Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 29
Found at i:3036181 original size:3 final size:3
Alignment explanation
Indices: 3036168--3036229 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
3036158 GTAATTATTT
3036168 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA TATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
3036213 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
3036230 TTAAAATGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3036437 original size:45 final size:45
Alignment explanation
Indices: 3036383--3037006 Score: 822
Period size: 45 Copynumber: 14.1 Consensus size: 45
3036373 GGTCTTAAGA
* * * **
3036383 ATGACCCGAAGGTTTTGAAAACATCCTGCACTGTAGGTCTTATGG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * * *
3036428 ATGAACCGAAGGCTTTGAAAACATCTTGCACTGAAGGTCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * *
3036473 ATAACCCGAAGGCTTTGAAAACATCATGCACTGTAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * *
3036518 ATGACCCAAAGGTTTTGAAAACATCATGCACGGAAGGACTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * *
3036563 ATGACTCGAAGGCTTTAAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
3036608 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* *
3036653 ATGACCCGAAGGCTTTGAAAACATCATGCACTGCAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
3036698 ATAACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
** * *
3036743 ATGACCCGAAGGTTTTGAAAACATCA---A---AA----AAAAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * *
3036778 ACT--CCCGAAGGCTTTTTGAAAACATCCTGCACTAAAGGTCTTACAG
1 A-TGACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAG
* *
3036824 ATGACCCAAAGGTTTTGAAAACATCATGCACTGAGGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
3036869 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
*
3036914 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
* * * *
3036959 ATGACCCCAAGGTTTTGAAAACATCATGCAGTAAAGGTCTTACAG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
3037004 ATG
1 ATG
3037007 TGGGAAATAG
Statistics
Matches: 512, Mismatches: 52, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
34 8 0.02
35 3 0.01
36 14 0.03
39 3 0.01
42 3 0.01
45 471 0.92
46 3 0.01
47 7 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (45 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAG
Found at i:3036868 original size:171 final size:169
Alignment explanation
Indices: 3036612--3036939 Score: 568
Period size: 171 Copynumber: 1.9 Consensus size: 169
3036602 TTACAGATGA
* *
3036612 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACAT
3036677 CATGCACTGCAGGGCTTACAGATAACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
66 CATGCACTGCAGGGCTTACAGATAACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
3036742 GATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
131 GATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
* * *
3036781 CCCGAAGGCTTTTTGAAAACATCCTGCACTAAAGGTCTTACAGATGACCCAAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGCTTTGAAAAC
*
3036846 ATCATGCACTG-AGGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
64 ATCATGCACTGCA-GGGCTTACAGATAACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTT
3036910 ACAGATGACCCGAAGGTTTTGAAAACATCA
128 ACAGATGACCCGAAGGTTTTGAAAACATCA
3036940 TGCACTGAAG
Statistics
Matches: 150, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
169 8 0.05
170 1 0.01
171 141 0.94
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (169 bp):
CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGCTTTGAAAACAT
CATGCACTGCAGGGCTTACAGATAACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACA
GATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
Found at i:3036891 original size:126 final size:124
Alignment explanation
Indices: 3036657--3037006 Score: 396
Period size: 126 Copynumber: 2.7 Consensus size: 124
3036647 TTACAGATGA
** *
3036657 CCCGAAGGCTTTGAAAACATCATGCACTGCAGGGCTTACAGATAACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGCTTTGAAAACATCATGCACTAAAGGGCTTACAGATAACCCAAAGGTTTTGAAAACAT
3036722 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
66 CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
* * *
3036781 CCCGAAGGCTTTTTGAAAACATCCTGCACTAAAGGTCTTACAGATGACCCAAAGGTTTTGAAAAC
1 CCCGAAGGC--TTTGAAAACATCATGCACTAAAGGGCTTACAGATAACCCAAAGGTTTTGAAAAC
* **
3036846 ATCATGCACTGAGGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTA
64 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA---A---AA----AAA
* *
3036911 CAGA-T
119 AAAACT
* * * * *
3036916 GACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCCAAGGTTTTGAAAAC
1 --CCCGAAGGCTTTGAAAACATCATGCACTAAAGGGCTTACAGATAACCCAAAGGTTTTGAAAAC
* * *
3036981 ATCATGCAGTAAAGGTCTTACAGATG
64 ATCATGCACTGAAGGGCTTACAGATG
3037007 TGGGAAATAG
Statistics
Matches: 193, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
124 9 0.05
126 96 0.50
129 1 0.01
132 2 0.01
135 74 0.38
136 3 0.02
137 8 0.04
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (124 bp):
CCCGAAGGCTTTGAAAACATCATGCACTAAAGGGCTTACAGATAACCCAAAGGTTTTGAAAACAT
CATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACT
Found at i:3036908 original size:261 final size:261
Alignment explanation
Indices: 3036530--3037006 Score: 801
Period size: 261 Copynumber: 1.8 Consensus size: 261
3036520 GACCCAAAGG
* * *
3036530 TTTTGAAAACATCATGCACGGAAGGACTTACAGATGACTCGAAGGCTTTAAAAACATCATGCACT
1 TTTTGAAAACATCATGCACGAAAGGACTTACAGATGACCCAAAGGCTTTAAAAACATCATGCACT
3036595 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
* *
3036660 GAAGGCTTTGAAAACATCATGCACTGCAGGGCTTACAGATAACCCGAAGGTTTTGAAAACATCAT
131 GAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCCAAGGTTTTGAAAACATCAT
*
3036725 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACTCCCGAAGGC
196 GCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACTCCCGAAGGC
3036790 T
261 T
* * * * *
3036791 TTTTGAAAACATCCTGCACTAAAGGTCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACGAAAGGACTTACAGATGACCCAAAGGCTTTAAAAACATCATGCACT
*
3036856 GAGGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
* * *
3036921 GAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCCAAGGTTTTGAAAACATCAT
131 GAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCCAAGGTTTTGAAAACATCAT
* *
3036986 GCAGTAAAGGTCTTACAGATG
196 GCACTAAAGGGCTTACAGATG
3037007 TGGGAAATAG
Statistics
Matches: 199, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
261 199 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (261 bp):
TTTTGAAAACATCATGCACGAAAGGACTTACAGATGACCCAAAGGCTTTAAAAACATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCC
GAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCCAAGGTTTTGAAAACATCAT
GCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAAAAAACTCCCGAAGGC
T
Found at i:3036909 original size:216 final size:216
Alignment explanation
Indices: 3036580--3036984 Score: 720
Period size: 216 Copynumber: 1.9 Consensus size: 216
3036570 GAAGGCTTTA
* *
3036580 AAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGG
1 AAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
*
3036645 GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGCAGGGCTTACAGATAACCCGAAGG
66 GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGG
*
3036710 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAAA
131 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCCAAGGTTTTGAAAACATCAAAAAAA
3036775 AAAACTCCCGAAGGCTTTTTG
196 AAAACTCCCGAAGGCTTTTTG
* * *
3036796 AAAACATCCTGCACTAAAGGTCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAGGG
1 AAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
* *
3036861 GCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
66 GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGG
*
3036926 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCCAAGGTTTTGAAAACATCA
131 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCCAAGGTTTTGAAAACATCA
3036985 TGCAGTAAAG
Statistics
Matches: 179, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
216 179 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (216 bp):
AAAACATCATGCACTAAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGG
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCCAAGGTTTTGAAAACATCAAAAAAA
AAAACTCCCGAAGGCTTTTTG
Found at i:3037703 original size:20 final size:21
Alignment explanation
Indices: 3037660--3037723 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
3037650 GAAATCCAAT
* * *
3037660 AAATCTTTCATCTTTAAAAAG
1 AAATCTATCATCTTTGAAGAG
*
3037681 AGAATTTATCATCTTTGAAGAG
1 A-AATCTATCATCTTTGAAGAG
*
3037703 ATAATCTATTATCTTTGAAGA
1 A-AATCTATCATCTTTGAAGA
3037724 ATGTAGATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATCTATCATCTTTGAAGAG
Found at i:3038192 original size:51 final size:54
Alignment explanation
Indices: 3038088--3038192 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 54
3038078 ATAACCACTG
* * * **
3038088 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTTTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATACTTTCATGTGGCTTCTGCCCAGAT
*
3038142 GTTCGTAAAACATTTGAC-A-A-ATTCATATTTTCATGTGGCTTCTGCCCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATACTTTCATGTGGCTTCTGCCCAGAT
3038193 TTCTCATCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
51 25 0.56
52 1 0.02
53 1 0.02
54 18 0.40
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATACTTTCATGTGGCTTCTGCCCAGAT
Found at i:3039208 original size:75 final size:75
Alignment explanation
Indices: 3039068--3039208 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
3039058 TGCTGATATG
* * * *
3039068 AACGTTTAAAATGAGTTAATATTCCAATTTCTGATTGAAATGGGATTTCAGCATGCCCCAGCATT
