Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_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: 1416293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1143 original size:8 final size:8
Alignment explanation
Indices: 1130--1157 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1120 CGAAAAGAAG
1130 ATATATAC
1 ATATATAC
1138 ATATATAC
1 ATATATAC
1146 ATATATAC
1 ATATATAC
1154 ATAT
1 ATAT
1158 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:11032 original size:2 final size:2
Alignment explanation
Indices: 11025--11049 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11015 ACTTATATGC
11025 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11050 CATGACTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11925 original size:104 final size:104
Alignment explanation
Indices: 11760--11955 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 104
11750 CCTATGGAGA
* * * *
11760 TTTCGACTAAAAGTCTAATTACTGATGTAGGTAATAACTGTTACTTATGGGAAATAAAGGAAATC
1 TTTCGACTAAAAGCCTAATTACCGATGTAGGTAATAACTATTACTTATGAGAAATAAAGGAAATC
*
11825 AATGCTTGAACGTTCGGAGGACTTGGCAACCTATAAATG
66 AATGCTTGAACGTTCGAAGGACTTGGCAACCTATAAATG
* * **
11864 TTTCGACTAAAAGCCTAATTACCGATTTAGGTAATCACTATTACTTATGAGAAATCTAGGAAATC
1 TTTCGACTAAAAGCCTAATTACCGATGTAGGTAATAACTATTACTTATGAGAAATAAAGGAAATC
*
11929 AATGCTTGAACGTTTGAAGGACTTGGC
66 AATGCTTGAACGTTCGAAGGACTTGGC
11956 GACCAACCCT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 82 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (104 bp):
TTTCGACTAAAAGCCTAATTACCGATGTAGGTAATAACTATTACTTATGAGAAATAAAGGAAATC
AATGCTTGAACGTTCGAAGGACTTGGCAACCTATAAATG
Found at i:12139 original size:6 final size:6
Alignment explanation
Indices: 12128--12156 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12118 TTTAGACGTG
12128 AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGA
12157 GGAAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:12337 original size:16 final size:16
Alignment explanation
Indices: 12287--12337 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
12277 TTAAACATTT
12287 TAAAAATAAAATTTTA
1 TAAAAATAAAATTTTA
*
12303 T-AAAAT-AAATATTA
1 TAAAAATAAAATTTTA
*
12317 AAAAAATAAAATTTTA
1 TAAAAATAAAATTTTA
12333 TAAAA
1 TAAAA
12338 TATACTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 7 0.24
15 10 0.34
16 12 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATAAAATTTTA
Found at i:12346 original size:15 final size:15
Alignment explanation
Indices: 12278--12339 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
12268 TTAATTATTT
12278 TAAACATTTTA-AAAA
1 TAAA-ATTTTATAAAA
12293 TAAAATTTTATAAAA
1 TAAAATTTTATAAAA
* *
12308 T-AAATATTAAAAAAA
1 TAAAAT-TTTATAAAA
12323 TAAAATTTTATAAAA
1 TAAAATTTTATAAAA
12338 TA
1 TA
12340 TACTTTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.25
15 26 0.65
16 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATTTTATAAAA
Found at i:13521 original size:2 final size:2
Alignment explanation
Indices: 13514--13538 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13504 ATAATAAAAT
13514 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13539 TTGTCGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14292 original size:2 final size:2
Alignment explanation
Indices: 14285--14318 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14275 CAAATCTTTC
14285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14319 TAATATGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15721 original size:3 final size:3
Alignment explanation
Indices: 15715--15752 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
15705 TATTATTTAT
*
15715 TAA TAA TAA TTA TAA TAA TAA TAA T-A TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
15753 TAAAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:16339 original size:136 final size:136
Alignment explanation
Indices: 15912--16423 Score: 666
Period size: 136 Copynumber: 3.7 Consensus size: 136
15902 AAACTGGTGT
* * * * * *
15912 ATGACATTGTT-CTTCGTGATGAGGACATTTGGTCATATTTAGAGATAAATAGTGATAACACAGT
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTA-AGAT-ATTTGAGATAACACAGT
** * * * *
15976 TCCTTTGTGATGAGGACGTCTGGTTATCTAAGGATGACACGACTCTTTCGTGATGAGAAATTCTG
64 TCCTTCATGATAAGGACGTCTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGAAGTTCTG
16041 ATTGGTAG
129 ATTGGTAG
* * **
16049 ATGATATTGTTCCTTCTTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACATGGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACAGTTC
* * *
16114 CTTCATGATGAGGACGTGATGTCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGAAGTT
66 CTTCATGAT-A--A-G-GACGTCTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGAAGTT
16179 CTGATTGGTAG
126 CTGATTGGTAG
* * *
16190 ATGACATTGTTCCTTTGTGATGAGAACATCTGGCCATCTTTAAGATATTTGAGATAACACGGTTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACAGTTC
* * * * * *
16255 CTTCCTGATAAGGATGCCTAGTTATCTAAGGATGACGCAACTCCTTCGTGATGAGGAGTTCTGAT
66 CTTCATGATAAGGACGTCTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGAAGTTCTGAT
16320 TGGTAG
131 TGGTAG
* * *
16326 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGGTATTTGAGATAATACAATTC
1 ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACAGTTC
*
16391 CTTCATGATGAGGACGTCTGGTTATCTAAGGAT
66 CTTCATGATAAGGACGTCTGGTTATCTAAGGAT
16424 TTTTGTTTCC
Statistics
Matches: 327, Mismatches: 42, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
136 161 0.49
137 15 0.05
138 27 0.08
139 1 0.00
140 2 0.01
141 121 0.37
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (136 bp):
ATGACATTGTTCCTTCGTGATGAGGACATCTGGCCATCTTTAAGATATTTGAGATAACACAGTTC
CTTCATGATAAGGACGTCTGGTTATCTAAGGATGACGCGACTCCTTCGTGATGAGAAGTTCTGAT
TGGTAG
Found at i:19946 original size:40 final size:40
Alignment explanation
Indices: 19886--20047 Score: 270
Period size: 40 Copynumber: 4.0 Consensus size: 40
19876 TGTAGGTTTA
*
19886 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
* *
19926 TAATGCACTTCGGTATATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
* *
19966 TAATACACTTCGGTGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
*
20006 TAATACACTTTGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
20046 TA
1 TA
20048 GCACTACGGT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
Found at i:20247 original size:45 final size:45
Alignment explanation
Indices: 20152--20331 Score: 220
Period size: 45 Copynumber: 4.0 Consensus size: 45
20142 GCAACCATGC
* * *
20152 AAATAAGCTTACGAGCTTATGGAAT-AATGGAAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
* *
20196 AAATAAGCTTACAAGCTTATGGATTAAGTGGTAAGTATATTGATA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
* * * * *
20241 AAATAAGCTTA-AGAGCTTATGGAACAAAAGGTATGCATATTGGTA
1 AAATAAGCTTACA-AGCTTATGGAATAAATGGTAAGTATATTGATA
* * *
20286 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTAGATTGATA
1 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
20331 A
1 A
20332 GAAATGTTAT
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 24 0.21
45 89 0.79
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:20304 original size:90 final size:89
Alignment explanation
Indices: 20152--20331 Score: 254
Period size: 90 Copynumber: 2.0 Consensus size: 89
20142 GCAACCATGC
* * * *
20152 AAATAAGCTTACGAGCTTATGGAATAATGGAAAGTATATTGGTAAAATAAGCTTACAAGCTTAT-
1 AAATAAGCTTAAGAGCTTATGGAAAAAAGGAAAGCATATTGGTAAAATAAGCTTACAAGCTTATG
* *
20216 GGATTAAGTGGTAAGTATATTGATA
66 GGA-TAAATGGTAAGTAGATTGATA
* * *
20241 AAATAAGCTTAAGAGCTTATGGAACAAAAGGTATGCATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTAAGAGCTTATGGAA-AAAAGGAAAGCATATTGGTAAAATAAGCTTACAAGCTTAT
20306 GGGATAAATGGTAAGTAGATTGATA
65 GGGATAAATGGTAAGTAGATTGATA
20331 A
1 A
20332 GAAATGTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 23 0.29
90 54 0.68
91 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (89 bp):
AAATAAGCTTAAGAGCTTATGGAAAAAAGGAAAGCATATTGGTAAAATAAGCTTACAAGCTTATG
GGATAAATGGTAAGTAGATTGATA
Found at i:22180 original size:26 final size:26
Alignment explanation
Indices: 22147--22212 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
22137 GCATGGTCTT
22147 GTGCATCGATGCATCAAATGCATTGA
1 GTGCATCGATGCATCAAATGCATTGA
***
22173 GTGCATCGATGCATGGTATGCATTGA
1 GTGCATCGATGCATCAAATGCATTGA
22199 GTGCATCGATGCAT
1 GTGCATCGATGCAT
22213 GGTATGTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (26 bp):
GTGCATCGATGCATCAAATGCATTGA
Found at i:22284 original size:20 final size:20
Alignment explanation
Indices: 22259--22296 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22249 TGAAAAATTA
22259 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
22279 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
22297 CACCTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:22662 original size:17 final size:17
Alignment explanation
Indices: 22640--22683 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
22630 TCCCCCTTAC
22640 TTTAACACTTCTCCCTT
1 TTTAACACTTCTCCCTT
22657 TTTAACACTTCTCCCTT
1 TTTAACACTTCTCCCTT
22674 TTTAACACTT
1 TTTAACACTT
22684 AATATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAACACTTCTCCCTT
