Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006859.1 Hibiscus syriacus cultivar Beakdansim tig00017450_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: 77855
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2130 original size:29 final size:29
Alignment explanation
Indices: 2075--2133 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
2065 TGCATCATAC
2075 ATCATTCCATACATACATGATAAATTTTG
1 ATCATTCCATACATACATGATAAATTTTG
*
2104 ATCATTCTCATA-ATA-ATGTATATATTTTG
1 ATCATTC-CATACATACATG-ATAAATTTTG
2133 A
1 A
2134 GAAATTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 3 0.11
29 20 0.74
30 4 0.15
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (29 bp):
ATCATTCCATACATACATGATAAATTTTG
Found at i:2297 original size:62 final size:62
Alignment explanation
Indices: 2221--2512 Score: 289
Period size: 62 Copynumber: 4.6 Consensus size: 62
2211 TCAATCTTTG
* * * *
2221 CAATCATTGACTTCCTCATGAAGAGAAGTCAATCTTTATTATCCCTAACTCCCCAGTAGATT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGT
* * * *
2283 CAATCCTTGACTTCCTCGTAAAGAGAAATCAATCTTTATTATCCCTGATTCCCCAGTATAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGT
* * * * * ** *
2345 CAATCCTTGACTTCCTCGTGAAGAAAAGTTAACCTTTTTTATTCAGGGCTCCCCAGTAGAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGT
* * * * **
2407 CAATCCTTGACTTTCTCGTGAAG-GAAGTCAACTTTTTTTATTCAGGACTTCCTGATTCCATAGT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAA---TCTTTATT----A-TCCCTGACTCCCCAGT
*
2471 ATAGT
58 AGAGT
*
2476 CAATCCTTGACTTCCTCGTGAAGAGAAATCAATCTTT
1 CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
2513 CTGATTTGAT
Statistics
Matches: 185, Mismatches: 36, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
61 6 0.03
62 126 0.68
64 5 0.03
67 4 0.02
68 1 0.01
69 36 0.19
70 7 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (62 bp):
CAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTATTATCCCTGACTCCCCAGTAGAGT
Found at i:2792 original size:137 final size:136
Alignment explanation
Indices: 2555--3236 Score: 918
Period size: 137 Copynumber: 5.0 Consensus size: 136
2545 AATTATCCCT
*
2555 AAAGATGG-TCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGACCAGATCTCCTCATCA
1 AAAGATGGCT-AGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCA
* * **
2619 CGTAGGAGCCGTGTCATCCTTAGATAGCCAGAATTCCTCTTCTTGTAGGAACCGTGTTATCTCCA
65 CGTAGGAGCCCT-TCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCA
2684 TTATAAAA
129 TTATAAAA
* *
2692 AAAGATGGCTAGACGTTCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCCTCAC
1 AAAGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCAC
* * *
2757 GTAGGAGCCACTTTATTCTTAGATAGCCAGAATTCCTCATCGCGTAGGAATCGTGTTATCTCCAT
66 GTAGGAGCC-CTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCAT
2822 TATAAAAA
130 TAT-AAAA
* * * ** * *
2830 AAAGATGGCCAAACGTCCTCATCATGAAAAAACAATCTCATCTACTGACCAGATCTCCTCATCAC
1 AAAGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCAC
* * * * * *
2895 GTAGGAGTCGCATCATCCTTAGATAGGCAAAATTCCTCATCGTGTAGGAACCATGTTATCTCCAT
66 GTAGGAG-CCCTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCAT
2960 TATAAAA
130 TATAAAA
*
2967 AAAGATGG-TCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCA
1 AAAGATGGCT-AGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCA
* *
3031 TGTAGGAGCCATGTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCA
65 CGTAGGAGCCCT-TCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCA
3096 TTATAAAA
129 TTATAAAA
* * * *
