGAATCGCAA
*
1078497 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGC
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1078550 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1078603 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
1078656 TGCGATTTTCATTTCGCATTGCAATTTTCATTT-CGCATTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATT
1078701 TTCATTTCCG
Statistics
Matches: 149, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 12 0.08
53 137 0.92
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:1078583 original size:72 final size:73
Alignment explanation
Indices: 1078492--1078753 Score: 275
Period size: 72 Copynumber: 3.7 Consensus size: 73
1078482 ACGAGAGAAT
* *
1078492 CGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGA-TTC-TCTCGC-TGCG
1 CGCATTGCGATTTTCATTTCG--TTGCGATTTTCATTT-CGCATTGCGATTTCATTTCGCATGCG
1078554 ATTTTCATTT-
63 ATTTTCATTTC
*
1078564 CGCATTGCGATTTTCATTTCCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTG
1 CGCATTGCGATTTTCATTT-CG--TTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCA-TG
1078624 CGATTTTCATTTC
61 CGATTTTCATTTC
* *
1078637 CGCATTGCGA--TTC-TCTCGTTGCGATTTTCATTTCGCATTGCAATTTTCATTTCGCATTGCGA
1 CGCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGA-TTTCATTTCGCA-TGCGA
1078699 TTTTCATTTC
64 TTTTCATTTC
*
1078709 CGCATTGCGATTTTCA--T-GTTGGGATTTTCATTTCGCATTGCGATT
1 CGCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGATT
1078754 GTAATTTCCG
Statistics
Matches: 167, Mismatches: 8, Indels: 31
0.81 0.04 0.15
Matches are distributed among these distances:
67 12 0.07
69 10 0.06
70 13 0.08
71 8 0.05
72 100 0.60
73 21 0.13
74 3 0.02
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (73 bp):
CGCATTGCGATTTTCATTTCGTTGCGATTTTCATTTCGCATTGCGATTTCATTTCGCATGCGATT
TTCATTTC
Found at i:1078735 original size:106 final size:104
Alignment explanation
Indices: 1078497--1078753 Score: 353
Period size: 106 Copynumber: 2.4 Consensus size: 104
1078487 AGAATCGCAA
1078497 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGCTGCGATTTTCAT
1 TGCGATTTTCA-TTCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGCTGCGATTTTCAT
*
1078562 TTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
64 TTCGCATTGCAATTTTCATTTCCGCATTGCGATTCTCTCGT
*
1078603 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCA-TTCG-ATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGCTGCGATTTTCAT
*
1078668 TTCGCATTGCAATTTTCATTT-CGCATTGCGATTTTCATTTCCGCAT
64 TTCGCATTGCAATTTTCATTTCCGCATTGCGA--TTC-TCT-CG--T
*
1078714 TGCGATTTTCA-T-G-TTGGGATTTTCATTT-CGCATTGCGATT
1 TGCGATTTTCATTCGATTGCGATTTTCATTTCCGCATTGCGATT
1078754 GTAATTTCCG
Statistics
Matches: 141, Mismatches: 4, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
105 22 0.16
106 98 0.70
107 3 0.02
108 3 0.02
109 3 0.02
111 12 0.09
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (104 bp):
TGCGATTTTCATTCGATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGCTGCGATTTTCATTT
CGCATTGCAATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:1078761 original size:72 final size:72
Alignment explanation
Indices: 1078519--1078753 Score: 281
Period size: 72 Copynumber: 3.3 Consensus size: 72
1078509 TTCGCATTGC
*
1078519 GATTTTCATTTCCGCATTGCGA--TTC-TCTCGC--TGCGATTTTCATTT-CGCATTGCGATTTT
1 GATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTT
*
1078578 CAT-TTCCG
65 CATGTT-GG
* * * * *
1078586 CA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTC
1 GATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTT
*
1078650 TC-TCGTTGC
64 TCAT-GTTGG
*
1078659 GATTTTCATTTCGCATTGCAATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1078724 ATGTTGG
66 ATGTTGG
1078731 GATTTTCATTTCGCATTGCGATT
1 GATTTTCATTTCGCATTGCGATT
1078754 GTAATTTCCG
Statistics
Matches: 140, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
66 3 0.02
67 12 0.09
68 1 0.01
69 3 0.02
70 5 0.04
72 92 0.66
73 19 0.14
74 5 0.04
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (72 bp):
GATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC
ATGTTGG