1 AACGTTCAAAATGAGTCAATATTCCAATTTCTGATTGAAATAGGATTTCAGCATGCCCCAACATT
3039133 TGTTGATACA
66 TGTTGATACA
* * * **
3039143 AACGTTCAAAATGCGTCAATATTCCTGA-TTCTGATTGAAATAGGCTTTCAGCATGTTCCAACAT
1 AACGTTCAAAATGAGTCAATATTCC-AATTTCTGATTGAAATAGGATTTCAGCATGCCCCAACAT
3039207 TT
65 TT
3039209 TCTTCTTGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 55 0.98
76 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (75 bp):
AACGTTCAAAATGAGTCAATATTCCAATTTCTGATTGAAATAGGATTTCAGCATGCCCCAACATT
TGTTGATACA
Found at i:3041102 original size:14 final size:14
Alignment explanation
Indices: 3041083--3041127 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
3041073 ATTCAAATTT
3041083 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
3041097 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
*
3041111 TCTTT-TT-TTTTC
1 TTTTTCTTCTTTTC
3041123 TTTTT
1 TTTTT
3041128 TCCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 9 0.31
13 2 0.07
14 18 0.62
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:3041134 original size:17 final size:17
Alignment explanation
Indices: 3041080--3041140 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
3041070 TTGATTCAAA
3041080 TTTTTTTTCTTCTTTT-C
1 TTTTTTTTCTT-TTTTCC
* * *
3041097 TTTTTCTTCTTTTCTCT
1 TTTTTTTTCTTTTTTCC
3041114 TTTTTTTTCTTTTTTCC
1 TTTTTTTTCTTTTTTCC
3041131 TTTTTTTTCT
1 TTTTTTTTCT
3041141 GATGAATGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
16 3 0.08
17 34 0.92
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTCC
Found at i:3043696 original size:20 final size:21
Alignment explanation
Indices: 3043671--3043716 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
3043661 TGCAAATATA
*
3043671 AAATGAAAATAT-AAAAATGC
1 AAATGAAAACATAAAAAATGC
3043691 AAATGAAAACATAAAAAATGC
1 AAATGAAAACATAAAAAATGC
3043712 AAATG
1 AAATG
3043717 TAATGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.65, C:0.07, G:0.11, T:0.17
Consensus pattern (21 bp):
AAATGAAAACATAAAAAATGC
Found at i:3045595 original size:46 final size:46
Alignment explanation
Indices: 3045525--3045612 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
3045515 AGGTATAAAT
* * *
3045525 CCTAACCTCATGCTTTCTAGTTCCATGCTTTGTTTGGAAAAACTAA
1 CCTAACCTCATGATTTCTAATTCCATGCTTTGTTTAGAAAAACTAA
3045571 CCTAA-CTGCATGATTTCTAATTCCATGCTTTGTTTAGAAAAA
1 CCTAACCT-CATGATTTCTAATTCCATGCTTTGTTTAGAAAAA
3045613 ATAAAATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.05
46 36 0.95
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (46 bp):
CCTAACCTCATGATTTCTAATTCCATGCTTTGTTTAGAAAAACTAA
Found at i:3046617 original size:2 final size:2
Alignment explanation
Indices: 3046606--3046640 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3046596 CTAAGGAAAC
3046606 AT AT -T 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
3046641 TTAGGGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3047151 original size:152 final size:150
Alignment explanation
Indices: 3046967--3047286 Score: 350
Period size: 152 Copynumber: 2.1 Consensus size: 150
3046957 GACTAAAATT
* * *
3046967 AAATAAATATAAAATGAAGAAAAATATAATAATTTGAATAAA-ACT-AAAAT-AACTATATATTT
1 AAATAAATA-AAAATTAAGAAAAATATAATAA-TT-AA-AAATAATAAAAATGAACTA-A-ATAT
* *
3047029 ATATATTTGTT-TAAATACA-ATATTTATTTA-TTTAAAAATATCTA-AATAGAACTTCTAGTTG
60 ATATATTT-TTATAAATA-AGATATTTATTTATTTTAAAAATA-CCAGAATAGAACGTCTAGTTG
*
3047090 CTTTAAGACAACCCATTTCTTTGATA-TTAA
122 CTTTAAGACAACCC-TTTC-TTAATATTTAA
* * *
3047120 AAATAAATAAATATTAAGAAGAATATAATAATTAAAAATAATAAAAATGAAGTAAATATATATAT
1 AAATAAATAAAAATTAAGAAAAATATAATAATTAAAAATAATAAAAATGAACTAAATATATATAT
* * *
3047185 TTTTATAAATAAGATATTTATTTATTTTTTAAAATACCAGAATAGGACGTCTAGTTGTTTTAAGA
66 TTTTATAAATAAGATATTTATTTA-TTTTAAAAATACCAGAATAGAACGTCTAGTTGCTTTAAGA
*
3047250 CCACCCTTTCTTAATATTTAA
130 CAACCCTTTCTTAATATTTAA
*
3047271 AAATAAATAAACATTA
1 AAATAAATAAAAATTA
3047287 TCGTTTAATG
Statistics
Matches: 144, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
149 6 0.04
150 37 0.26
151 33 0.23
152 59 0.41
153 9 0.06
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (150 bp):
AAATAAATAAAAATTAAGAAAAATATAATAATTAAAAATAATAAAAATGAACTAAATATATATAT
TTTTATAAATAAGATATTTATTTATTTTAAAAATACCAGAATAGAACGTCTAGTTGCTTTAAGAC
AACCCTTTCTTAATATTTAA
Found at i:3047162 original size:18 final size:18
Alignment explanation
Indices: 3047113--3047167 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
3047103 CATTTCTTTG
3047113 ATATTAAAAATAA-ATAA
1 ATATTAAAAATAATATAA
* *
3047130 ATATTAAGAAGAATAT-A
1 ATATTAAAAATAATATAA
*
3047147 ATAATTAAAAATAATAAAA
1 AT-ATTAAAAATAATATAA
3047166 AT
1 AT
3047168 GAAGTAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 14 0.47
18 13 0.43
19 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATTAAAAATAATATAA
Found at i:3047181 original size:35 final size:35
Alignment explanation
Indices: 3047115--3047179 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
3047105 TTTCTTTGAT
* *
3047115 ATTAAAAATAAATAAATATTAAGAAGAATATAATA
1 ATTAAAAATAAATAAAAATGAAGAAGAATATAATA
*
3047150 ATTAAAAAT-AATAAAAATGAAGTA-AATATA
1 ATTAAAAATAAATAAAAATGAAGAAGAATATA
3047180 TATATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 6 0.22
34 12 0.44
35 9 0.33
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (35 bp):
ATTAAAAATAAATAAAAATGAAGAAGAATATAATA
Found at i:3048683 original size:3 final size:3
Alignment explanation
Indices: 3048670--3048728 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
3048660 GTAATTATTT
* *
3048670 ATA ATA A-A ATA ATA ATA ATA ATA ATA TATT ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
3048715 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
3048729 TTAAAATGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:3054931 original size:17 final size:17
Alignment explanation
Indices: 3054909--3054945 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
3054899 AGTAGTGCCC
* *
3054909 ATATTGCATGAATATTG
1 ATATTGCACGAATATCG
3054926 ATATTGCACGAATATCG
1 ATATTGCACGAATATCG
3054943 ATA
1 ATA
3054946 CCAATTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (17 bp):
ATATTGCACGAATATCG
Found at i:3055631 original size:15 final size:15
Alignment explanation
Indices: 3055611--3055682 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
3055601 AACCGGATAT
3055611 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
* **
3055626 CGGGTACCCACAAAATC
1 CGGGTACCC-GATTA-C
*
3055643 CGGATACCCGATTAC
1 CGGGTACCCGATTAC
3055658 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
*
3055673 CGGATACCCG
1 CGGGTACCCG
3055683 TAACATCAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 33 0.72
16 4 0.09
17 9 0.20
ACGTcount: A:0.25, C:0.35, G:0.24, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:3058175 original size:63 final size:63
Alignment explanation
Indices: 3058095--3058287 Score: 377
Period size: 63 Copynumber: 3.1 Consensus size: 63
3058085 ACTAAACAAA
3058095 AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
1 AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
3058158 AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
1 AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
*
3058221 AATCTTCTTATAATTAAAAGACTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
1 AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
3058284 AATC
1 AATC
3058288 AAAGGATCAT
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 129 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.40
Consensus pattern (63 bp):
AATCTTCTTATAATTAAAAGATTATTTTATAACTTTTAATACACTCAATAAAATAGTCCCTAT
Found at i:3061525 original size:20 final size:20
Alignment explanation
Indices: 3061502--3061553 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
3061492 AACGCGATCC
3061502 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
3061522 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
3061542 CCAAAATCGCAA
1 CCAGAATCGCAA
3061554 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:3061570 original size:21 final size:20
Alignment explanation
Indices: 3061543--3061641 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
3061533 AATCAGTTTC
3061543 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
3061564 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
3061585 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
3061605 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
3061626 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
3061642 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:3061670 original size:20 final size:20
Alignment explanation
Indices: 3061608--3061801 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
3061598 CGATTTTCCA
* ** *
3061608 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
3061628 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
3061648 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3061668 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
3061688 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
3061708 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3061728 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
3061748 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
3061768 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
3061789 AAATCGCAACGCG
1 AAATCGCAACGCG
3061802 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:3061692 original size:60 final size:60
Alignment explanation
Indices: 3061608--3061801 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
3061598 CGATTTTCCA
* ** * *
3061608 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
3061668 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