Found at i:24927 original size:20 final size:20
Alignment explanation
Indices: 24902--24974 Score: 146
Period size: 20 Copynumber: 3.6 Consensus size: 20
24892 ACCCGACGGA
24902 TGCATCGATGCATGACCCTG
1 TGCATCGATGCATGACCCTG
24922 TGCATCGATGCATGACCCTG
1 TGCATCGATGCATGACCCTG
24942 TGCATCGATGCATGACCCTG
1 TGCATCGATGCATGACCCTG
24962 TGCATCGATGCAT
1 TGCATCGATGCAT
24975 ATTCAAGGCG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATGACCCTG
Found at i:28897 original size:21 final size:21
Alignment explanation
Indices: 28873--28912 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
28863 AAGACTATTT
28873 TCATTTTTCA-ATTTTGAAACA
1 TCATTTTT-ATATTTTGAAACA
28894 TCATTTTTATATTTTGAAA
1 TCATTTTTATATTTTGAAA
28913 ATAGAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (21 bp):
TCATTTTTATATTTTGAAACA
Found at i:29526 original size:16 final size:16
Alignment explanation
Indices: 29507--29537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29497 ATAATTGTCA
29507 TTTTCTTTGATTGCCG
1 TTTTCTTTGATTGCCG
*
29523 TTTTCTTTTATTGCC
1 TTTTCTTTGATTGCC
29538 ATAATTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.19, G:0.13, T:0.61
Consensus pattern (16 bp):
TTTTCTTTGATTGCCG
Found at i:31008 original size:45 final size:46
Alignment explanation
Indices: 30917--31008 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
30907 TGAAAAAGCC
* * *
30917 TGAGTGCATCAATGCATGGTCTTGTGTATCGATGCATCAAATGCAT
1 TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCAT
*
30963 TGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCAT
1 TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCAT
31008 T
1 T
31009 CGATGTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 23 0.55
46 19 0.45
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (46 bp):
TGAGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCAT
Found at i:31051 original size:20 final size:20
Alignment explanation
Indices: 31026--31063 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31016 TGAAAAATTA
31026 ATTGGTACATCGATGCATAG
1 ATTGGTACATCGATGCATAG
* *
31046 ATTGGTGCATCGGTGCAT
1 ATTGGTACATCGATGCAT
31064 CACCTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATAG
Found at i:36874 original size:45 final size:45
Alignment explanation
Indices: 36783--36962 Score: 249
Period size: 45 Copynumber: 4.0 Consensus size: 45
36773 GCAACCATGC
* * *
36783 AAATAAGCTTATGAGCTTATGGAAT-AATGGCAAATATATTTG-TA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATA-TTGATA
*
36827 AAATAAGCTTACGAGCTTATGGATTAAATGGTAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
* * *
36872 AAATAAGCTTACGAGCTTATGGAACAAAAGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
*
36917 AAATAAGCTTACGAGCTTAT-GAGATAAATGGTAAGTAGATTGATA
1 AAATAAGCTTACGAGCTTATGGA-ATAAATGGTAAGTATATTGATA
36962 A
1 A
36963 GAAATGTTAT
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
44 28 0.23
45 93 0.77
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATA
Found at i:37509 original size:13 final size:13
Alignment explanation
Indices: 37470--37513 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
37460 TCGATTCCCC
37470 CACTGTTCACTGTT
1 CACTGTT-ACTGTT
* * *
37484 CACGGGTATTGTT
1 CACTGTTACTGTT
37497 CACTGTTACTGTT
1 CACTGTTACTGTT
37510 CACT
1 CACT
37514 ATTCATTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (13 bp):
CACTGTTACTGTT
Found at i:46462 original size:25 final size:25
Alignment explanation
Indices: 46427--46499 Score: 130
Period size: 25 Copynumber: 3.0 Consensus size: 25
46417 ACGAATTTTC
46427 TTGGG-TAAGTAGGTCGAATACCTT
1 TTGGGTTAAGTAGGTCGAATACCTT
*
46451 TTGGGTTAAGTAGGTCGAATACATT
1 TTGGGTTAAGTAGGTCGAATACCTT
46476 TTGGGTTAAGTAGGTCGAATACCT
1 TTGGGTTAAGTAGGTCGAATACCT
46500 AAAAATTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
24 5 0.11
25 41 0.89
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (25 bp):
TTGGGTTAAGTAGGTCGAATACCTT
Found at i:46807 original size:2 final size:2
Alignment explanation
Indices: 46800--46827 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46790 TTAAAGTAAC
46800 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46828 CTTAAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47135 original size:2 final size:2
Alignment explanation
Indices: 47128--47205 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
47118 CAAATCTTTC
47128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47170 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47206 TAATATGACT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49814 original size:2 final size:2
Alignment explanation
Indices: 49807--49832 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49797 AAATATTTTA
49807 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
49833 TTCTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53665 original size:30 final size:30
Alignment explanation
Indices: 53629--53685 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
53619 CAGGAAACAC
*
53629 GGGATGGTGGGATGGTAGGTGTTGAAATAT
1 GGGATGGTGAGATGGTAGGTGTTGAAATAT
53659 GGGATGGTGAGATGGTAGGTGTTGAAA
1 GGGATGGTGAGATGGTAGGTGTTGAAA
53686 AATTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.47, T:0.28
Consensus pattern (30 bp):
GGGATGGTGAGATGGTAGGTGTTGAAATAT
Found at i:54259 original size:26 final size:26
Alignment explanation
Indices: 54197--54259 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
54187 CACGTACAAA
* *
54197 TAATATAAAATAATTTTAAACTAATC
1 TAATATAAACTAATTTTAAACCAATC
* * *
54223 TAATTTGAACTAATTTTAAACCAATT
1 TAATATAAACTAATTTTAAACCAATC
*
54249 TAATCTAAACT
1 TAATATAAACT
54260 GATCTAAACT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.40
Consensus pattern (26 bp):
TAATATAAACTAATTTTAAACCAATC
Found at i:55076 original size:29 final size:30
Alignment explanation
Indices: 55022--55079 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55012 TAATTCAAAT
*
55022 AAAAATATAATTAAATTATGATTTTTATTA
1 AAAAATATAATTAAATTATGAATTTTATTA
*
55052 AAAAATTATAA-TAATTTA-GAATTTTATT
1 AAAAA-TATAATTAAATTATGAATTTTATT
55080 TGTTTAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 11 0.44
31 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
AAAAATATAATTAAATTATGAATTTTATTA
Found at i:55560 original size:21 final size:21
Alignment explanation
Indices: 55533--55591 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
55523 GTCCGAGTTA
*
55533 CCCGCGACGGCCACAATAGCG
1 CCCGCGACGGCCGCAATAGCG
* * *
55554 TCCGCGATGACCGCAATAGCG
1 CCCGCGACGGCCGCAATAGCG
*
55575 CCCACGACGGCCGCAAT
1 CCCGCGACGGCCGCAAT
55592 CACGATAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.41, G:0.27, T:0.08
Consensus pattern (21 bp):
CCCGCGACGGCCGCAATAGCG
Found at i:56578 original size:26 final size:26
Alignment explanation
Indices: 56549--56598 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
56539 TATTAAAATT
*
56549 AGGACTAAA-TATTACATTCTAAACTA
1 AGGACTAAATTA-TAAATTCTAAACTA
*
56575 AGGATTAAATTATAAATTCTAAAC
1 AGGACTAAATTATAAATTCTAAAC
56599 AATAGGAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (26 bp):
AGGACTAAATTATAAATTCTAAACTA
Found at i:57798 original size:19 final size:19
Alignment explanation
Indices: 57774--57816 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
57764 ATGAAAATTT
*
57774 TAAAAATAT-TTAGCAATAA
1 TAAAAATATATTA-AAATAA
57793 TAAAAATATATTAAAATAA
1 TAAAAATATATTAAAATAA
57812 TAAAA
1 TAAAA
57817 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAATATATTAAAATAA
Found at i:57831 original size:23 final size:23
Alignment explanation
Indices: 57791--57860 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
57781 ATTTAGCAAT
57791 AATAAAAATATATTAAAATAATAA
1 AATAAAAAT-TATTAAAATAATAA
* *
57815 AATAAAAATTATGAAAATTAA-AC
1 AATAAAAATTATTAAAA-TAATAA
57838 AAT-AAAA-TATTAAAA-AATAA
1 AATAAAAATTATTAAAATAATAA
57858 AAT
1 AAT
57861 TTATAAAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 7 0.17
22 4 0.10
23 11 0.28
24 12 0.30
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (23 bp):
AATAAAAATTATTAAAATAATAA
Found at i:57869 original size:16 final size:15
Alignment explanation
Indices: 57800--57869 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
57790 TAATAAAAAT
57800 ATATTAAAATAATAAA
1 ATATTAAAA-AATAAA
* *
57816 ATA--AAAATTATGAA
1 ATATTAAAA-AATAAA
*
57830 A-ATTAAACAATAAA
1 ATATTAAAAAATAAA
57844 ATATTAAAAAATAAA
1 ATATTAAAAAATAAA
57859 AT-TTATAAAAA
1 ATATTA-AAAAA
57870 GTATTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 1 0.02
14 18 0.41
15 22 0.50
16 3 0.07
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (15 bp):
ATATTAAAAAATAAA
Found at i:59416 original size:16 final size:16
Alignment explanation
Indices: 59395--59428 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59385 AACGATTCAA
59395 GCAGAACTGGCAGGCG
1 GCAGAACTGGCAGGCG
59411 GCAGAACTGGCAGGCG
1 GCAGAACTGGCAGGCG
59427 GC
1 GC
59429 GGTATTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.44, T:0.06
Consensus pattern (16 bp):
GCAGAACTGGCAGGCG
Found at i:59608 original size:21 final size:22
Alignment explanation
Indices: 59584--59626 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
59574 CGATTCATAA
* *