Found at i:1081052 original size:12 final size:12
Alignment explanation
Indices: 1081035--1081059 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1081025 TCTTCGGGGA
1081035 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1081047 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1081059 C
1 C
1081060 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1081266 original size:24 final size:24
Alignment explanation
Indices: 1081232--1081278 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1081222 TCTGAACATC
1081232 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1081256 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1081279 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1081998 original size:20 final size:20
Alignment explanation
Indices: 1081983--1082198 Score: 202
Period size: 20 Copynumber: 10.8 Consensus size: 20
1081973 GTGATTTATA
*
1081983 GATTCTCGTTGCGATTTACG
1 GATTCGCGTTGCGATTTACG
** *
1082003 GATTATCGTTGCGATTTACA
1 GATTCGCGTTGCGATTTACG
*
1082023 GATTCTCGTTGCGATTTACG
1 GATTCGCGTTGCGATTTACG
**
1082043 GATTATCGTTGCGATTTACG
1 GATTCGCGTTGCGATTTACG
* *
1082063 GATACGCGTTGCGATATACG
1 GATTCGCGTTGCGATTTACG
* * *
1082083 GATACGCATTGCGGTTTACG
1 GATTCGCGTTGCGATTTACG
* *
1082103 GATACGCGTTGCGATTTATG
1 GATTCGCGTTGCGATTTACG
* *
1082123 TG-TTCGCGTTGCGATTTTCA
1 -GATTCGCGTTGCGATTTACG
* *
1082143 TATTCGCGTTGCGATTTATG
1 GATTCGCGTTGCGATTTACG
* * *
1082163 TG-TTCACGTTGCGATTTTCA
1 -GATTCGCGTTGCGATTTACG
*
1082183 TATTCGCGTTGCGATT
1 GATTCGCGTTGCGATT
1082199 CTGGAAAATC
Statistics
Matches: 162, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (20 bp):
GATTCGCGTTGCGATTTACG
Found at i:1082751 original size:112 final size:112
Alignment explanation
Indices: 1082504--1082965 Score: 757
Period size: 112 Copynumber: 4.1 Consensus size: 112
1082494 GATACTTATA
* *
1082504 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
1082569 TTTGTCA-TTTTTTACCTGTTTTATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
*
1082615 ATAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
1082680 TTTGTCATTTTTTTACATGTTATATTATTATGGGTCGATACATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
*
1082727 ATAAAGTATCGACACTTTTAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
1082792 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATAGATACATTTTT
66 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
** *
1082839 A-AAGAGTATCGACACTTTCAATATATCTAGTAGCGCTTTACCTATTTTGTCATTTATAGACCGG
1 ATAA-AGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGG
* *
1082903 TTTTGTCATTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
65 TTTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
*
1082951 ATAAAGTATTGACAC
1 ATAAAGTATCGACAC
1082966 AAACCGATAA
Statistics
Matches: 327, Mismatches: 21, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
111 71 0.22
112 254 0.78
113 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACTTGTTATATTGTTATGGATCGATACATTTTT
Found at i:1083640 original size:23 final size:23
Alignment explanation
Indices: 1083605--1083652 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1083595 ATCAAGTGCA
*
1083605 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
1083628 ATAATGTAATAGGTAGCGTTTAT
1 ATAATATAATAGGTAGCGCTTAT
1083651 AT
1 AT
1083653 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:1084544 original size:182 final size:182
Alignment explanation
Indices: 1084039--1084859 Score: 1426
Period size: 182 Copynumber: 4.5 Consensus size: 182
1084029 ACTTTTTTAC
* * * *
1084039 TACCGGTTTTGTTATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
*
1084104 TACATTTTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
*
1084169 TATCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
1084221 TACCGGTTTTGTCATTTCGAGACCGGTTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
1 TACCGGTTTTGTCATTTCGAGACCGG-TTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
* *
1084286 ATACACTTTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTTTCTTTTAAATTCCAAAA
65 ATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAA
* * *
1084351 ATGTTGATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCTCTT
130 GTGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
* * *
1084404 TACAGGTTTTGTCATTTTGGGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
*
1084469 TACATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
*
1084534 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCTGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
*
1084586 TACCGGTTTTGTCATTTCGAGACCGGTTTTATAATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
1084651 TACATTTTTATAAAATATCGACACTTTATTGGCACTATAACTTATTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
1084716 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
131 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
* * *
1084768 TACCGGTTTTGTCATTTCGAGACCGATTTTATCATATTTTTACTTGTTATATTGTTATGGATTGA
1 TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
1084833 TACATTTTTATAAAGTATCGACACTTT
66 TACATTTTTATAAAGTATCGACACTTT
1084860 CAATATATCC
Statistics
Matches: 603, Mismatches: 35, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
182 432 0.72
183 171 0.28
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
Found at i:1084929 original size:20 final size:20
Alignment explanation
Indices: 1084878--1084929 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
1084868 CCGGTAGCGC
*
1084878 TTTACCTGTTTTGTCATTTA
1 TTTACCTGTTTTGTAATTTA
** *
1084898 TAGACC-GATTTTGTAATTTT
1 TTTACCTG-TTTTGTAATTTA
1084918 TTTACCTGTTTT
1 TTTACCTGTTTT
1084930 ATTGTTATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.17, C:0.13, G:0.12, T:0.58
Consensus pattern (20 bp):
TTTACCTGTTTTGTAATTTA
Found at i:1084933 original size:112 final size:112
Alignment explanation
Indices: 1084730--1085301 Score: 880
Period size: 112 Copynumber: 5.1 Consensus size: 112
1084720 GATACTTATA
* * * * **
1084730 ATAAAGTATCGACACTATCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATTTCGAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * * *
1084795 TTTATCATATTTTTACTTGTTATATTGTTATGGATTGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1084842 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
1084907 TTTGTAATTTTTTTACCTGTTTTATTGTTATGGATCGATACAATTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* *
1084954 ATAAAGTATCGACACTTTCAATATATCCGGTAGAGTTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1085019 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * ** *
1085066 ATAAAGTATCGACACATTCAATATATCTGGTAGAACTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
*
1085131 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATAGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * *
1085177 ATAATGTATCGACATTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* *
1085242 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATC-A-ATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1085287 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
1085302 AAACCGACAA
Statistics
Matches: 423, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
110 20 0.05
111 104 0.25
112 299 0.71
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:1087299 original size:66 final size:61
Alignment explanation
Indices: 1087176--1087315 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 61
1087166 TAAGTTGTTC
* * * *
1087176 TTGTTGAATGAAACAATGTTTACTTTATTTTAGGTAGTGGGATGTGATAGATTAGAAATAA
1 TTGTTGAATGAAACAATGTTTACTTTATGTTAGGAAGTCGGATGTGATAGATCAGAAATAA
*
1087237 TTGTTGAATGAAACAATGTTTGTCGGCTTTTATGTTAGGAAGTCGGATGTGATAGATCAGAAATA
1 TTGTTGAATGAAACAATG-TT-T--AC-TTTATGTTAGGAAGTCGGATGTGATAGATCAGAAATA
1087302 A
61 A
1087303 TTGTTGAATGAAA
1 TTGTTGAATGAAA
1087316 GTCACATGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
61 18 0.26
62 2 0.03
63 1 0.01
65 1 0.01
66 47 0.68
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (61 bp):
TTGTTGAATGAAACAATGTTTACTTTATGTTAGGAAGTCGGATGTGATAGATCAGAAATAA
Found at i:1087400 original size:16 final size:18
Alignment explanation
Indices: 1087378--1087420 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