3061728 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
3061789 AAATCGCAACGCG
1 AAATCGCAACGCG
3061802 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:3062221 original size:33 final size:33
Alignment explanation
Indices: 3062182--3062252 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3062172 TTCACTTAGA
*
3062182 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
3062215 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
3062248 TTTCA
1 TTTCA
3062253 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:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:3062392 original size:14 final size:14
Alignment explanation
Indices: 3062373--3062427 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3062363 AGAATGACTG
3062373 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
3062387 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
3062406 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
3062420 TCGCAACG
1 TCGCAACG
3062428 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:3062440 original size:33 final size:33
Alignment explanation
Indices: 3062373--3062443 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3062363 AGAATGACTG
***
3062373 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
3062406 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
3062439 TCGCA
1 TCGCA
3062444 TTGCGATTTT
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:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:3062461 original size:19 final size:19
Alignment explanation
Indices: 3062439--3062536 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
3062429 GAAACCAAAA
*
3062439 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3062458 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
3062472 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3062491 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
3062505 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
3062524 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3062537 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3062480 original size:14 final size:14
Alignment explanation
Indices: 3062461--3062550 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
3062451 TTTCATTTCG
3062461 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3062475 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
3062494 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3062508 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
3062525 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
3062541 CGTTGCGATT
1 CGTTGCGATT
3062551 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3062486 original size:33 final size:33
Alignment explanation
Indices: 3062444--3062558 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
3062434 CAAAATCGCA
3062444 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
3062477 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
3062510 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
3062543 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
3062559 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:3064486 original size:185 final size:186
Alignment explanation
Indices: 3064256--3064637 Score: 748
Period size: 185 Copynumber: 2.1 Consensus size: 186
3064246 TAGATTGCTT
3064256 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064321 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
3064386 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3064441 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064506 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
3064571 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
3064627 AGTAAATTTAT
1 AGTAAATTTAT
3064638 CCATTTAAGT
Statistics
Matches: 194, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 154 0.79
186 40 0.21
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3064570 original size:93 final size:93
Alignment explanation
Indices: 3064256--3064635 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
3064246 TAGATTGCTT
*
3064256 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064321 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3064349 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064413 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3064441 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064506 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3064534 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3064599 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3064627 AGTAAATTT
1 AGTAAATTT
3064636 ATCCATTTAA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3064719 original size:19 final size:19
Alignment explanation
Indices: 3064679--3064807 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3064669 TAGTTTACTT
* *
3064679 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
3064699 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
3064718 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
3064737 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
3064751 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
3064770 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
3064784 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
3064803 TCGCA
1 TCGCA
3064808 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:3064758 original size:33 final size:32
Alignment explanation
Indices: 3064715--3064807 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
3064705 CGCGAAACCA
**
3064715 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
3064747 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
3064780 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
3064808 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:3064805 original size:52 final size:52
Alignment explanation
Indices: 3064679--3064807 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
3064669 TAGTTTACTT
**
3064679 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
3064731 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
3064784 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
3064808 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:3064825 original size:19 final size:19
Alignment explanation
Indices: 3064803--3064937 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
3064793 GAAACCAAAA
*
3064803 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3064822 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3064838 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
3064855 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3064871 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3064888 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
3064907 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3064927 TCGTGTTGCGA
1 TCGCGTTGCGA
3064938 AAGTAAACTA
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3064844 original size:14 final size:14
Alignment explanation
Indices: 3064825--3064881 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3064815 TTTCATTTCG
3064825 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3064839 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3064856 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
3064872 CGTTGCGATT
1 CGTTGCGATT
3064882 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3064850 original size:33 final size:33
Alignment explanation
Indices: 3064808--3064900 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
3064798 CAAAATCGCA
*
3064808 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
3064841 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
3064874 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
3064901 TTGGTTTCGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:3066796 original size:38 final size:38
Alignment explanation
Indices: 3066753--3066825 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
3066743 TAATTGATTG
*
3066753 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
3066791 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
3066826 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:3066812 original size:19 final size:19
Alignment explanation
Indices: 3066749--3066812 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
3066739 AGTTTAATTG
3066749 ATTG-TTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
3066767 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
3066785 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
3066805 ATTGATTT
1 ATTGATTT
3066813 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 12, Indels: 5
0.65 0.25 0.10
Matches are distributed among these distances:
18 9 0.29
19 17 0.55
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:3066826 original size:14 final size:14
Alignment explanation
Indices: 3066807--3066842 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3066797 ATTGTTTAAT
3066807 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
3066821 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
3066835 TGATTTGT
1 TGATTTGT
3066843 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:3066965 original size:19 final size:19
Alignment explanation
Indices: 3066949--3067050 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
3066939 AAAAATGACT
3066949 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3066968 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3066987 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
3067001 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
3067020 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