59584 TTTTATAAATTT-GATTTAATT
1 TTTTAAAAATTTAAATTTAATT
59605 TTTTAAAAATTTAAATTTAATT
1 TTTTAAAAATTTAAATTTAATT
59627 ATAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAAAATTTAAATTTAATT
Found at i:60394 original size:38 final size:38
Alignment explanation
Indices: 60342--60430 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 38
60332 CCCGACCCAA
*
60342 TCGGGTCGGATTTTTTTTAAA-AAAAATTCGGGTTCGGG
1 TCGGGTCGGGTTTTTTTTAAAGAAAAATTCGGG-TCGGG
* ***
60380 TCGGGTCGGG-TTTTTTTAAATGCACTGTTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTTAAA-GAAAAATTCGGGTCGGG
60418 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
60431 AGGGTAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
37 10 0.23
38 24 0.56
39 9 0.21
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.37
Consensus pattern (38 bp):
TCGGGTCGGGTTTTTTTTAAAGAAAAATTCGGGTCGGG
Found at i:62820 original size:23 final size:23
Alignment explanation
Indices: 62794--62871 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
62784 CACCACAGCT
62794 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
62817 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
62840 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
62863 TATAATAAT
1 CAT-ATAAT
62872 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:63049 original size:103 final size:103
Alignment explanation
Indices: 62878--63095 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
62868 TAATGTCCAT
* * *
62878 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATTAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
62943 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
62981 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
63046 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
63084 AAGGACCACATA
1 AAGGACCACATA
63096 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:64779 original size:71 final size:72
Alignment explanation
Indices: 64668--64825 Score: 282
Period size: 71 Copynumber: 2.2 Consensus size: 72
64658 TTCCCTTTAG
64668 GGGGTATCGATTCCCTACTGTGGGGGGGTATCGGTTCCCCTCTGGAATTCTGGAATTCCATGTTC
1 GGGGTATCGATTCCCTACTGTGGGGGGGTATCGGTTCCCCTCTGGAATTCTGGAATTCCATGTTC
64733 GTTTGAA
66 GTTTGAA
* *
64740 GGGGTATCGATTCCCTACTGT-TGGGGGTATCGGTTCCCCTCTGGCATTCTGGAATTCCATGTTC
1 GGGGTATCGATTCCCTACTGTGGGGGGGTATCGGTTCCCCTCTGGAATTCTGGAATTCCATGTTC
*
64804 GTTTGAG
66 GTTTGAA
64811 GGGGTATCGATTCCC
1 GGGGTATCGATTCCC
64826 CTTGAATGGG
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
71 62 0.75
72 21 0.25
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.34
Consensus pattern (72 bp):
GGGGTATCGATTCCCTACTGTGGGGGGGTATCGGTTCCCCTCTGGAATTCTGGAATTCCATGTTC
GTTTGAA
Found at i:65644 original size:19 final size:20
Alignment explanation
Indices: 65620--65666 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
65610 AATGATTTTC
* *
65620 TTTTGAAATCAAAAAT-AGA
1 TTTTGAAAGCAAAAATGAAA
*
65639 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAGCAAAAATGAAA
65659 TTTTGAAA
1 TTTTGAAA
65667 AAAGATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (20 bp):
TTTTGAAAGCAAAAATGAAA
Found at i:67156 original size:21 final size:20
Alignment explanation
Indices: 67120--67198 Score: 97
Period size: 20 Copynumber: 3.9 Consensus size: 20
67110 GAATGTCCAG
67120 GGGGTACCGATTCCCCCCAA
1 GGGGTACCGATTCCCCCCAA
*
67140 GGGGTACCGATTCCCCCCAG
1 GGGGTACCGATTCCCCCCAA
* *
67160 GGGGAACAGATTCCCCTCC-A
1 GGGGTACCGATTCCCC-CCAA
67180 GGGGATACCGATTTCCCCC
1 GGGG-TACCGA-TTCCCCC
67199 TGTCTAACTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 37 0.74
21 7 0.14
22 6 0.12
ACGTcount: A:0.19, C:0.38, G:0.27, T:0.16
Consensus pattern (20 bp):
GGGGTACCGATTCCCCCCAA
Found at i:67172 original size:40 final size:41
Alignment explanation
Indices: 67116--67198 Score: 116
Period size: 40 Copynumber: 2.0 Consensus size: 41
67106 AACAGAATGT
* *
67116 CCAGGGGGTACCGATTCCCC-CCAAGGGG-TACCGATTCCCC
1 CCAGGGGGAACAGATTCCCCTCC-AGGGGATACCGATTCCCC
*
67156 CCAGGGGGAACAGATTCCCCTCCAGGGGATACCGATTTCCC
1 CCAGGGGGAACAGATTCCCCTCCAGGGGATACCGATTCCCC
67197 CC
1 CC
67199 TGTCTAACTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 23 0.61
41 15 0.39
ACGTcount: A:0.19, C:0.39, G:0.27, T:0.16
Consensus pattern (41 bp):
CCAGGGGGAACAGATTCCCCTCCAGGGGATACCGATTCCCC
Found at i:72451 original size:54 final size:55
Alignment explanation
Indices: 72370--72491 Score: 165
Period size: 56 Copynumber: 2.2 Consensus size: 55
72360 TTGTGAATCC
* *
72370 AGGTAGATTTTTTGGTTCCTTTTCAGT-GATGCTTGTGAATCTCAGGGAATATTTT
1 AGGTAGA-TTTTTGGTTCCTTTACAGTGGATGCTTGTGAATCCCAGGGAATATTTT
* * *
72425 AGGTAGATTTTTGGTTCGTTTACAGTGGGATTCTTGTGAATCCCAGGGAATGTTTT
1 AGGTAGATTTTTGGTTCCTTTACAGT-GGATGCTTGTGAATCCCAGGGAATATTTT
*
72481 AGGTATATTTT
1 AGGTAGATTTT
72492 GTTATTAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 17 0.29
55 7 0.12
56 35 0.59
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.44
Consensus pattern (55 bp):
AGGTAGATTTTTGGTTCCTTTACAGTGGATGCTTGTGAATCCCAGGGAATATTTT
Found at i:75880 original size:21 final size:21
Alignment explanation
Indices: 75855--75903 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
75845 CTTATTGCTA
75855 TCTTTTCCCTTTTATATCATT
1 TCTTTTCCCTTTTATATCATT
75876 TCTTTTCCCTTTTATATCATT
1 TCTTTTCCCTTTTATATCATT
75897 TCTTTTC
1 TCTTTTC
75904 GGCTCACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.12, C:0.24, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTTTTCCCTTTTATATCATT
Found at i:81332 original size:34 final size:34
Alignment explanation
Indices: 81294--81361 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
81284 CCTTTTTGTG
81294 ATTGTACTAATTCTTGTGTACGTTTTCTTTTCTT
1 ATTGTACTAATTCTTGTGTACGTTTTCTTTTCTT
81328 ATTGTACTAATTCTTGTGTACGTTTTCTTTTCTT
1 ATTGTACTAATTCTTGTGTACGTTTTCTTTTCTT
81362 TCTTTTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (34 bp):
ATTGTACTAATTCTTGTGTACGTTTTCTTTTCTT
Found at i:86798 original size:210 final size:212
Alignment explanation
Indices: 86160--86974 Score: 1200
Period size: 210 Copynumber: 3.8 Consensus size: 212
86150 ATTTAAGAAT
86160 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
**
86225 GGATCAAATCGAAATAATTTTAAATAATGAGGTTGAAATTAATACAAAAAAAGTACTAAATTATA
63 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATAC-AAAAAAGTACTAAATTATA
* *
86290 CCCATTT-AAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCA
127 CCCATTTAAAAAGTTATGGGCCAATTAAAAATATA-AA-TAAGTAATAAGTATGGGTCAATTTCA
*
86354 TATGCAAATAAAATTTGGAGGAC
190 AATGCAAATAAAATTTGGAGGAC
*
86377 TAAATTGAACAAATATGAAATTACAAATACAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACA-T-A-GAG
* * * *
86442 GGATCAAATCGAAATAATATTAAATTGTGATGTTGAAACTAATACAAAAAA-TACTAAATTATAC
63 GGATCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
86506 CCATTTAAAAAGTTATGGGTCAATTTAAAAATAGAAATAAGTAATAAGTATAGGTCAATTTCAAA
128 CCATTTAAAAAGTTATGGGCCAA-TTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAA
***
86571 TGCAAA-ATTTTTTTGGAGGAC
192 TGCAAATA-AAATTTGGAGGAC
*
86592 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* *
86654 TCAAATCAAAATAA-TTTAAATTTTTGAGGTTGAAATTAATACAAAAAAGTACTGAATTATACCC
66 TCAAATCGAAATAATTTTAAA-TTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCC
* **
86718 ATTTAAAAAGTTATGGACCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGGTG
130 ATTTAAAAAGTTATGGGCCAA-TTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAATG
86783 CAAATAAAATTTGGAGGAC
194 CAAATAAAATTTGGAGGAC
* *
86802 TAAATTTAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A-A-AGGGA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
* *
86864 TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATACTCA
66 TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
86929 TTTAAAAAGTTATGGGCCAATTAATAAATATAAATAAGTAATAAGT
131 TTTAAAAAGTTATGGGCCAATTAA-AAATATAAATAAGTAATAAGT
86975 TGAGAAAAAA
Statistics
Matches: 552, Mismatches: 38, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
208 5 0.01
209 46 0.08
210 242 0.44
211 8 0.01
214 2 0.00
215 113 0.20
216 23 0.04
217 113 0.20
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (212 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATAGAGGGA
TCAAATCGAAATAATTTTAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCA
TTTAAAAAGTTATGGGCCAATTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAATGCA
AATAAAATTTGGAGGAC
Found at i:87028 original size:20 final size:19
Alignment explanation
Indices: 87003--87116 Score: 70
Period size: 20 Copynumber: 5.7 Consensus size: 19
86993 AACTAATTAA
87003 TATATATATATAATATAAAC
1 TATATATATAT-ATATAAAC
* *
87023 TATATAGTTTATATATAAAG
1 TATATA-TATATATATAAAC
* *
87043 TATATGTATTATATATATA-
1 TATATATA-TATATATAAAC
* * *
87062 TATTATGTATAAAGCATAAAC
1 TA-TATATATATA-TATAAAC
* *
87083 TATATATACCATGTATAAAC
1 TATATATA-TATATATAAAC
87103 TATA-ATACTATATA
1 TATATATA-TATATA
87117 GTTTATATAT
Statistics
Matches: 73, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
19 14 0.19
20 52 0.71
21 7 0.10
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:87172 original size:11 final size:11
Alignment explanation