1087368 TTCGACTATT
*
1087378 TATAAATAAT-AATAAGA
1 TATAAATAATAAATAAAA
1087395 TA-AAAT-ATAAATAAAA
1 TATAAATAATAAATAAAA
1087411 TATAAATAAT
1 TATAAATAAT
1087421 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 6 0.27
18 2 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAATAATAAATAAAA
Found at i:1087408 original size:11 final size:11
Alignment explanation
Indices: 1087378--1087419 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
1087368 TTCGACTATT
1087378 TATAAATAATAA
1 TATAAATAA-AA
*
1087390 TA-AGATAAAA
1 TATAAATAAAA
1087400 TATAAATAAAA
1 TATAAATAAAA
1087411 TATAAATAA
1 TATAAATAA
1087420 TTTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 4 0.15
11 21 0.78
12 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
TATAAATAAAA
Found at i:1090516 original size:65 final size:64
Alignment explanation
Indices: 1090430--1090575 Score: 156
Period size: 65 Copynumber: 2.3 Consensus size: 64
1090420 GATCGATTAT
* * *
1090430 TAAT-ATTACTAATAATGATTTA-ATAATTATTAATAATCTA-AT-GATTTGATATTTAATGATT
1 TAATGATTACTAATAATGATTTATATAAATATT--TAAT-TATATGGATTTAATA-CTAATGATT
1090491 TAG
62 TAG
* * *
1090494 TAATGATTACTAATAATTATTTATTATAAATATTTAATTATTTGGATTTAATACTAATTATTTAG
1 TAATGATTACTAATAATGATTTA-TATAAATATTTAATTATATGGATTTAATACTAATGATTTAG
*
1090559 TAATGACTACTAATAAT
1 TAATGATTACTAATAAT
1090576 AATGATTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
64 6 0.09
65 48 0.69
66 8 0.11
67 8 0.11
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (64 bp):
TAATGATTACTAATAATGATTTATATAAATATTTAATTATATGGATTTAATACTAATGATTTAG
Found at i:1090731 original size:19 final size:19
Alignment explanation
Indices: 1090707--1090764 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
1090697 CTAATATAAA
*
1090707 TTAAACAAAAGATTTTTTT
1 TTAAACAAAATATTTTTTT
** *
1090726 TTAAACAACAATAAATATTT
1 TTAAACAA-AATATTTTTTT
1090746 TTAAACAAAATATTTTTTT
1 TTAAACAAAATATTTTTTT
1090765 AAATAGGAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAACAAAATATTTTTTT
Found at i:1091220 original size:49 final size:49
Alignment explanation
Indices: 1091165--1091289 Score: 132
Period size: 49 Copynumber: 2.5 Consensus size: 49
1091155 GTTTAAACAC
*
1091165 ACTAACAAACTAATTAAATAATTTTTAAA-TAATATAA-TATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTAAACTAACA-AACTA-ATAACTTAA
* * *
1091214 ACTAACAAACTAATATAATATAA--CTTAAACTAGCAAACTAATAATTTAA
1 ACTAACAAACTAAT-TAA-ATAATTTTTAAACTAACAAACTAATAACTTAA
*
1091263 ACTAACAAACTAATTAACTAAATTTTT
1 ACTAACAAACTAATTAAAT-AATTTTT
1091290 GTTTTACCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
47 1 0.02
48 5 0.08
49 43 0.68
50 10 0.16
51 4 0.06
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.34
Consensus pattern (49 bp):
ACTAACAAACTAATTAAATAATTTTTAAACTAACAAACTAATAACTTAA
Found at i:1091242 original size:28 final size:30
Alignment explanation
Indices: 1091194--1091256 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
1091184 AATTTTTAAA
1091194 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
*
1091224 TAATAT-A-ATATAACTTAAACTAGCAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
1091252 TAATA
1 TAATA
1091257 ATTTAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:1091262 original size:21 final size:21
Alignment explanation
Indices: 1091233--1091281 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1091223 CTAATATAAT
*
1091233 ATAACTTAAACTAGCAAACTA
1 ATAACTTAAACTAACAAACTA
*
1091254 ATAATTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
1091275 ATTAACT
1 A-TAACT
1091282 AAATTTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:1091284 original size:21 final size:21
Alignment explanation
Indices: 1091229--1091284 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1091219 CAAACTAATA
*
1091229 TAATATAACTTAAACTAGCAAAC
1 TAAT-TAAC-TAAACTAACAAAC
*
1091252 TAA-TAATTTAAACTAACAAAC
1 TAATTAA-CTAAACTAACAAAC
1091273 TAATTAACTAAA
1 TAATTAACTAAA
1091285 TTTTTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 22 0.79
22 3 0.11
23 3 0.11
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATTAACTAAACTAACAAAC
Done.