3067040 ATCGCAATGCG
1 ATCGCAATGCG
3067051 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3067103 original size:19 final size:19
Alignment explanation
Indices: 3067079--3067404 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
3067069 GATTATCTCG
3067079 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067098 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067117 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
3067131 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067150 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3067169 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
3067188 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067207 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3067226 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3067240 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067259 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3067278 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3067292 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3067311 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3067330 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3067344 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
3067364 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
3067378 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
3067397 TTGCGATT
1 TTGCGATT
3067405 GTATTTTCCG
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 35 0.13
16 31 0.12
17 28 0.10
18 3 0.01
19 160 0.59
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3067119 original size:52 final size:52
Alignment explanation
Indices: 3067057--3067376 Score: 550
Period size: 52 Copynumber: 6.0 Consensus size: 52
3067047 TGCGTTTATA
*
3067057 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
3067109 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
3067161 ATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
3067218 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
3067270 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
3067322 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
3067375 AT
1 AT
3067377 GTTGGGATTT
Statistics
Matches: 257, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
52 182 0.71
53 17 0.07
54 7 0.03
55 8 0.03
57 43 0.17
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:3067154 original size:71 final size:72
Alignment explanation
Indices: 3067079--3067404 Score: 389
Period size: 71 Copynumber: 4.6 Consensus size: 72
3067069 GATTATCTCG
3067079 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
3067143 TTTCGCA
66 TTTCGCA
* *
3067150 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG-ATTGCGATT
3067215 TTCATTTCGCA
62 TTCATTTCGCA
*
3067226 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG-ATTGCGATT
*
3067284 TTC-TCTCG--
62 TTCATTTCGCA
*
3067292 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
3067356 TTTCCGCA
66 TTT-CGCA
* *
3067364 TTGCGATTTTCA--T-G--TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
3067405 GTATTTTCCG
Statistics
Matches: 227, Mismatches: 11, Indels: 38
0.82 0.04 0.14
Matches are distributed among these distances:
66 12 0.05
67 25 0.11
68 14 0.06
69 13 0.06
70 3 0.01
71 109 0.48
72 12 0.05
73 6 0.03
74 8 0.04
76 25 0.11
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (72 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGATTGCGATTTTCA
TTTCGCA
Found at i:3067322 original size:161 final size:157
Alignment explanation
Indices: 3067057--3067376 Score: 552
Period size: 161 Copynumber: 2.0 Consensus size: 157
3067047 TGCGTTTATA
3067057 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
* *
3067122 ATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGT
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG-
3067187 ATTGCGATTTTAATTT-CGCATTGCGATTTTC
127 -TTGCGATTTTAATTTCCGCATTGCGATTTTC
*
3067218 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
3067283 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
66 ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
*
3067348 GATTTTCATTTCCGCATTGCGATTTTC
131 GATTTTAATTTCCGCATTGCGATTTTC
3067375 AT
1 AT
3067377 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
156 14 0.09
157 17 0.11
158 4 0.03
159 3 0.02
161 116 0.75
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (157 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGC
GATTTTAATTTCCGCATTGCGATTTTC
Found at i:3067348 original size:33 final size:33
Alignment explanation
Indices: 3067098--3067404 Score: 280
Period size: 33 Copynumber: 8.8 Consensus size: 33
3067088 TCATTTCGCA
*
3067098 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3067131 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * *
3067167 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TT-CTCTCG
3067205 CATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3067240 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
3067276 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
3067311 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
3067344 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
3067378 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
3067405 GTATTTTCCG
Statistics
Matches: 235, Mismatches: 20, Indels: 38
0.80 0.07 0.13
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 87 0.37
34 29 0.12
35 13 0.06
36 11 0.05
37 2 0.01
38 67 0.29
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:3069726 original size:12 final size:12
Alignment explanation
Indices: 3069709--3069733 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3069699 TCTTCGGGGA
3069709 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3069721 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3069733 C
1 C
3069734 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:3069942 original size:24 final size:24
Alignment explanation
Indices: 3069908--3069954 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3069898 CTGAAACATC
3069908 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
3069932 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
3069955 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:3070657 original size:20 final size:20
Alignment explanation
Indices: 3070629--3070997 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
3070619 AAATTTCAGT
* * * *
3070629 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
3070649 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
3070669 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
3070689 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
3070709 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3070729 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
3070749 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
3070769 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3070789 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3070809 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
3070829 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
3070849 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3070869 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
3070889 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
3070909 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
3070929 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
3070949 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
3070969 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
3070989 GTTGCGATT
1 GTTGCGATT
3070998 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:3072141 original size:36 final size:35
Alignment explanation
Indices: 3072086--3072165 Score: 126
Period size: 36 Copynumber: 2.3 Consensus size: 35
3072076 ATATTATAAG
*
3072086 AAACTAGA-TTCATATTACGTTTAAGCTTTTACCT
1 AAACTAAAGTTCATATTACGTTTAAGCTTTTACCT
*
3072120 AAAGCTAAAGTTCATATTACGTTTAAGTTTTTACCT
1 AAA-CTAAAGTTCATATTACGTTTAAGCTTTTACCT
3072156 AAACTAAAGT
1 AAACTAAAGT
3072166 GGATGTAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
34 3 0.07
35 11 0.26
36 28 0.67
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (35 bp):
AAACTAAAGTTCATATTACGTTTAAGCTTTTACCT
Found at i:3076451 original size:229 final size:228
Alignment explanation
Indices: 3076041--3076527 Score: 848
Period size: 229 Copynumber: 2.1 Consensus size: 228
3076031 GTAAATTATC
* * *
3076041 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
3076106 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
* *
3076171 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAAGTGAAAAACATAAAACACTATTAAAAAAATTG
*
3076236 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTAAAAAAAGTATA
* *
3076269 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
3076334 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* * *
3076399 TTGTGTAAATTAAATTATTAAATTAATATTGTAAGTGAAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGAAAAACATAAAACACTATTAAAAAAATT
3076464 GAAACATAAATTACATAACTTTAAAAAAAGTATA
195 GAAACATAAATTACATAACTTTAAAAAAAGTATA
3076498 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
3076528 AAAAGTAGGT
Statistics
Matches: 244, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
228 35 0.14
229 209 0.86
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAAGTGAAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAGTATA
Found at i:3076829 original size:20 final size:20
Alignment explanation
Indices: 3076806--3076852 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
3076796 CGATATACCA
*
3076806 GGTAAAAATATGATAAAACC
1 GGTAAAAAAATGATAAAACC
3076826 GGTAAAAAAATGATAAAACC
1 GGTAAAAAAATGATAAAACC