Indices: 87158--87276 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
87148 ACTAAATAGT
87158 TTATATATAAA
1 TTATATATAAA
*
87169 TTATATATGAA
1 TTATATATAAA
87180 TTATATATAAA
1 TTATATATAAA
* * *
87191 --CTATACAAT
1 TTATATATAAA
*
87200 TTATATTTATATA
1 TTATA--TATAAA
*
87213 TTATGTAT-AA
1 TTATATATAAA
*
87223 TTATAAATAATA
1 TTATATATAA-A
*
87235 TATATTGTATAAA
1 T-TA-TATATAAA
**
87248 TTATATAGTTTA
1 TTATATA-TAAA
87260 TTA-ATATAAA
1 TTATATATAAA
87270 TTATATA
1 TTATATA
87277 GTTTATATAT
Statistics
Matches: 78, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.08
10 12 0.15
11 35 0.45
12 9 0.12
13 11 0.14
14 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (11 bp):
TTATATATAAA
Found at i:87203 original size:20 final size:20
Alignment explanation
Indices: 87103--87205 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
87093 ATGTATAAAC
*
87103 TATAATACTATATAGTTTATA
1 TATAA-ACTATATAATTTATA
* *
87124 TATGAACTAT-TGAA-CTATA
1 TATAAACTATAT-AATTTATA
* * *
87143 TAGAAACTAAATAGTTTATA
1 TATAAACTATATAATTTATA
* *
87163 TATAAATTATATATGAATTATA
1 TATAAACTATATA--ATTTATA
*
87185 TATAAACTATACAATTTATA
1 TATAAACTATATAATTTATA
87205 T
1 T
87206 TTATATATTA
Statistics
Matches: 61, Mismatches: 16, Indels: 11
0.69 0.18 0.12
Matches are distributed among these distances:
19 13 0.21
20 28 0.46
21 4 0.07
22 16 0.26
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (20 bp):
TATAAACTATATAATTTATA
Found at i:87203 original size:42 final size:43
Alignment explanation
Indices: 87134--87232 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
87124 TATGAACTAT
* * * *
87134 TGAACTATATAGAAACTAAATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTAAACAATTTATATTATAAATTATATA
* * *
87176 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTAAACAATTTATA-TTATAAATTATATA
*
87220 T-AATTATAAATAA
1 TGAATTATATATAA
87233 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTAAACAATTTATATTATAAATTATATA
Found at i:87221 original size:17 final size:17
Alignment explanation
Indices: 87201--87254 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
87191 CTATACAATT
* *
87201 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
87218 TATAATTATAAATAATA
1 TATATTTATAAATTATA
87235 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
87253 TA
1 TA
87255 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:87351 original size:20 final size:20
Alignment explanation
Indices: 87326--87405 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 20
87316 TATAAACTAC
87326 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
87346 ATACTAT-ATACTATATTT-T
1 ATACTATAAT-TTATATTTAT
87365 ATAC--T-ATTTATA--TA-
1 ATACTATAATTTATATTTAT
*
87379 A-ACTATAGTTTATATTTAT
1 ATACTATAATTTATATTTAT
87398 ATACTATA
1 ATACTATA
87406 TATATGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
13 2 0.04
14 2 0.04
15 1 0.02
16 10 0.21
17 3 0.06
18 2 0.04
19 8 0.17
20 20 0.42
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:87406 original size:59 final size:58
Alignment explanation
Indices: 87311--87423 Score: 133
Period size: 58 Copynumber: 1.9 Consensus size: 58
87301 TAGGGTTTAG
* *
87311 ATTTATATAAACTACATACTATAATTTATATTTATATACTAT-ATACTATATTTTATACT
1 ATTTATATAAACTACATACTATAATTTATATCTATATA-TATGA-ACTATAGTTTATACT
* *
87370 ATTTATATAAACT--ATAGTTTATATTTATATACTATATATATGAACTATAGTTTA
1 ATTTATATAAACTACATACTATA-ATTTATAT-CTATATATATGAACTATAGTTTA
87424 CATATGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
57 6 0.13
58 21 0.45
59 20 0.43
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (58 bp):
ATTTATATAAACTACATACTATAATTTATATCTATATATATGAACTATAGTTTATACT
Found at i:87410 original size:33 final size:33
Alignment explanation
Indices: 87357--87448 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
87347 TACTATATAC
*
87357 TATATTT-TATACTATTTATATAAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
87389 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
87422 TACA--TATGA-ACTATATATATAAA-TATA
1 TATATTTAT-ATACTATATATATAAACTATA
87449 TATATACTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
30 4 0.07
31 16 0.30
32 8 0.15
33 26 0.48
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (33 bp):
TATATTTATATACTATATATATAAACTATAGTT
Found at i:87488 original size:18 final size:18
Alignment explanation
Indices: 87467--87543 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 18
87457 AAGGTTGATA
*
87467 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
* *
87485 TTTACATATAAACTATCATTAATA
1 TTTACATATGAAC--T-A-T-A-G
87509 TTTACATATGAACTATAG
1 TTTACATATGAACTATAG
87527 TTTACATATGAACTATA
1 TTTACATATGAACTATA
87544 TATATAAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
18 28 0.58
19 1 0.02
20 2 0.04
21 2 0.04
22 2 0.04
23 1 0.02
24 12 0.25
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:87554 original size:31 final size:32
Alignment explanation
Indices: 87514--87582 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
87504 TAATATTTAC
*
87514 ATATGAAC-TATAGTTTACATATGAACTATAT
1 ATATAAACATATAGTTTACATATGAACTATAT
*
87545 ATATAAACTATATAGTTTACATATGACCTATAT
1 ATATAAAC-ATATAGTTTACATATGAACTATAT
87578 ATATA
1 ATATA
87583 TATATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 7 0.21
33 27 0.79
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (32 bp):
ATATAAACATATAGTTTACATATGAACTATAT
Found at i:87561 original size:33 final size:32
Alignment explanation
Indices: 87522--87620 Score: 114
Period size: 33 Copynumber: 3.1 Consensus size: 32
87512 ACATATGAAC
87522 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGAACTATATATATAAA-TA
* *
87555 TATAGTTTACATATGACCTATATATATATATA
1 TATAGTTTACATATGAACTATATATATAAATA
* * *
87587 TATA-TATATATAT-ATA-TATATATATATATA
1 TATAGTTTACATATGA-ACTATATATATAAATA
87617 TATA
1 TATA
87621 TATATATATA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.32
31 7 0.12
32 6 0.10
33 28 0.47
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (32 bp):
TATAGTTTACATATGAACTATATATATAAATA
Found at i:87580 original size:2 final size:2
Alignment explanation
Indices: 87573--87750 Score: 157
Period size: 2 Copynumber: 86.0 Consensus size: 2
87563 ACATATGACC
87573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
87615 TA TA TA TA TA TA TA TA TA TA T- TA TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA -TA
* * ** *
87658 TA TA -A TT TA CA TA TGA CC TA TA TA TA TA TA CTA TA GTT TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA -TA TA TA
* * *
87700 TT TA TA TA CTT TA TA T- TA TA TA TA TA TA AA CTA TA TA TA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
87742 TA TA GTA TA
1 TA TA -TA TA
87751 ATTTACATAT
Statistics
Matches: 144, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
1 4 0.03
2 126 0.88
3 14 0.10
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:87835 original size:9 final size:9
Alignment explanation
Indices: 87823--87909 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
87813 TTTATTAGTA
87823 TATATAAAC
1 TATATAAAC
87832 TATATAATA-
1 TATATAA-AC
*
87841 TATATAGAC
1 TATATAAAC
**
87850 TATATGGTA-
1 TATAT-AAAC
87859 TATATAAAC
1 TATATAAAC
* *
87868 TATACATTA-
1 TATATA-AAC
87877 TATATAAAC
1 TATATAAAC
*
87886 TATATAGTA-
1 TATATA-AAC
87895 TATATAAAC
1 TATATAAAC
87904 TATATA
1 TATATA
87910 TTATATAGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 16
0.69 0.13 0.19
Matches are distributed among these distances:
8 4 0.07
9 51 0.86
10 4 0.07
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (9 bp):
TATATAAAC
Found at i:87867 original size:36 final size:36
Alignment explanation
Indices: 87794--88079 Score: 186
Period size: 33 Copynumber: 8.3 Consensus size: 36
87784 CCCTAAACTC
* **
87794 TAAACTATA-CAT-TATATAGTTTAT-TAGTATATA
1 TAAACTATATAATATATATAGACTATATAGTATATA
*
87827 TAAACTATATAATATATATAGACTATATGGTATATA
1 TAAACTATATAATATATATAGACTATATAGTATATA
* * *
87863 TAAACTATACATTATATATAAACTATATAGTATATA
1 TAAACTATATAATATATATAGACTATATAGTATATA
*
87899 TAAACTATAT-AT-TATATAG-TTCAT-TAGTATATA
1 TAAACTATATAATATATATAGACT-ATATAGTATATA
87932 TAAACTATAT-A-ATATATAG------TAGTATATA
1 TAAACTATATAATATATATAGACTATATAGTATATA
*
87960 TAAACTATAT-AT-TATATAG-TTCAT-TAGTATATA
1 TAAACTATATAATATATATAGACT-ATATAGTATATA
* *
87993 TAACCTATATAGTATATGGTATATACAAACTATATA-T-TATA
1 TAAACTATATA--ATA---TATAT--AGACTATATAGTATATA
* * * *
88034 -AAATTCAT-TAGTATATATAAACTATACAGTATATA
1 TAAACT-ATATAATATATATAGACTATATAGTATATA
88069 TAAACTATATA
1 TAAACTATATA
88080 TTAATTTATT
Statistics
Matches: 206, Mismatches: 20, Indels: 51
0.74 0.07 0.18
Matches are distributed among these distances:
28 27 0.13
33 64 0.31
34 11 0.05
35 22 0.11
36 57 0.28
38 2 0.01
40 10 0.05
41 6 0.03
42 4 0.02
43 3 0.01
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (36 bp):
TAAACTATATAATATATATAGACTATATAGTATATA
Found at i:87947 original size:119 final size:125
Alignment explanation
Indices: 87819--88079 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 125
87809 ATAGTTTATT
* *
87819 AGTATATATAAACTATATAATATATATAGACTATATGGTATATA-TAAACTA-TACAT-TATA-T
1 AGTATATATAAACTATATAATATATATAAACTATATAGTATATAGTAAACTAGTACATATA-ACT
* * *