3076846 GGTAAAA
1 GGTAAAA
3076853 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:3076940 original size:181 final size:182
Alignment explanation
Indices: 3076594--3077066 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 182
3076584 GATCCAAATT
* * * *
3076594 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * * * * *
3076659 AAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
3076724 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* *
3076776 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAAAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * *
3076841 AAACCGGTAAAACGTTACCGGATATATTAAAAGTTTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
3076905 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * *
3076957 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* *
3077022 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
3077067 CGTAAGTACG
Statistics
Matches: 262, Mismatches: 29, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 165 0.63
182 97 0.37
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:3077010 original size:20 final size:19
Alignment explanation
Indices: 3076987--3077033 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3076977 CGATATAACA
3076987 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
3077007 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
3077027 GGTAAAA
1 GGTAAAA
3077034 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3077035 original size:17 final size:19
Alignment explanation
Indices: 3076996--3077038 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
3076986 AGGTAAAAAT
3076996 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
3077016 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
3077033 ATGATA
1 ATGATA
3077039 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:3079293 original size:21 final size:21
Alignment explanation
Indices: 3079266--3079330 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
3079256 AAGACAATCA
*
3079266 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
3079287 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3079308 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3079329 AG
1 AG
3079331 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3079406 original size:33 final size:33
Alignment explanation
Indices: 3079364--3079429 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3079354 AAATAGATGG
*
3079364 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
3079397 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
3079430 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:3081245 original size:19 final size:19
Alignment explanation
Indices: 3081221--3081269 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3081211 AATGTAGGGT
3081221 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3081240 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
3081259 TATTTTTGTAT
1 TAATTTTGTAT
3081270 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3081958 original size:199 final size:199
Alignment explanation
Indices: 3081388--3082749 Score: 2470
Period size: 199 Copynumber: 6.9 Consensus size: 199
3081378 CAATATGGAT
* * *
3081388 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAAC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACC
* * * *
3081453 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAAAA
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
* * *
3081518 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTCTTTTCCAGAATTAAT
130 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
3081583 GGAAA
195 GGAAA
3081588 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
*
3081653 AAAAG--T-A--T-A-A-GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
*
3081710 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
3081775 GAAA
196 GAAA
3081779 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
*
3081844 AAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
3081909 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
3081974 GAAA
196 GAAA
3081978 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
3082043 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
*
3082108 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
3082173 GAAA
196 GAAA
*
3082177 ACAGGGTACACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
3082242 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
3082307 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
3082372 GAAA
196 GAAA
*
3082376 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCTAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
*
3082441 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTGTACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
*
3082506 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCATAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
3082571 GAAA
196 GAAA
*
3082575 ACAGGGTGCACCCATAAAGTGTCGATCTATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
* *
3082640 AAAAGTATAATGTAATATGTAATTTTTCAACCTAACCGGTACAATTATATCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
3082705 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
3082750 CTAATTTAAA
Statistics
Matches: 1129, Mismatches: 25, Indels: 17
0.96 0.02 0.01
Matches are distributed among these distances:
191 180 0.16
192 1 0.00
193 2 0.00
194 2 0.00
196 2 0.00
197 2 0.00
198 1 0.00
199 881 0.78
200 58 0.05
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
ACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
GAAA
Found at i:3082736 original size:23 final size:23
Alignment explanation
Indices: 3082710--3082761 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
3082700 AGATAATATG
3082710 TATAAATAATGTGTCGACACTAA
1 TATAAATAATGTGTCGACACTAA
* * *
3082733 TAT-AGT-TTGTGTCGATACTAA
1 TATAAATAATGTGTCGACACTAA
*
3082754 TTTAAATA
1 TATAAATA
3082762 TCAAGTGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAAATAATGTGTCGACACTAA
Found at i:3083590 original size:6 final size:6
Alignment explanation
Indices: 3083566--3083654 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
3083556 AGCGGTCGTA
* * * * * *
3083566 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * *
3083614 GGCGAT GAAGAT GATGACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GA--A-GAT GAAGAT GAAGAT GAAGAT GA
3083655 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 58 0.91
8 1 0.02
9 5 0.08
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:3083601 original size:3 final size:3
Alignment explanation
Indices: 3083581--3083658 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
3083571 TGAAGCTGAC
* * * * * ** *
3083581 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
3083629 GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3083659 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:3083620 original size:36 final size:39
Alignment explanation
Indices: 3083569--3083650 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
3083559 GGTCGTAGAA
3083569 GATGAAGCTGACGATG-A-A-GATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
* *
3083605 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
3083644 GATGAAG
1 GATGAAG
3083651 ATGATGATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 15 0.37
37 1 0.02
38 1 0.02
39 24 0.59
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (39 bp):
GATGAAGCTGACGATGAAGATGATGACGATGATGATGAC
Found at i:3083658 original size:12 final size:12
Alignment explanation
Indices: 3083569--3083654 Score: 91
Period size: 12 Copynumber: 6.9 Consensus size: 12
3083559 GGTCGTAGAA
*
3083569 GATGAAGCTGAC
1 GATGAAGATGAC
3083581 GATGAAGATGAC
1 GATGAAGATGAC
*
3083593 GATGATGATGAC
1 GATGAAGATGAC
* *
3083605 GATGAAGCTGGC
1 GATGAAGATGAC
3083617 GATGAAGATGATGAC
1 GATG-A-A-GATGAC
* *
3083632 GATGATGATGAT
1 GATGAAGATGAC
3083644 GATGAAGATGA
1 GATGAAGATGA
3083655 TGATCCAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
12 50 0.82
13 1 0.02
14 2 0.03
15 8 0.13
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:3083658 original size:18 final size:18
Alignment explanation
Indices: 3083569--3083658 Score: 81
Period size: 18 Copynumber: 4.8 Consensus size: 18
3083559 GGTCGTAGAA
* * *
3083569 GATGAAGCTGACGATGAA
1 GATGAAGATGATGATGAT
* *
3083587 GATGACGATGATGATGAC
1 GATGAAGATGATGATGAT
* *
3083605 GATGAAGCTGGCGATGAAGAT
1 GATGAAGAT---GATGATGAT
*
3083626 GATGACGATGATGATGAT
1 GATGAAGATGATGATGAT
3083644 GATGAAGATGATGAT
1 GATGAAGATGATGAT
3083659 CCAAACAAGT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 43 0.75
21 14 0.25
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.22
Consensus pattern (18 bp):
GATGAAGATGATGATGAT
Found at i:3085442 original size:183 final size:182
Alignment explanation
Indices: 3085129--3085614 Score: 864
Period size: 183 Copynumber: 2.7 Consensus size: 182
3085119 TTCAACATAT
*
3085129 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* * *
3085194 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCAACATTT
*
3085259 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
3085312 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
3085377 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCAACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCAACATTT
*
3085442 ACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* *
3085495 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
3085560 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
3085615 GTCGGTAATT
Statistics
Matches: 291, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
183 287 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCAACATTTA
CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:3086788 original size:20 final size:22
Alignment explanation
Indices: 3086757--3086805 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3086747 AAAAATTATT
3086757 AATATAATAATAATAACAAA-ATA
1 AATATAAT-AT-ATAACAAAGATA
3086780 AATATAATATATAACAAAGATA
1 AATATAATATATAACAAAGATA
3086802 AATA
1 AATA
3086806 AAAGTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 8 0.32
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AATATAATATATAACAAAGATA
Found at i:3086806 original size:20 final size:19
Alignment explanation
Indices: 3086757--3086803 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
3086747 AAAAATTATT
*
3086757 AATATAATAATAATAACAA
1 AATAAAATAATAATAACAA
3086776 AATAAATATAATATATAACAA
1 AATAAA-ATAATA-ATAACAA
3086797 AGATAAA
1 A-ATAAA
3086804 TAAAAGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 8 0.33
22 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAAAATAATAATAACAA
Found at i:3087995 original size:14 final size:14
Alignment explanation
Indices: 3087978--3088021 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
3087968 AATAAAATTA
3087978 AATAATTAAATAAT
1 AATAATTAAATAAT
3087992 AATAA-TAAATAAAT
1 AATAATTAAAT-AAT
3088006 AATAATATAATATAAT
1 AATAAT-TAA-ATAAT
3088022 GTTTTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.19
14 13 0.50
16 6 0.23
17 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAATTAAATAAT
Found at i:3088020 original size:17 final size:18
Alignment explanation
Indices: 3087978--3088020 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
3087968 AATAAAATTA
3087978 AATAAT-TAAATAATAAT
1 AATAATATAAATAATAAT
3087995 AATAA-ATAAATAATAAT
1 AATAATATAAATAATAAT
3088012 -ATAATATAA
1 AATAATATAA
3088021 TGTTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATATAAATAATAAT
Found at i:3090473 original size:20 final size:22
Alignment explanation
Indices: 3090442--3090490 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
3090432 AAAAATTATT
3090442 AATATAATAATAATAACAAA-ATA
1 AATATAAT-AT-ATAACAAAGATA
3090465 AATATAATATATAACAAAGATA
1 AATATAATATATAACAAAGATA
3090487 AATA
1 AATA
3090491 AAAGTTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 8 0.32
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AATATAATATATAACAAAGATA
Found at i:3090491 original size:20 final size:19
Alignment explanation
Indices: 3090442--3090488 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
3090432 AAAAATTATT
*
3090442 AATATAATAATAATAACAA
1 AATAAAATAATAATAACAA
3090461 AATAAATATAATATATAACAA
1 AATAAA-ATAATA-ATAACAA
3090482 AGATAAA
1 A-ATAAA
3090489 TAAAAGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 8 0.33
22 5 0.21
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAAAATAATAATAACAA
Found at i:3091679 original size:14 final size:14
Alignment explanation
Indices: 3091662--3091705 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
3091652 AATAAAATTA
3091662 AATAATTAAATAAT
1 AATAATTAAATAAT
3091676 AATAA-TAAATAAAT
1 AATAATTAAAT-AAT
3091690 AATAATATAATATAAT
1 AATAAT-TAA-ATAAT
3091706 GTTTTTGTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.19
14 13 0.50
16 6 0.23
17 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AATAATTAAATAAT
Found at i:3091704 original size:17 final size:18
Alignment explanation
Indices: 3091662--3091704 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
3091652 AATAAAATTA
3091662 AATAAT-TAAATAATAAT
1 AATAATATAAATAATAAT
3091679 AATAA-ATAAATAATAAT
1 AATAATATAAATAATAAT
3091696 -ATAATATAA
1 AATAATATAA
3091705 TGTTTTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAATATAAATAATAAT
Found at i:3093465 original size:25 final size:25
Alignment explanation
Indices: 3093437--3093501 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
3093427 TTATCATTAA
3093437 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
3093462 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
3093487 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
3093502 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:3093879 original size:23 final size:23
Alignment explanation
Indices: 3093848--3093920 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3093838 ATAGGTAAAC
*
3093848 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3093871 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3093894 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3093917 ATAT
1 ATAT
3093921 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3094366 original size:18 final size:18
Alignment explanation
Indices: 3094345--3094381 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3094335 GTAATTGGAG
3094345 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3094363 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3094381 T
1 T
3094382 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3094389 original size:24 final size:24
Alignment explanation
Indices: 3094337--3094383 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
3094327 TTTCATATGT
* *
3094337 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
3094361 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
3094384 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:3094683 original size:39 final size:39
Alignment explanation
Indices: 3094640--3094726 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3094630 TCCGATGCTC
*
3094640 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
3094679 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
3094718 ATCAAAATC
1 ATCAAAATC
3094727 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:3095141 original size:23 final size:23
Alignment explanation
Indices: 3095110--3095182 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3095100 ATAGGTAAAC
*
3095110 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3095133 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
3095156 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
3095179 ATAT
1 ATAT
3095183 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3096905 original size:29 final size:29
Alignment explanation
Indices: 3096863--3096943 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
3096853 AATTCTACAG
3096863 TGACCAAAGAGGTCGCCATGCACACCCAA
1 TGACCAAAGAGGTCGCCATGCACACCCAA
*
3096892 TGACCAAAGAGGTCGCCATGCACGCCCAA
1 TGACCAAAGAGGTCGCCATGCACACCCAA
* * *
3096921 CGACCAAGGAGGTCTCCATGCAC
1 TGACCAAAGAGGTCGCCATGCAC
3096944 TCGGGGCGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.31, C:0.35, G:0.23, T:0.11
Consensus pattern (29 bp):
TGACCAAAGAGGTCGCCATGCACACCCAA
Found at i:3097747 original size:21 final size:21
Alignment explanation
Indices: 3097722--3097761 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3097712 TAGTTAATTA
3097722 GTTTGTTAGTATAAATTATTT
1 GTTTGTTAGTATAAATTATTT
* *
3097743 GTTTGTTAGTTTAAGTTAT
1 GTTTGTTAGTATAAATTAT
3097762 ATATTATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (21 bp):
GTTTGTTAGTATAAATTATTT
Found at i:3098270 original size:17 final size:17
Alignment explanation
Indices: 3098248--3098308 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
3098238 AGATAATTTA
3098248 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
3098265 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
* *
3098284 TTGTTTTAAAAAATATTT
1 -TGTTTAAAAAAATATTG
3098302 TGTTTAA
1 TGTTTAA
3098309 TTTATATTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 16 0.47
18 4 0.12
19 5 0.15
20 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:3098312 original size:21 final size:22
Alignment explanation
Indices: 3098270--3098312 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3098260 TATTGTGTTT
**
3098270 AAAAATATTTAGTGTTGTTTTA
1 AAAAATATTTAGTGTTAATTTA
*
3098292 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
3098313 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
AAAAATATTTAGTGTTAATTTA
Found at i:3101580 original size:13 final size:14
Alignment explanation
Indices: 3101551--3101583 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3101541 TATTAATATT
*
3101551 TAATGATTTGATAA
1 TAATGATTAGATAA
3101565 TAATGATTAG-TAA
1 TAATGATTAGATAA
3101578 TAATGA
1 TAATGA
3101584 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (14 bp):
TAATGATTAGATAA
Found at i:3101608 original size:49 final size:49
Alignment explanation
Indices: 3101542--3101877 Score: 602
Period size: 49 Copynumber: 6.9 Consensus size: 49
3101532 CCCATCTATT
* * *
3101542 ATTAATATTTAATGATTTGATAATAATGATTAGTAATAATGAAATTATT
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
3101591 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
3101640 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
*
3101689 ATTAATTTTTAGTGATTTGATAGTAATGATTAGTAATAATGAAATTATC
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
* *
3101738 ATTAATATTTAATGATTTGA-CGTAATGATTAGTAATAATGAAATTATC
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
3101786 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
*
3101835 ATTAATTTTTAATGATTTGATACTAATGATTAGTAATAATGAA
1 ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAA
3101878 TGGAGGGACC
Statistics
Matches: 276, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 46 0.17
49 230 0.83
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (49 bp):
ATTAATTTTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATC
Found at i:3101798 original size:22 final size:22
Alignment explanation
Indices: 3101773--3101849 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
3101763 TGATTAGTAA
3101773 TAATGAAATTATCATTAATTTT
1 TAATGAAATTATCATTAATTTT
* *
3101795 TAATG-ATTTGAT-AGTAATGATTAGT