87880 ATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTAT-
65 ATAAACTATATAGTATATACAAACTATATATTATAAAATTCATTAGTATATATAAACTATA
* * * ** * *
87940 A-TA-ATAT--A-TA-GTAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCT
1 AGTATATATAAACTATATAATATATATAAACTATATAGTATATAGTAAACTAGTACATATAA-CT
* * *
87999 ATATAGTATATGGTATATACAAACTATATATTATAAAATTCATTAGTATATATAAACTATA
65 ATAAACTATATAGTATATACAAACTATATATTATAAAATTCATTAGTATATATAAACTATA
88060 CAGTATATATAAACTATATA
1 -AGTATATATAAACTATATA
88080 TTAATTTATT
Statistics
Matches: 111, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
115 23 0.21
116 6 0.05
117 6 0.05
118 2 0.02
119 59 0.53
120 2 0.02
121 2 0.02
122 2 0.02
123 4 0.04
125 1 0.01
126 2 0.02
127 2 0.02
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (125 bp):
AGTATATATAAACTATATAATATATATAAACTATATAGTATATAGTAAACTAGTACATATAACTA
TAAACTATATAGTATATACAAACTATATATTATAAAATTCATTAGTATATATAAACTATA
Found at i:87955 original size:28 final size:28
Alignment explanation
Indices: 87923--88033 Score: 111
Period size: 25 Copynumber: 3.9 Consensus size: 28
87913 TATAGTTCAT
87923 TAGTATATATAAACTATATAATATATAG
1 TAGTATATATAAACTATATAATATATAG
*
87951 TAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATA--ATATA--T-AG
* *
87984 TAGTATATATAACCTATATAGTATAT-G
1 TAGTATATATAAACTATATAATATATAG
* *
88011 --GTATATACAAACTATATATTATA
1 TAGTATATATAAACTATATAATATA
88034 AAATTCATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
25 20 0.28
28 20 0.28
29 1 0.01
30 5 0.07
31 4 0.06
32 1 0.01
33 20 0.28
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.41
Consensus pattern (28 bp):
TAGTATATATAAACTATATAATATATAG
Found at i:87977 original size:18 final size:18
Alignment explanation
Indices: 87818--88079 Score: 180
Period size: 18 Copynumber: 15.1 Consensus size: 18
87808 TATAGTTTAT
87818 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
87836 TAATATATATAGACTATA
1 TAGTATATATAAACTATA
*
87854 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
87872 CATTATATATAAACTATA
1 TAGTATATATAAACTATA
87890 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
87908 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
87923 TAGTATATATAAAC--TA
1 TAGTATATATAAACTATA
*
87939 TA-TA-ATAT--A-TA-G
1 TAGTATATATAAACTATA
87951 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* ** *
87969 TATTATATAGTTCATTAGTA
1 TAGTATATA-TAAACTA-TA
* *
87989 TA-TATAACCTATATAGTATA
1 TAGTAT-A--TATAAACTATA
* *
88009 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
*
88027 TA-T-TATA-AAATTCAT-
1 TAGTATATATAAACT-ATA
88042 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
88060 CAGTATATATAAACTATA
1 TAGTATATATAAACTATA
88078 TA
1 TA
88080 TTAATTTATT
Statistics
Matches: 188, Mismatches: 32, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.02
13 2 0.01
14 8 0.04
15 13 0.07
16 18 0.10
17 15 0.08
18 104 0.55
19 7 0.04
20 9 0.05
21 7 0.04
22 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:87994 original size:2 final size:2
Alignment explanation
Indices: 87821--87977 Score: 58
Period size: 2 Copynumber: 75.0 Consensus size: 2
87811 AGTTTATTAG
* * *
87821 TA TA TA TA AA CTA TA TA -A TA TA TA TA GA CTA TA TGG TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA
* * * *
87863 TA AA CTA TA CA T- TA TA TA TA AA CTA TA TA GTA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA -TA
*
87906 TA TA T- TA TA TA GT- TCA T- TA GTA TA TA TA AA CTA TA TA -A TA
1 TA TA TA TA TA TA -TA T-A TA TA -TA TA TA TA TA -TA TA TA TA TA
*
87946 TA TA GTA GTA TA TA TA AA CTA TA TA T- TA TA TA
1 TA TA -TA -TA TA TA TA TA -TA TA TA TA TA TA TA
87978 GTTCATTAGT
Statistics
Matches: 117, Mismatches: 18, Indels: 40
0.67 0.10 0.23
Matches are distributed among these distances:
1 7 0.06
2 91 0.78
3 19 0.16
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (2 bp):
TA
Found at i:88123 original size:26 final size:26
Alignment explanation
Indices: 88066--88132 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 26
88056 TATACAGTAT
* **
88066 ATATAAAC-TATATATTAATTTATTA
1 ATATAAACATATATATTAATTAAAGA
88091 ATATAAACATATATATTAATTGAAAGA
1 ATATAAACATATATATTAATT-AAAGA
*
88118 AT-TAAAAAATATATA
1 ATAT-AAACATATATA
88133 AGGATCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.23
26 13 0.37
27 14 0.40
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (26 bp):
ATATAAACATATATATTAATTAAAGA
Found at i:88220 original size:61 final size:61
Alignment explanation
Indices: 88134--88268 Score: 184
Period size: 61 Copynumber: 2.2 Consensus size: 61
88124 AAATATATAA
* * * * *
88134 GGATCAAATTGAACAAATTTTAAATATGAAGCTTAAATTAATA-ACTTATAA-CATTAAATTT
1 GGATTAAATTGAAAAAAATTGAAATATGAAGCTTAAATTAATATA-TTA-AATCATTAAATGT
88195 GGATTAAATTGAAAAAAATTGAAATATGAAGCTTAAATTAATATATTAAATCATTAAATGT
1 GGATTAAATTGAAAAAAATTGAAATATGAAGCTTAAATTAATATATTAAATCATTAAATGT
*
88256 GGACTAAATTGAA
1 GGATTAAATTGAA
88269 TAAATTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 2 0.03
61 63 0.95
62 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (61 bp):
GGATTAAATTGAAAAAAATTGAAATATGAAGCTTAAATTAATATATTAAATCATTAAATGT
Found at i:89780 original size:31 final size:31
Alignment explanation
Indices: 89742--89806 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
89732 GTGTTCGAAA
* *
89742 AATTGTCATTATTTCCCTGTTTGGTATGAGC
1 AATTGTCATTATGTCCCTGTTTGATATGAGC
**
89773 AATTGTCATTATGTCTTTGTTTGATATGAGC
1 AATTGTCATTATGTCCCTGTTTGATATGAGC
89804 AAT
1 AAT
89807 AAACAAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.46
Consensus pattern (31 bp):
AATTGTCATTATGTCCCTGTTTGATATGAGC
Found at i:91201 original size:22 final size:22
Alignment explanation
Indices: 91162--91206 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
91152 TTATTTTATA
**
91162 TTGTTTGCTTATGTTTGATATT
1 TTGTTTGCTTATACTTGATATT
*
91184 TTGTTTGCTTCTACTTGATATT
1 TTGTTTGCTTATACTTGATATT
91206 T
1 T
91207 GTAAGGGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.09, G:0.16, T:0.62
Consensus pattern (22 bp):
TTGTTTGCTTATACTTGATATT
Found at i:91301 original size:18 final size:18
Alignment explanation
Indices: 91278--91313 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
91268 TACCATTGAT
91278 TGTATGTTTTCTTAATGC
1 TGTATGTTTTCTTAATGC
91296 TGTATGTTTTCTTAATGC
1 TGTATGTTTTCTTAATGC
91314 AATATGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (18 bp):
TGTATGTTTTCTTAATGC
Found at i:91319 original size:18 final size:18
Alignment explanation
Indices: 91280--91319 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
91270 CCATTGATTG
**
91280 TATGTTTTCTTAATGCTG
1 TATGTTTTCTTAATGCAA
91298 TATGTTTTCTTAATGCAA
1 TATGTTTTCTTAATGCAA
91316 TATG
1 TATG
91320 CTTGCTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (18 bp):
TATGTTTTCTTAATGCAA
Found at i:91336 original size:22 final size:23
Alignment explanation
Indices: 91310--91354 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
91300 TGTTTTCTTA
*
91310 ATGCAAT-ATGCTTGCTGAATTG
1 ATGCAATAATGCTTGATGAATTG
91332 ATGCAATAATGCTTGATGAATTG
1 ATGCAATAATGCTTGATGAATTG
91355 GTACATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (23 bp):
ATGCAATAATGCTTGATGAATTG
Found at i:91366 original size:23 final size:23
Alignment explanation
Indices: 91313--91369 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
91303 TTTCTTAATG
* *
91313 CAAT-ATGCTTGCTGAATTGATG
1 CAATAATGCTTGATGAATTGATA
*
91335 CAATAATGCTTGATGAATTGGTA
1 CAATAATGCTTGATGAATTGATA
* *
91358 CATTGATGCTTG
1 CAATAATGCTTG
91370 TCGATTGCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (23 bp):
CAATAATGCTTGATGAATTGATA
Found at i:93025 original size:27 final size:27
Alignment explanation
Indices: 92987--93044 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
92977 AAGAGTTCTT
92987 TGTGCAGCCTAAAGGTAGGCCCAAATA
1 TGTGCAGCCTAAAGGTAGGCCCAAATA
93014 TGTGCAGCCTAAAGGTAGGCCCAAATA
1 TGTGCAGCCTAAAGGTAGGCCCAAATA
93041 TGTG
1 TGTG
93045 GTCGGGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (27 bp):
TGTGCAGCCTAAAGGTAGGCCCAAATA
Found at i:95842 original size:20 final size:20
Alignment explanation
Indices: 95793--95846 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
95783 TACCGGAAGG
* * *
95793 GGGTATCGATAACATAGTAT
1 GGGTATCGATACCATAGCAA
95813 GGTAGTATCGATACCATAGCAA
1 GG--GTATCGATACCATAGCAA
95835 GGGTATCGATAC
1 GGGTATCGATAC
95847 TAGGTAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
22 17 0.59
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCATAGCAA
Found at i:95942 original size:95 final size:95
Alignment explanation
Indices: 95719--95942 Score: 286
Period size: 95 Copynumber: 2.4 Consensus size: 95
95709 TACCGATGAG
* * **
95719 GTAGTATCGATACCCTGGTAAGGGTATCGATACCAAGCAACATCGAATCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGCAACATCGAATCTAAAATTGGTATCGAT
* * * *
95784 ACCGGAAGGGGGTATCGATAACATAGTATG
66 ACCGGAAGGGGGCATCGATAACAGAGCATA
* * * *
95814 GTAGTATCGATACCATAGCAAGGGTATCGATACTAGGTAACATCGAATCTAAAATTGGTATCGAT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGCAACATCGAATCTAAAATTGGTATCGAT
* * *
95879 ACCGGAGGGGGGCATCGGTACCAGAGCATA
66 ACCGGAAGGGGGCATCGATAACAGAGCATA
* * *
95909 TTAGTATCGATATCATGGTAGGGGTATCGATACT