1 TAATGAAATT-ATCATTAAT--TT--T
3101820 AATAATGAAATTATCATTAATTTT
1 --TAATGAAATTATCATTAATTTT
3101844 TAATGA
1 TAATGA
3101850 TTTGATACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 8 0.19
22 13 0.31
23 2 0.05
24 1 0.02
25 1 0.02
26 2 0.05
27 7 0.17
28 8 0.19
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (22 bp):
TAATGAAATTATCATTAATTTT
Found at i:3101985 original size:12 final size:11
Alignment explanation
Indices: 3101964--3102006 Score: 68
Period size: 12 Copynumber: 3.7 Consensus size: 11
3101954 CATAAAAATG
3101964 ATTTAATAATA
1 ATTTAATAATA
3101975 ATTTAAATAATA
1 ATTT-AATAATA
3101987 ATTTAATAATAA
1 ATTTAATAAT-A
3101999 ATTTAATA
1 ATTTAATA
3102007 TTTAATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:3101990 original size:23 final size:23
Alignment explanation
Indices: 3101956--3102004 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
3101946 CAATTAACCA
*
3101956 TAAAAATGATTTAATAAT-AATT
1 TAAAAATAATTTAATAATAAATT
3101978 TAAATAATAATTTAATAATAAATT
1 TAAA-AATAATTTAATAATAAATT
3102002 TAA
1 TAA
3102005 TATTTAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 13 0.54
24 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAAAATAATTTAATAATAAATT
Found at i:3102053 original size:26 final size:26
Alignment explanation
Indices: 3102028--3102209 Score: 176
Period size: 26 Copynumber: 7.1 Consensus size: 26
3102018 GATGAGTTAG
* * *
3102028 TAATAATTTGATAATAATCATTTTAG
1 TAATGATTTGATAATAATCATTATAA
3102054 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
3102080 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* *
3102106 TAATGA-TT--TAATAATAATGATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
3102129 TAATGATTTAATAATAATAATGATAA
1 TAATGATTTGATAATAATCATTATAA
* * *
3102155 TAATGATTTAATAGTAATTATTTTATAA
1 TAATGATTTGATAATAATCA--TTATAA
* * *
3102183 TAATGATTTAATACTAATGATT-TAA
1 TAATGATTTGATAATAATCATTATAA
3102208 TA
1 TA
3102210 GTAATTTATT
Statistics
Matches: 140, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
23 19 0.14
24 2 0.01
25 8 0.06
26 88 0.63
28 23 0.16
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:3102062 original size:12 final size:12
Alignment explanation
Indices: 3102039--3102143 Score: 70
Period size: 12 Copynumber: 8.6 Consensus size: 12
3102029 AATAATTTGA
3102039 TAATAATCATTT
1 TAATAATCATTT
* *
3102051 TAGTAATGATTT
1 TAATAATCATTT
*
3102063 GATAATAATCATTA
1 --TAATAATCATTT
*
3102077 TAATAATGATTT
1 TAATAATCATTT
*
3102089 AGTAATAATCATTA
1 --TAATAATCATTT
*
3102103 TAATAATGA-TT
1 TAATAATCATTT
* **
3102114 TAATAATAATGA
1 TAATAATCATTT
*
3102126 TAATAATGA-TT
1 TAATAATCATTT
3102137 TAATAAT
1 TAATAAT
3102144 AATAATGATA
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
11 16 0.23
12 36 0.51
14 19 0.27
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.43
Consensus pattern (12 bp):
TAATAATCATTT
Found at i:3102067 original size:23 final size:24
Alignment explanation
Indices: 3102040--3102266 Score: 156
Period size: 26 Copynumber: 9.0 Consensus size: 24
3102030 ATAATTTGAT
* *
3102040 AATAATCATTTTAGTAATGATTTGA
1 AATAATCATTATAATAATGATTT-A
3102065 TAATAATCATTATAATAATGATTTA
1 -AATAATCATTATAATAATGATTTA
3102090 GTAATAATCATTATAATAATGATTT-
1 --AATAATCATTATAATAATGATTTA
* *
3102115 AATAATAATGATAATAATGATTTAA
1 AATAATCATTATAATAATGATTT-A
* *
3102140 TAATAATAATGATAATAATGATTTA
1 -AATAATCATTATAATAATGATTTA
*
3102165 ATAGTAATTATTTTATAATAATGATTTA
1 A-A-TAATCA--TTATAATAATGATTTA
* * *
3102193 ATACTAATGATT-TAATAGTAATTT-
1 A-A-TAATCATTATAATAATGATTTA
* * *
3102217 ATTAATGATTTGATACTAATGATTT-
1 AATAATCA-TT-ATAATAATGATTTA
* *
3102242 ACTAATTATTATTAATAATGATTTA
1 AATAATCATTA-TAATAATGATTTA
3102267 TTATTAATAT
Statistics
Matches: 171, Mismatches: 17, Indels: 27
0.80 0.08 0.13
Matches are distributed among these distances:
22 6 0.04
23 24 0.14
24 15 0.09
25 28 0.16
26 75 0.44
28 23 0.13
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (24 bp):
AATAATCATTATAATAATGATTTA
Found at i:3102082 original size:3 final size:3
Alignment explanation
Indices: 3102064--3102158 Score: 52
Period size: 3 Copynumber: 32.7 Consensus size: 3
3102054 TAATGATTTG
* * * * * * * *
3102064 ATA ATA ATC ATT ATA ATA ATG AT- TTA GTA ATA ATC ATT ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
3102111 AT- TTA ATA ATA ATG ATA ATA ATG AT- TTA ATA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3102157 AT
1 AT
3102159 GATTTAATAG
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
2 3 0.04
3 66 0.96
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:3102130 original size:9 final size:9
Alignment explanation
Indices: 3102116--3102161 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
3102106 TAATGATTTA
3102116 ATAATAATG
1 ATAATAATG
3102125 ATAATAATG
1 ATAATAATG
* *
3102134 AT-TTAATA
1 ATAATAATG
3102142 ATAATAATG
1 ATAATAATG
3102151 ATAATAATG
1 ATAATAATG
3102160 AT
1 AT
3102162 TTAATAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (9 bp):
ATAATAATG
Found at i:3102155 original size:49 final size:49
Alignment explanation
Indices: 3102065--3102172 Score: 162
Period size: 49 Copynumber: 2.2 Consensus size: 49
3102055 AATGATTTGA
* * * * *
3102065 TAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAATGATT
1 TAATAATAATGATAATAATGATTTAATAATAATAATGATAATAATGATT
3102114 TAATAATAATGATAATAATGATTTAATAATAATAATGATAATAATGATT
1 TAATAATAATGATAATAATGATTTAATAATAATAATGATAATAATGATT
*
3102163 TAATAGTAAT
1 TAATAATAAT
3102173 TATTTTATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (49 bp):
TAATAATAATGATAATAATGATTTAATAATAATAATGATAATAATGATT
Found at i:3102166 original size:17 final size:17
Alignment explanation
Indices: 3102120--3102152 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3102110 GATTTAATAA
*
3102120 TAATGATAATAATGATT
1 TAATAATAATAATGATT
3102137 TAATAATAATAATGAT
1 TAATAATAATAATGAT
3102153 AATAATGATT
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:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (17 bp):
TAATAATAATAATGATT
Found at i:3102206 original size:14 final size:14
Alignment explanation
Indices: 3101955--3102281 Score: 158
Period size: 14 Copynumber: 25.1 Consensus size: 14
3101945 TCAATTAACC
*
3101955 ATAAAAATGATTTA
1 ATAATAATGATTTA
3101969 ATAAT-A--ATTT-
1 ATAATAATGATTTA
*
3101979 A-AATAATAATTTA
1 ATAATAATGATTTA
3101992 ATAATAA--ATTTA
1 ATAATAATGATTTA
*
3102004 ATATTTAATGATTTGA
1 ATA-ATAATGATTT-A
* * *
3102020 TGAGTTAGTAATAATTTG
1 --A--TAATAATGATTTA
*
3102038 ATAATAATCATTT-
1 ATAATAATGATTTA
* *
3102051 -TAGTAATGATTTG
1 ATAATAATGATTTA
*
3102064 ATAATAATCA-TT-
1 ATAATAATGATTTA
3102076 ATAATAATGATTTA
1 ATAATAATGATTTA
* *
3102090 GTAATAATCA-TT-
1 ATAATAATGATTTA
3102102 ATAATAATGATTTA
1 ATAATAATGATTTA
3102116 ATAATAATG-----
1 ATAATAATGATTTA
3102125 ATAATAATGATTTA
1 ATAATAATGATTTA
* *
3102139 ATAATAAT-A-ATG
1 ATAATAATGATTTA
3102151 ATAATAATGATTTA
1 ATAATAATGATTTA
* * *
3102165 ATAGTAATTATTTT
1 ATAATAATGATTTA
3102179 ATAATAATGATTTA
1 ATAATAATGATTTA
*
3102193 ATACTAATGATTTA
1 ATAATAATGATTTA
*
3102207 ATAGT-A--ATTT-
1 ATAATAATGATTTA
*
3102217 AT--TAATGATTTG
1 ATAATAATGATTTA
*
3102229 ATACTAATGATTTA
1 ATAATAATGATTTA
*
3102243 CTAAT--T-A-TTA
1 ATAATAATGATTTA
*
3102253 TTAATAATGATTTA
1 ATAATAATGATTTA
* *
3102267 TTATTAAT-ATTTA
1 ATAATAATGATTTA
3102280 AT
1 AT
3102282 TATTTGATAC
Statistics
Matches: 243, Mismatches: 34, Indels: 73
0.69 0.10 0.21
Matches are distributed among these distances:
8 1 0.00
9 13 0.05
10 11 0.05
11 13 0.05
12 52 0.21
13 23 0.09
14 113 0.47
15 4 0.02
16 2 0.01
18 1 0.00
19 8 0.03
20 2 0.01
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.45
Consensus pattern (14 bp):
ATAATAATGATTTA
Found at i:3102266 original size:49 final size:48
Alignment explanation
Indices: 3102076--3102269 Score: 174
Period size: 49 Copynumber: 3.9 Consensus size: 48
3102066 AATAATCATT
* * * *
3102076 ATAATAATGATTTAGTAATAATCATTATAATAATGATTTAATAATA-ATG
1 ATAATAATGATTTAATAATAATTA-T-TAATAATGATTTATTAATATTTG
* *
3102125 ATAATAATGATTTAATAATAATAATGATAATAATGATTTAATAGTAATTATTTT
1 ATAATAATGATTTAATAATAATTAT--TAATAATGATTT-AT--TAA-TATTTG
* * * *
3102179 ATAATAATGATTTAATACTAATGATTTAATAGTAATTTATTAATGATTTG
1 ATAATAATGATTTAATAATAATTA-TTAATAATGATTTATTAAT-ATTTG
* * *
3102229 ATACTAATGATTTACTAATTATTATTAATAATGATTTATTA
1 ATAATAATGATTTAATAATAATTATTAATAATGATTTATTA
3102270 TTAATATTTA
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
48 1 0.01
49 51 0.43
50 27 0.22
52 5 0.04
53 12 0.10
54 23 0.19
55 1 0.01
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (48 bp):
ATAATAATGATTTAATAATAATTATTAATAATGATTTATTAATATTTG
Found at i:3102284 original size:17 final size:17
Alignment explanation
Indices: 3102244--3102285 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
3102234 AATGATTTAC
3102244 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
3102261 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
3102278 TAATTATT
1 TAATTATT
3102286 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:3104592 original size:30 final size:29
Alignment explanation
Indices: 3104558--3104683 Score: 99
Period size: 30 Copynumber: 4.4 Consensus size: 29
3104548 TCCCTTAAAC
3104558 AACTAATAAACTATTCTTT-A-AT-A--T
1 AACTAATAAACTATTCTTTAATATAATTT
* *
3104582 AACT--TTAACTATTCTTTAATATGATGTT
1 AACTAATAAACTATTCTTTAATATAAT-TT
*
3104610 AACTAATAAACTATTCTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAA-TTT
3104640 AACTAATAAA-TGATT-TTTAATTATAATTT
1 AACTAATAAACT-ATTCTTTAA-TATAATTT
*
3104669 ACTACTAAAAAACTA
1 A--ACTAATAAACTA
3104684 ATTAACTAAT
Statistics
Matches: 82, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
22 12 0.15
23 1 0.01
24 6 0.07
25 1 0.01
28 5 0.06