1 GTAGTATCGATACCATGGTAAGGGTATCGATACT
95943 GAAGAACCAT
Statistics
Matches: 109, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
95 109 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTAAGGGTATCGATACTAAGCAACATCGAATCTAAAATTGGTATCGAT
ACCGGAAGGGGGCATCGATAACAGAGCATA
Found at i:96542 original size:34 final size:34
Alignment explanation
Indices: 96494--96626 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 34
96484 CCATAGCTAA
* *
96494 AATGTATATGGGTGCATTATCAACATAAAAGAAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
**
96528 AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCTT
1 AATGCATATGGGTGCATTATCAGCAT-AAA--A-G--A-A---T
96572 AAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 -AATGCATATGGGTGCATTATCAGCATAAAAGAAT
*
96607 AATGCATATGGTTGCATTAT
1 AATGCATATGGGTGCATTAT
96627 TGGCATGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
34 41 0.51
35 4 0.05
37 1 0.01
38 2 0.02
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
44 4 0.05
45 24 0.30
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCAGCATAAAAGAAT
Found at i:96582 original size:79 final size:79
Alignment explanation
Indices: 96385--96671 Score: 441
Period size: 79 Copynumber: 3.6 Consensus size: 79
96375 ACTGTGTGTA
* * * * *
96385 CATTATTGGCATGAAATGATGCCATAGCTGAAATGCATATGGATGTATTATCATCATAAAGGAAT
1 CATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAACATAAAAGAAT
*
96450 AATACATATGGGTG
66 AATGCATATGGGTG
* * *
96464 CA-TATTGGCAGGAAAGGATGCCATAGCTAAAATGTATATGGGTGCATTATCAACATAAAAGAAT
1 CATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAACATAAAAGAAT
96528 AATGCATATGGGTG
66 AATGCATATGGGTG
* * *
96542 CATTATTGGCATAAAAGGATGCCATAGCTTAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 CATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAACATAAAAGAAT
*
96607 AATGCATATGGTTG
66 AATGCATATGGGTG
*
96621 CATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGGTGCATTAT
1 CATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTAT
96672 TGGTATGAAA
Statistics
Matches: 189, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 69 0.37
79 120 0.63
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
CATTATTGGCATGAAAGGATGCCATAGCTGAAATGCATATGGGTGCATTATCAACATAAAAGAAT
AATGCATATGGGTG
Found at i:96592 original size:45 final size:45
Alignment explanation
Indices: 96528--96716 Score: 220
Period size: 45 Copynumber: 4.4 Consensus size: 45
96518 ATAAAAGAAT
* *
96528 AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCTTA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
**
96573 AATGCATATGGGTGCATTATCAGCAT-AAA--A-G--A-A--T--
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
* *
96607 AATGCATATGGTTGCATTATTGGCATGAAAGGATGTCATAGCTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
* *
96652 AATGCATATGGGTGCATTATTGGTATGAAAGGATGCCATAGCAGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
*
96697 AATGTATATGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
96717 CATCATAAAA
Statistics
Matches: 123, Mismatches: 10, Indels: 22
0.79 0.06 0.14
Matches are distributed among these distances:
34 23 0.19
35 3 0.02
36 1 0.01
37 1 0.01
38 2 0.02
39 1 0.01
40 1 0.01
41 2 0.02
42 1 0.01
43 1 0.01
44 3 0.02
45 84 0.68
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGA
Found at i:96615 original size:157 final size:158
Alignment explanation
Indices: 96385--96671 Score: 450
Period size: 157 Copynumber: 1.8 Consensus size: 158
96375 ACTGTGTGTA
* * * * *
96385 CATTATTGGCATGAAATGATGCCATAGCTGAAATGCATATGGATGTATTATCATCATAAAGGAAT
1 CATTATTGGCATAAAAGGATGCCATAGCTGAAATGCATATGGATGCATTATCAGCATAAAAGAAT
*
96450 AATACATATGGGTGCA-TATTGGCAGGAAAGGATGCCATAGCTAAAATGTATATGGGTGCATTAT
66 AATACATATGGGTGCATTATTGGCAGGAAAGGATGCCATAGCTAAAATGCATATGGGTGCATTAT
96514 CAACATAAAAGAATAATGCATATGGGTG
131 CAACATAAAAGAATAATGCATATGGGTG
* *
96542 CATTATTGGCATAAAAGGATGCCATAGCTTAAATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 CATTATTGGCATAAAAGGATGCCATAGCTGAAATGCATATGGATGCATTATCAGCATAAAAGAAT
* * * * *
96607 AATGCATATGGTTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATATGGGTGCATTAT
66 AATACATATGGGTGCATTATTGGCAGGAAAGGATGCCATAGCTAAAATGCATATGGGTGCATTAT
96672 TGGTATGAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
157 72 0.62
158 44 0.38
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (158 bp):
CATTATTGGCATAAAAGGATGCCATAGCTGAAATGCATATGGATGCATTATCAGCATAAAAGAAT
AATACATATGGGTGCATTATTGGCAGGAAAGGATGCCATAGCTAAAATGCATATGGGTGCATTAT
CAACATAAAAGAATAATGCATATGGGTG
Found at i:96693 original size:124 final size:124
Alignment explanation
Indices: 96528--96795 Score: 396
Period size: 124 Copynumber: 2.2 Consensus size: 124
96518 ATAAAAGAAT
**
96528 AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCTTAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCAGAAATGCATATGGGTGCATTAT
* * *
96593 CAGCATAAAAGAATAATGCATATGGTTGCATTATTGGCATGA-AAGGATGTCATA-GCTGA
66 CAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGACAA-GATGCCA-ACGCTGA
* * *
96652 AATGCATATGGGTGCATTATTGGTATGAAAGGATGCCATAGCAGAAATGTATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCAGAAATGCATATGGGTGCATTAT
* *
96717 CATCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGACAAGATGCCAACGTTGA
66 CAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGACAAGATGCCAACGCTGA
* *
96776 AATTCATATAGGTGCATTAT
1 AATGCATATGGGTGCATTAT
96796 CAACATAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
123 1 0.01
124 127 0.98
125 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (124 bp):
AATGCATATGGGTGCATTATTGGCATAAAAGGATGCCATAGCAGAAATGCATATGGGTGCATTAT
CAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGACAAGATGCCAACGCTGA
Found at i:96738 original size:79 final size:79
Alignment explanation
Indices: 96655--96809 Score: 217
Period size: 79 Copynumber: 2.0 Consensus size: 79
96645 TAGCTGAAAT
* *
96655 GCATATGGGTGCATTATTGGTATGA-AAGGATGCCATA-GCAGAAATGT-ATATGGGTGCATTAT
1 GCATATGGGTGCATTATTGGCATGACAA-GATGCCA-ACGCAGAAAT-TCATATAGGTGCATTAT
*
96717 CATCATAAAAGAATAAC
63 CAACATAAAAGAATAAC
**
96734 GCATATGGGTGCATTATTGGCATGACAAGATGCCAACGTTGAAATTCATATAGGTGCATTATCAA
1 GCATATGGGTGCATTATTGGCATGACAAGATGCCAACGCAGAAATTCATATAGGTGCATTATCAA
96799 CATAAAAGAAT
66 CATAAAAGAAT
96810 GCTATAATTG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 2 0.03
79 64 0.94
80 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
GCATATGGGTGCATTATTGGCATGACAAGATGCCAACGCAGAAATTCATATAGGTGCATTATCAA
CATAAAAGAATAAC
Found at i:97147 original size:29 final size:29
Alignment explanation
Indices: 97105--97165 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
97095 TATGCCAGTT
* *
97105 AGATGAACGATTAAATACTGTTGAGTAAA
1 AGATGAAAGATTAAACACTGTTGAGTAAA
* *
97134 AGATGAAAGGTTAAACATTGTTGAGTAAA
1 AGATGAAAGATTAAACACTGTTGAGTAAA
97163 AGA
1 AGA
97166 ATAATGGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.46, C:0.05, G:0.23, T:0.26
Consensus pattern (29 bp):
AGATGAAAGATTAAACACTGTTGAGTAAA
Found at i:105499 original size:20 final size:21
Alignment explanation
Indices: 105458--105504 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
105448 TTAAACAAAC
*
105458 AAATAAATAATAATATATATA
1 AAATAAATAATAATATACATA
105479 AAAT-AATAATAA-ATAACAT-
1 AAATAAATAATAATAT-ACATA
105498 AAATAAA
1 AAATAAA
105505 AAAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATAAATAATAATATACATA
Found at i:105533 original size:24 final size:23
Alignment explanation
Indices: 105506--105569 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
105496 ATAAATAAAA
105506 AAAAACTATATATATTATATTTAC
1 AAAAACTATATATATTATATTT-C
*
105530 AAAAACTATATAGTA-TGT-TTTC
1 AAAAACTATATA-TATTATATTTC
105552 AAAAA-T-TATATATTATAT
1 AAAAACTATATATATTATAT
105570 ATGTTTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 2 0.06
22 6 0.17
23 3 0.09
24 14 0.40
25 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (23 bp):
AAAAACTATATATATTATATTTC
Found at i:105554 original size:22 final size:22
Alignment explanation
Indices: 105514--105569 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
105504 AAAAAAACTA
*
105514 TATATATTATATTTACAAAAAC
1 TATATAGTATATTTACAAAAAC
* * *
105536 TATATAGTATGTTTTCAAAAAT
1 TATATAGTATATTTACAAAAAC
*
105558 TATATATTATAT
1 TATATAGTATAT
105570 ATGTTTTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (22 bp):
TATATAGTATATTTACAAAAAC
Found at i:105608 original size:35 final size:35
Alignment explanation
Indices: 105547--105833 Score: 279
Period size: 35 Copynumber: 7.9 Consensus size: 35
105537 ATATAGTATG
* *
105547 TTTTCAAAAATTATATATTATATATGTTTTCAAAACCA
1 TTTT-AAAAACTATATA-T-TATATGTTTTCAAAACTA
* * * *
105585 TTTTTACAACTATATATTTTATGTTTTCAAAATTA
1 TTTTAAAAACTATATATTATATGTTTTCAAAACTA
* *
105620 TTTTAAAAACTATATACTATATGTTTTCAAAACCA
1 TTTTAAAAACTATATATTATATGTTTTCAAAACTA
* *
105655 TTTTAAAAACTATACATTATACGTTTTC-AAACTA
1 TTTTAAAAACTATATATTATATGTTTTCAAAACTA
* *
105689 TTTTTTAAAAAAACTATACATTATATGTTTTCAAAATTA
1 --TTTT--AAAAACTATATATTATATGTTTTCAAAACTA
* *
105728 TTTAAAAAACTATATACTATATGTTTTCAAAACTA
1 TTTTAAAAACTATATATTATATGTTTTCAAAACTA
* * * *
105763 TTTAAAAAACTATATATTATACGTTTTTTAAAAATAA