29 9 0.11
30 37 0.45
31 10 0.12
32 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTAATAAACTATTCTTTAATATAATTT
Found at i:3104888 original size:21 final size:21
Alignment explanation
Indices: 3104864--3104903 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
3104854 TTTCTATATG
3104864 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
3104885 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
3104904 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:3104984 original size:18 final size:18
Alignment explanation
Indices: 3104931--3104985 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
3104921 TTGTTTTACC
*
3104931 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
3104949 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
3104961 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
3104978 CTAATTTA
1 CTAATTTA
3104986 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:3105044 original size:35 final size:37
Alignment explanation
Indices: 3105005--3105076 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
3104995 TCTTTTATAT
3105005 AACTT-AA-ACTAATAAACT-ATTTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTA-TATAATAA
3105040 AACTTAAACTACTAATAAACTAATTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTATATAATA
3105077 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 5 0.15
36 2 0.06
38 18 0.55
39 8 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.42
Consensus pattern (37 bp):
AACTTAAACACTAATAAACTAATTTTTTATATAATAA
Found at i:3105131 original size:27 final size:29
Alignment explanation
Indices: 3105101--3105165 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
3105091 ACAATATAAC
*
3105101 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
3105128 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
3105156 TTAATTATTT
1 TTAAATATTT
3105166 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:3105281 original size:9 final size:9
Alignment explanation
Indices: 3105249--3105286 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
3105239 CTAACAAACT
3105249 AATAATTTAA
1 AATAA-TTAA
3105259 AATAA-TAA
1 AATAATTAA
*
3105267 ACTAATTAA
1 AATAATTAA
3105276 AATAATTAA
1 AATAATTAA
3105285 AA
1 AA
3105287 AACTTACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:3105632 original size:29 final size:28
Alignment explanation
Indices: 3105600--3105678 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 28
3105590 CATAGGTCAT
3105600 TGGGATCCCTTGGCGACCTACAATGTCGC
1 TGGGATCCC-TGGCGACCTACAATGTCGC
3105629 TGGGATGCCCTGGCGACCTACAATGTCGC
1 TGGGAT-CCCTGGCGACCTACAATGTCGC
3105658 TGGGATTCCCTGGCGACCTAC
1 TGGGA-TCCCTGGCGACCTAC
3105679 CCACGTTGCC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.23
Consensus pattern (28 bp):
TGGGATCCCTGGCGACCTACAATGTCGC
Found at i:3105783 original size:60 final size:60
Alignment explanation
Indices: 3105711--3105832 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
3105701 TATGCTGCCA
3105711 CCAGACCCATGCCACGTTGCCATGCCGCCATGCACAACCATGCAGAGACTCCAAACTCGC
1 CCAGACCCATGCCACGTTGCCATGCCGCCATGCACAACCATGCAGAGACTCCAAACTCGC
* * *
3105771 CCAGACCCATGCCACGTTGTCATGCCGCCATGCACAGCCATGCAGAGACTCCAAGCTCGC
1 CCAGACCCATGCCACGTTGCCATGCCGCCATGCACAACCATGCAGAGACTCCAAACTCGC
3105831 CC
1 CC
3105833 GGATGCCATG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.25, C:0.42, G:0.20, T:0.14
Consensus pattern (60 bp):
CCAGACCCATGCCACGTTGCCATGCCGCCATGCACAACCATGCAGAGACTCCAAACTCGC
Found at i:3105842 original size:30 final size:28
Alignment explanation
Indices: 3105807--3105871 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
3105797 GCCATGCACA
3105807 GCCATGCAGAGACTCCAAGCTCGCCCGGAT
1 GCCATGC-GA-ACTCCAAGCTCGCCCGGAT
* *
3105837 GCCATGGCGACCTTCAAGCTCGCCCGGAT
1 GCCAT-GCGAACTCCAAGCTCGCCCGGAT
3105866 GCCATG
1 GCCATG
3105872 GCGAGCTACG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 22 0.69
30 7 0.22
31 2 0.06
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (28 bp):
GCCATGCGAACTCCAAGCTCGCCCGGAT
Found at i:3107206 original size:12 final size:12
Alignment explanation
Indices: 3107185--3107237 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
3107175 ATTACGTATT
3107185 TATT-TTATGTA
1 TATTATTATGTA
3107196 TATTATTATGTA
1 TATTATTATGTA
3107208 T-TTATTTTATGTA
1 TATTA--TTATGTA
*
3107221 TATTATTATATA
1 TATTATTATGTA
3107233 TATTA
1 TATTA
3107238 CTTTATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 7 0.19
12 19 0.51
13 8 0.22
14 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TATTATTATGTA
Found at i:3107229 original size:25 final size:25
Alignment explanation
Indices: 3107174--3107253 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
3107164 ATGTTTTATG
*
3107174 TATTACGTATTTATTTTATGTATAT
1 TATTATGTATTTATTTTATGTATAT
3107199 TATTATGTATTTATTTTATGTATAT
1 TATTATGTATTTATTTTATGTATAT
* *
3107224 TATTATATATATTACTTTAT-TATAT
1 TATTATGTAT-TTATTTTATGTATAT
3107249 ATATT
1 -TATT
3107254 TATATAATGC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
25 38 0.76
26 12 0.24
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (25 bp):
TATTATGTATTTATTTTATGTATAT
Found at i:3111023 original size:30 final size:30
Alignment explanation
Indices: 3110989--3111051 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
3110979 GCTATATGAA
* * *
3110989 CTATGTGATAAAGGTATGGAAATGATGTGT
1 CTATGTGATAAAAGTATGGAAATAATATGT
3111019 CTATGTGATAAAAGTATGGAAATAATATGT
1 CTATGTGATAAAAGTATGGAAATAATATGT
3111049 CTA
1 CTA
3111052 CGCGATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAAGTATGGAAATAATATGT
Found at i:3113758 original size:14 final size:14
Alignment explanation
Indices: 3113741--3113823 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
3113731 AAATACACAC
*
3113741 AAAAAGAAAG-TAA
1 AAAAAGAAAGAAAA
*
3113754 AAAAAGAAAAAAGAA
1 AAAAAGAAAGAA-AA
*
3113769 AAAAATAAAGAGAAA
1 AAAAAGAAAGA-AAA
3113784 AAAAAGAAA-AACAA
1 AAAAAGAAAGAA-AA
*
3113798 AAGAA-AAAGAGAAA
1 AAAAAGAAAGA-AAA
3113812 AAAAAG-AAGAAA
1 AAAAAGAAAGAAA
3113824 GAAGAAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
13 15 0.27
14 18 0.32
15 22 0.39
16 1 0.02
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:3113765 original size:7 final size:7
Alignment explanation
Indices: 3113753--3113831 Score: 60
Period size: 7 Copynumber: 11.6 Consensus size: 7
3113743 AAAGAAAGTA
3113753 AAAAAAG
1 AAAAAAG
3113760 AAAAAAG
1 AAAAAAG
3113767 AAAAAA-
1 AAAAAAG
*
3113773 ATAAAGAG
1 A-AAAAAG
3113781 AAAAAA-
1 AAAAAAG
3113787 AAGAAAA-
1 AA-AAAAG
*
3113794 ACAAAAG
1 AAAAAAG
3113801 -AAAAAG
1 AAAAAAG
3113807 AGAAAAA-
1 A-AAAAAG
*
3113814 AAAGAAG
1 AAAAAAG
*
3113821 AAAGAAG
1 AAAAAAG
3113828 AAAA
1 AAAA
3113832 TAGACAGAAC
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
6 16 0.27
7 37 0.63
8 6 0.10
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:3113766 original size:20 final size:18
Alignment explanation
Indices: 3113741--3113831 Score: 83
Period size: 19 Copynumber: 4.6 Consensus size: 18
3113731 AAATACACAC
3113741 AAAAAGAAAGTAAAAAAAGA
1 AAAAAGAAA--AAAAAAAGA
3113761 AAAAAGAAAAAAATAAAGAGAAA
1 AAAAAG-AAAAAA-AAA-AG--A
*
3113784 AAAAAGAAAAACAAAAGA
1 AAAAAGAAAAAAAAAAGA
3113802 AAAAGAGAAAAAAAAGAAGA
1 AAAA-AGAAAAAAAA-AAGA
*
3113822 AAGAAGAAAA
1 AAAAAGAAAA
3113832 TAGACAGAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.08
19 18 0.30
20 18 0.30
21 8 0.13
22 5 0.08
23 7 0.11
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAAAAAAAAGA
Found at i:3113772 original size:28 final size:27
Alignment explanation
Indices: 3113741--3113831 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 27
3113731 AAATACACAC
* *
3113741 AAAAAGAAAGTAAAAAAAGAAAAAAGAA
1 AAAAAAAAAGAAAAAAAAGAAAAAAG-A
3113769 AAAAATAAAGAGAAAAAAAAGAAAAACA-A
1 AAAAA-AAA-AGAAAAAAAAGAAAAA-AGA
* *
3113798 AAGAAAAAGAGAAAAAAAAGAAGAAAGA
1 AA-AAAAAAAGAAAAAAAAGAAAAAAGA
*
3113826 AGAAAA
1 AAAAAA
3113832 TAGACAGAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.09
28 22 0.42
29 7 0.13
30 18 0.34
31 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.02
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAAGAAAAAAGA
Found at i:3113772 original size:40 final size:42
Alignment explanation
Indices: 3113711--3113815 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 42
3113701 ACACAGAGAG
* * *
3113711 AAAA-AAAAGAGACAGAGAA-AAAATACACACAAAAAGAAAG-
1 AAAACAAAAGAAAAAGAGAAAAAAATAAACACAAAAA-AAAGA
* * *
3113751 TAAA-AAAAGAAAAA-AGAAAAAAATAAAGAGAAAAAAAAGA
1 AAAACAAAAGAAAAAGAGAAAAAAATAAACACAAAAAAAAGA
3113791 AAAACAAAAGAAAAAGAGAAAAAAA
1 AAAACAAAAGAAAAAGAGAAAAAAA
3113816 AGAAGAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 8 0.15
40 27 0.50
41 10 0.19
42 9 0.17
ACGTcount: A:0.79, C:0.05, G:0.13, T:0.03
Consensus pattern (42 bp):
AAAACAAAAGAAAAAGAGAAAAAAATAAACACAAAAAAAAGA
Found at i:3113789 original size:11 final size:11
Alignment explanation
Indices: 3113760--3113823 Score: 57
Period size: 12 Copynumber: 6.1 Consensus size: 11
3113750 GTAAAAAAAG
*
3113760 AAAAAAGAAAA
1 AAAAAAGAGAA
3113771 AAATAAAGAGAA
1 AAA-AAAGAGAA
3113783 AAAAAAGA-AA
1 AAAAAAGAGAA
*
3113793 AACAAA-AG--
1 AAAAAAGAGAA
3113801 -AAAAAGAGAA
1 AAAAAAGAGAA
3113811 AAAAAAGAAGAA
1 AAAAAAG-AGAA
3113823 A
1 A
3113824 GAAGAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
9 1 0.02
10 7 0.16
11 14 0.33
12 15 0.35
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:3115540 original size:2 final size:2
Alignment explanation
Indices: 3115533--3115572 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3115523 ACAAGAAAGG
3115533 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3115573 TACATACATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.