1 TTTTAAAAACTATATATTATATG-TTTTCAAAACT-A
* * *
105800 GTTTCCAAAAACTATATATTATATATTTTAAAAA
1 -TTT-TAAAAACTATATATTATATGTTTTCAAAA
105834 ATTATATTTG
Statistics
Matches: 210, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
34 5 0.02
35 118 0.56
36 14 0.07
37 13 0.06
38 38 0.18
39 22 0.10
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (35 bp):
TTTTAAAAACTATATATTATATGTTTTCAAAACTA
Found at i:105719 original size:108 final size:108
Alignment explanation
Indices: 105592--105789 Score: 342
Period size: 108 Copynumber: 1.8 Consensus size: 108
105582 CCATTTTTAC
* * *
105592 AACTATATATTTTATGTTTTCAAAATTATTTTAAAAACTATATACTATATGTTTTCAAAACCATT
1 AACTATACATTATATGTTTTCAAAATTATTTAAAAAACTATATACTATATGTTTTCAAAACCATT
*
105657 TTAAAAACTATACATTATACGTTTTCAAACTATTTTTTAAAAA
66 TAAAAAACTATACATTATACGTTTTCAAACTATTTTTTAAAAA
*
105700 AACTATACATTATATGTTTTCAAAATTATTTAAAAAACTATATACTATATGTTTTCAAAACTATT
1 AACTATACATTATATGTTTTCAAAATTATTTAAAAAACTATATACTATATGTTTTCAAAACCATT
*
105765 TAAAAAACTATATATTATACGTTTT
66 TAAAAAACTATACATTATACGTTTT
105790 TTAAAAATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 84 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (108 bp):
AACTATACATTATATGTTTTCAAAATTATTTAAAAAACTATATACTATATGTTTTCAAAACCATT
TAAAAAACTATACATTATACGTTTTCAAACTATTTTTTAAAAA
Found at i:114159 original size:24 final size:24
Alignment explanation
Indices: 114107--114160 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
114097 GTACTTTTAC
*
114107 AGCGAACGAGGCTTGTGCTTTTGT
1 AGCGGACGAGGCTTGTGCTTTTGT
* *
114131 AGCGGACGAGGCTTTTTCTTTTGT
1 AGCGGACGAGGCTTGTGCTTTTGT
114155 AGCGGA
1 AGCGGA
114161 TGAGTCCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (24 bp):
AGCGGACGAGGCTTGTGCTTTTGT
Found at i:115384 original size:21 final size:21
Alignment explanation
Indices: 115360--115420 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
115350 AGCCTTGAGT
115360 TCTCTTAGCCTTTGTTTCAGC
1 TCTCTTAGCCTTTGTTTCAGC
115381 TCTCTTAGCCTTTGTTTCAGC
1 TCTCTTAGCCTTTGTTTCAGC
115402 TC-C-T--CCTTTGTTTCAGC
1 TCTCTTAGCCTTTGTTTCAGC
115419 TC
1 TC
115421 CTCCTTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
17 15 0.38
19 1 0.03
20 1 0.03
21 23 0.57
ACGTcount: A:0.08, C:0.31, G:0.13, T:0.48
Consensus pattern (21 bp):
TCTCTTAGCCTTTGTTTCAGC
Found at i:115411 original size:17 final size:17
Alignment explanation
Indices: 115368--115427 Score: 84
Period size: 17 Copynumber: 3.3 Consensus size: 17
115358 GTTCTCTTAG
115368 CCTTTGTTTCAGCTCTCTT
1 CCTTTGTTTCAGCTC-C-T
115387 AGCCTTTGTTTCAGCTCCT
1 --CCTTTGTTTCAGCTCCT
115406 CCTTTGTTTCAGCTCCT
1 CCTTTGTTTCAGCTCCT
115423 CCTTT
1 CCTTT
115428 TCAGCTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
17 22 0.56
19 1 0.03
20 1 0.03
21 15 0.38
ACGTcount: A:0.07, C:0.33, G:0.12, T:0.48
Consensus pattern (17 bp):
CCTTTGTTTCAGCTCCT
Found at i:119340 original size:22 final size:20
Alignment explanation
Indices: 119280--119341 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 20
119270 TATATTTTGA
*
119280 AATTCAAAATATTTGAAAATG
1 AATTGAAAAT-TTTGAAAATG
** *
119301 AATTTGAAGCTTTCGAAAATAAG
1 AA-TTGAAAATTTTGAAAAT--G
119324 AATTGAAAATTTTGAAAA
1 AATTGAAAATTTTGAAAA
119342 AGAAAATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
21 10 0.32
22 18 0.58
23 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
AATTGAAAATTTTGAAAATG
Found at i:120799 original size:21 final size:21
Alignment explanation
Indices: 120773--120826 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
120763 TAAATTTAAT
120773 GTGTTTTGATATAAGGTCTGC
1 GTGTTTTGATATAAGGTCTGC
120794 GTGTTTTGATATAAGGTCTGC
1 GTGTTTTGATATAAGGTCTGC
120815 GTGTTTTGATAT
1 GTGTTTTGATAT
120827 TAGGGGTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.07, G:0.28, T:0.46
Consensus pattern (21 bp):
GTGTTTTGATATAAGGTCTGC
Found at i:121250 original size:18 final size:19
Alignment explanation
Indices: 121224--121259 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
121214 ATATGCTACC
*
121224 ATTTCATGTT-TATTTTAT
1 ATTTAATGTTGTATTTTAT
121242 ATTTAATGTTGTATTTTA
1 ATTTAATGTTGTATTTTA
121260 ATCATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (19 bp):
ATTTAATGTTGTATTTTAT
Found at i:124764 original size:24 final size:24
Alignment explanation
Indices: 124737--124827 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
124727 TCTTATTTGA
* *
124737 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
*
124761 ATTCTGATATGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
124784 ATTTTGATCTGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
124808 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
124828 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 19 0.34
24 37 0.66
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:124952 original size:35 final size:35
Alignment explanation
Indices: 124905--124979 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
124895 TGGAGGAAGA
* *
124905 TTACTTGGAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTATGCTCAGGGCC
124940 TTACTTGCAGGCTCCTCGGCTTTATGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTTATGCTCAGGGCC
124975 TTACT
1 TTACT
124980 GTACGTGACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.11, C:0.29, G:0.27, T:0.33
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTTTATGCTCAGGGCC
Found at i:127478 original size:20 final size:20
Alignment explanation
Indices: 127433--127480 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
127423 TTTTGGAGTA
*
127433 TCGAAACTTTGCCAAAATTT
1 TCGAAACTTTGCCAAAAGTT
* *
127453 TTGAAACTTTAG-CTAAAGTT
1 TCGAAACTTT-GCCAAAAGTT
127473 TCGAAACT
1 TCGAAACT
127481 CCTTGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (20 bp):
TCGAAACTTTGCCAAAAGTT
Found at i:129838 original size:20 final size:20
Alignment explanation
Indices: 129813--129865 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
129803 TATGCTAAAG
* *
129813 AGTTTCGAAACTTTCGTCAA
1 AGTTTCGAAACTTCCCTCAA
*
129833 AGTTTCGAAACTTCCCTTAA
1 AGTTTCGAAACTTCCCTCAA
129853 AGTTTCGAAACTT
1 AGTTTCGAAACTT
129866 AGGGTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
AGTTTCGAAACTTCCCTCAA
Found at i:131940 original size:2 final size:2
Alignment explanation
Indices: 131933--131960 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
131923 TATTAATTCC
131933 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
131961 GATTTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:132264 original size:60 final size:60
Alignment explanation
Indices: 132152--132266 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
132142 ATATATCTCA
* * * * *
132152 AAATTGTGACTCTTATTTTAAATCGGTCCACAAATTTTTAAATATTATAATTTCATCCTT
1 AAATTGTGACTCTCATTCTAAATCAGTCCACAAATTTTTAAACATTACAATTTCATCCTT
* ** * *
132212 AAATTGTGACTCTCATTCTAAATTAGTCCTTAAATTTTTTAACATTCCAATTTCA
1 AAATTGTGACTCTCATTCTAAATCAGTCCACAAATTTTTAAACATTACAATTTCA
132267 ATCCCAAACT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (60 bp):
AAATTGTGACTCTCATTCTAAATCAGTCCACAAATTTTTAAACATTACAATTTCATCCTT
Found at i:132549 original size:60 final size:59
Alignment explanation
Indices: 132485--132631 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 59
132475 AAAATTTGGA
* * * * **
132485 GACTAATTTAGAATGA-AGGTCGTAATT-TGGGAATGGAATAGAAATATTCAAATTTTTAAC
1 GACTAATTTAGAATGATA-GTCATAATTCTAGG-ATGAAATAGAAATATTAAAAAGTTT-AC
* * *
132545 GACTAATTTTGAATGATAGTCATAATTCTAGGATGAAATTGAAATATTAAAAAGTTTAG
1 GACTAATTTAGAATGATAGTCATAATTCTAGGATGAAATAGAAATATTAAAAAGTTTAC
132604 GAACTAATTTAGAATGAT-GATCATAATT
1 G-ACTAATTTAGAATGATAG-TCATAATT
132632 TGAAGATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
59 3 0.04
60 66 0.90
61 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (59 bp):
GACTAATTTAGAATGATAGTCATAATTCTAGGATGAAATAGAAATATTAAAAAGTTTAC
Found at i:132792 original size:18 final size:18
Alignment explanation
Indices: 132769--132803 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
132759 ACATAAAATT
*
132769 AATAATTAAAATGTTAAA
1 AATAATTAAAATATTAAA
*
132787 AATAATTTAAATATTAA
1 AATAATTAAAATATTAA
132804 TACAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATAATTAAAATATTAAA
Found at i:132918 original size:3 final size:3
Alignment explanation
Indices: 132912--132988 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
132902 TTTTTTTAAA
132912 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
132960 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
132989 AGGCCCTATG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:138605 original size:43 final size:43
Alignment explanation
Indices: 138557--138678 Score: 226
Period size: 43 Copynumber: 2.8 Consensus size: 43
138547 ACGAAGGGGC
* *
138557 CATCCACGATTTCAACTCCATGATAGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
138600 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
1 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
138643 CATCCACGATTTCAACTCCACGACAGAGGATATCGT
1 CATCCACGATTTCAACTCCACGACAGAGGATATCGT
138679 GCCATTCGAG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
Found at i:138926 original size:111 final size:111
Alignment explanation
Indices: 138720--138926 Score: 326
Period size: 111 Copynumber: 1.9 Consensus size: 111
138710 GCTTCCCAAT
* *
138720 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
* *
138785 CAACGAAGGGGCGACTGATTGTCGACAAACATCTTTTTCAGTTTCA
66 CAACGAAGGGGCGACTGACTGTCAACAAACATCTTTTTCAGTTTCA
* * *
138831 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
*
138896 CAACGAAGGGGC-AGCTGACTGTCAATAAACA
66 CAACGAAGGGGCGA-CTGACTGTCAACAAACA
138927 ATTTCCCAGT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 1 0.01
111 86 0.99
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (111 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGGGGCGACTGACTGTCAACAAACATCTTTTTCAGTTTCA
Found at i:139181 original size:21 final size:20
Alignment explanation
Indices: 139157--139226 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
139147 GACAGTTTCC
139157 CTTGAAACAAGTTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
*
139178 CTTGAGACAG--TT-TC-C-
1 CTTGAAACAGTTTTGTCTCT
*
139193 CTTGAAACAAATTTTGTCTCT
1 CTTGAAAC-AGTTTTGTCTCT
*
139214 CTTGAGACAGTTT
1 CTTGAAACAGTTT
139227 CCCTTGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 13
0.68 0.09 0.23
Matches are distributed among these distances:
15 7 0.18
16 2 0.05
17 2 0.05
18 4 0.11
19 2 0.05
20 7 0.18
21 14 0.37
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (20 bp):
CTTGAAACAGTTTTGTCTCT
Found at i:139181 original size:36 final size:36
Alignment explanation
Indices: 139097--139237 Score: 228
Period size: 36 Copynumber: 3.9 Consensus size: 36
139087 GTGCTCGCCA
* * *
139097 TTGTGTCTCTTGTGACAGTTTCCCTTGAAACAAAATC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATT
* *
139134 TTGTCCCTCTTGAGACAGTTTCCCTTGAAACAAGTT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
139170 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
139206 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
139238 CAACCTTTGA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 69 0.71
37 28 0.29
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
Found at i:139261 original size:29 final size:30
Alignment explanation
Indices: 139223--139309 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 30
139213 TCTTGAGACA
* *
139223 GTTTCCCTTGAAACAC-AACCTTTGAAATT
1 GTTTCTCTTGAAACACAAACCTTTGAAAAT
139252 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACAC----AAACCTTTGAAAAT
*
139286 GTTTCTCTTGAAACAAAAGACCTT
1 GTTTCTCTTGAAACACAA-ACCTT
139310 CGAGTTTGAC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
29 15 0.31
30 2 0.04
31 5 0.10
34 27 0.55
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (30 bp):
GTTTCTCTTGAAACACAAACCTTTGAAAAT
Found at i:139708 original size:5 final size:5
Alignment explanation
Indices: 139628--139695 Score: 127
Period size: 5 Copynumber: 13.4 Consensus size: 5
139618 GATTTAAAAA
139628 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
139678 ATATT ATATT ATTATT AT
1 ATATT ATATT A-TATT AT
139696 TAAATATTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
5 57 0.92
6 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:143571 original size:20 final size:20
Alignment explanation
Indices: 143546--143584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
143536 CAAACCCTAC
143546 TCTAAAACCAAAATCTTAAA
1 TCTAAAACCAAAATCTTAAA
* *
143566 TCTAAACCCTAAATCTTAA
1 TCTAAAACCAAAATCTTAA
143585 TAAATAGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
TCTAAAACCAAAATCTTAAA
Found at i:144199 original size:2 final size:2
Alignment explanation
Indices: 144192--144245 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
144182 CGCCATAATC
144192 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144234 AT AT AT AT AT AT
1 AT AT AT AT AT AT
144246 TGGTAAAGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:147728 original size:22 final size:21
Alignment explanation
Indices: 147658--147756 Score: 92
Period size: 22 Copynumber: 4.6 Consensus size: 21
147648 CCTGACAGGA
* *
147658 GGTATCGATAC-CCTTATAGG
1 GGTATCGATACACGTTAAAGG
* *
147678 GGTATCGATACACATTCAAAAAG
1 GGTATCGATACACGTT--AAAGG
*
147701 GGTATCGATACACGTTGAAGGG
1 GGTATCGATACACGTT-AAAGG
* **
147723 GGTATCGATACATGTTTTAGG
1 GGTATCGATACACGTTAAAGG
147744 GGTATCGATACAC
1 GGTATCGATACAC
147757 TGTGCACAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
20 11 0.17
21 17 0.27
22 18 0.28
23 18 0.28
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.27
Consensus pattern (21 bp):
GGTATCGATACACGTTAAAGG
Found at i:153597 original size:54 final size:54
Alignment explanation
Indices: 153514--153639 Score: 171
Period size: 54 Copynumber: 2.3 Consensus size: 54
153504 TACCTCTAAG
* *
153514 GGGTATCGATACCCATTGGGCATTATGTTTTTCTCGGAGCCAAAATTAACACAA
1 GGGTATCGGTACCCATTGGACATTATGTTTTTCTCGGAGCCAAAATTAACACAA
* * ** * *
153568 GGGTATCGGTACCCATTGGACATTCTGTTTTTTTCGGAGCCAAAATTTGCATAG
1 GGGTATCGGTACCCATTGGACATTATGTTTTTCTCGGAGCCAAAATTAACACAA
153622 GGGTATCGGTACCTCATT
1 GGGTATCGGTACC-CATT
153640 ATTTAAAACT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 59 0.94
55 4 0.06
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (54 bp):
GGGTATCGGTACCCATTGGACATTATGTTTTTCTCGGAGCCAAAATTAACACAA
Found at i:154853 original size:19 final size:19
Alignment explanation
Indices: 154829--154879 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
154819 ACCAACTAAA
154829 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
154848 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
* *
154867 TCGTAACGCGATC
1 TCGCAATGCGATC
154880 TCCGGTATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (19 bp):
TCGCAATGCGATCGATAAT
Found at i:154933 original size:21 final size:21
Alignment explanation
Indices: 154907--154981 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
154897 GTTTCCAGAT
* *
154907 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
*
154928 TCGCAATGCGAATTTGGACTA
1 TCGCAATGCGAACTTGGACTA
154949 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
154970 TCGCAATGCGAA
1 TCGCAATGCGAA
154982 TATGTAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:155022 original size:21 final size:21
Alignment explanation
Indices: 154996--155174 Score: 154
Period size: 21 Copynumber: 8.5 Consensus size: 21
154986 TAAATCGTAA
*
154996 TGCGATAGTTGAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
155017 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
*
155038 TGCGATAGTCG-ACTATCGCAT
1 TGCGATAGTCGAAGT-TCGCAT
* *
155059 TGCAAT-TTAC-ATA-TTCGCAT
1 TGCGATAGT-CGA-AGTTCGCAT
155079 TGCGATAGTCGAAGTTCGCCA-
1 TGCGATAGTCGAAGTTCG-CAT
* *
155100 TACGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCAT
* * *
155121 TGCGATTTATTCCAAATTCGCAT
1 TGCGA--TAGTCGAAGTTCGCAT
* *
155144 TGCGATAGTCG-ACTATCGCAA
1 TGCGATAGTCGAAGT-TCGCAT
155165 TGCGATAGTC
1 TGCGATAGTC
155175 CAAAATCGCA
Statistics
Matches: 129, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
20 19 0.15
21 90 0.70
22 3 0.02
23 17 0.13
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCAT
Found at i:155052 original size:83 final size:83
Alignment explanation
Indices: 154965--155126 Score: 206
Period size: 83 Copynumber: 2.0 Consensus size: 83
154955 TGCGAACTTG
* * *
154965 GACTATCGCAATGCGAATATGTA-A-A-TCGTAATGCGATAGTTGAAGTTCG-CATTGCGATAGT
1 GACTATCGCAATGC-AAT-T-TACATATTCGCAATGCGATAGTCGAAGTTCGCCA-TACGATAGT
155026 CGAAGTTCGCATTGCGATAGTC
62 CGAAGTTCGCATTGCGATAGTC
* *
155048 GACTATCGCATTGCAATTTACATATTCGCATTGCGATAGTCGAAGTTCGCCATACGATAGTCGAA
1 GACTATCGCAATGCAATTTACATATTCGCAATGCGATAGTCGAAGTTCGCCATACGATAGTCGAA
*
155113 GTTCGCGTTGCGAT
66 GTTCGCATTGCGAT
155127 TTATTCCAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
80 2 0.03
81 2 0.03
82 4 0.06
83 59 0.86
84 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (83 bp):
GACTATCGCAATGCAATTTACATATTCGCAATGCGATAGTCGAAGTTCGCCATACGATAGTCGAA
GTTCGCATTGCGATAGTC
Found at i:155076 original size:62 final size:62
Alignment explanation
Indices: 155010--155174 Score: 192
Period size: 62 Copynumber: 2.6 Consensus size: 62
155000 ATAGTTGAAG
*
155010 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCG-ACTATCGCATTGCAATTTA-CATA
1 TTCGCATTGCGATAGTCGAAGTTCGCA-TGCGATAGTCGAACT-TCGCATTGCAATTTATCAAA
* * * *
155072 TTCGCATTGCGATAGTCGAAGTTCGCCATACGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA
1 TTCGCATTGCGATAGTCGAAGTTCG-CATGCGATAGTCGAACTTCGCATTGCAATTTA-T-CAAA
*
155137 TTCGCATTGCGATAGTCG-ACTATCGCAATGCGATAGTC
1 TTCGCATTGCGATAGTCGAAGT-TCGC-ATGCGATAGTC
155175 CAAAATCGCA
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
62 48 0.54
63 4 0.04
64 3 0.03
65 34 0.38
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (62 bp):
TTCGCATTGCGATAGTCGAAGTTCGCATGCGATAGTCGAACTTCGCATTGCAATTTATCAAA
Found at i:155182 original size:21 final size:21
Alignment explanation
Indices: 155131--155185 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
155121 TGCGATTTAT
* *
155131 TCCAAATTCGCATTGCGATAG
1 TCCAAAATCGCAATGCGATAG
* **
155152 TCGACTATCGCAATGCGATAG
1 TCCAAAATCGCAATGCGATAG
155173 TCCAAAATCGCAA
1 TCCAAAATCGCAA
155186 CGACTGGTGG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (21 bp):
TCCAAAATCGCAATGCGATAG
Done.