3104 AAAGATGGCCAGACATCCTCATCACGAAGGAAAAATGTCATCTACCGACCAGATCTCCTCATCAT
1 AAAGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCAC
** * * * * ** * *
3169 GTAGGAGTCGTTTCATTCTTAGATAGTCAGACTTCCTCATTGCGTAAAAACCATGTTATCTCTAT
66 GTAGGAG-CCCTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCAT
3234 TAT
130 TAT
3237 CCCTAAAAAG
Statistics
Matches: 481, Mismatches: 56, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
136 1 0.00
137 358 0.74
138 121 0.25
139 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (136 bp):
AAAGATGGCTAGACGTCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCCTCATCAC
GTAGGAGCCCTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTATCTCCATT
ATAAAA
Found at i:3055 original size:275 final size:274
Alignment explanation
Indices: 2555--3236 Score: 1001
Period size: 275 Copynumber: 2.5 Consensus size: 274
2545 AATTATCCCT
* * *
2555 AAAGATGGTCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGACCAGATCTCCTCATCAC
1 AAAGATGGCCAGACGTCCTCATCACGAAGAAACAATGTCATCTACCGACCAGATCTCCTCATCAC
* * * * *
2620 GTAGGAGCCGTGTCATCCTTAGATAGCCAGAATTCCTCTTCTTGTAGGAACCGTGTTATCTCCAT
66 GTAGGAGTCGTATCATCCTTAGATAGCCAGAATTCCTCATCGTGTAGGAACCATGTTATCTCCAT
* *
2685 TATAAAAAAAGATGGCTAGACGTTCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCC
131 TATAAAAAAAGATGGCTAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCC
* * * *
2750 TCCTCACGTAGGAGCCACTTTATTCTTAGATAGCCAGAATTCCTCATCGCGTAGGAATCGTGTTA
196 TCATCACGTAGGAGCCACTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTA
2815 TCTCCATTATAAAAA
261 TCTCCATTAT-AAAA
* * * * *
2830 AAAGATGGCCAAACGTCCTCATCATGAAAAAACAATCTCATCTACTGACCAGATCTCCTCATCAC
1 AAAGATGGCCAGACGTCCTCATCACGAAGAAACAATGTCATCTACCGACCAGATCTCCTCATCAC
* * *
2895 GTAGGAGTCGCATCATCCTTAGATAGGCAAAATTCCTCATCGTGTAGGAACCATGTTATCTCCAT
66 GTAGGAGTCGTATCATCCTTAGATAGCCAGAATTCCTCATCGTGTAGGAACCATGTTATCTCCAT
2960 TATAAAAAAAGATGG-TCAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTC
131 TATAAAAAAAGATGGCT-AGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTC
*
3024 CTCATCATGTAGGAGCCA-TGTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGT
195 CTCATCACGTAGGAGCCACT-TCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGT
3088 TATCTCCATTATAAAA
259 TATCTCCATTATAAAA
*
3104 AAAGATGGCCAGACATCCTCATCACGAAGGAAA-AATGTCATCTACCGACCAGATCTCCTCATCA
1 AAAGATGGCCAGACGTCCTCATCACGAA-GAAACAATGTCATCTACCGACCAGATCTCCTCATCA
* * * * * * * ** *
3168 TGTAGGAGTCGTTTCATTCTTAGATAGTCAGACTTCCTCATTGCGTAAAAACCATGTTATCTCTA
65 CGTAGGAGTCGTATCATCCTTAGATAGCCAGAATTCCTCATCGTGTAGGAACCATGTTATCTCCA
3233 TTAT
130 TTAT
3237 CCCTAAAAAG
Statistics
Matches: 363, Mismatches: 41, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
274 117 0.32
275 246 0.68
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (274 bp):
AAAGATGGCCAGACGTCCTCATCACGAAGAAACAATGTCATCTACCGACCAGATCTCCTCATCAC
GTAGGAGTCGTATCATCCTTAGATAGCCAGAATTCCTCATCGTGTAGGAACCATGTTATCTCCAT
TATAAAAAAAGATGGCTAGACATCCTCATCACGAAGGAACAATGTCATCTACCGACCAGATCTCC
TCATCACGTAGGAGCCACTTCATCCTTAGATAGCCAGAATTCCTCATCGCGTAGGAACCGTGTTA
TCTCCATTATAAAA
Found at i:3323 original size:47 final size:47
Alignment explanation
Indices: 3265--3639 Score: 173
Period size: 47 Copynumber: 7.4 Consensus size: 47
3255 CAAATAATTC
* *
3265 TCGAGTCTTATCTCCCTGAAACAAGAGTAGATCAGATTCTTCTTCCCT
1 TCGA-TCTTATCTCCCTGAAACAAGAGTGGAACAGATTCTTCTTCCCT
* * * **
3313 TGGATCTTATCTCCCTGAAACAAGAGTGGAACATATT-TGTTTTACAAAGATTT
1 TCGATCTTATCTCCCTGAAACAAGAGTGGAACAGATTCT-TCTT-C-----CCT
* * *
3366 CTCGAGTCTTATCTCCCTGAAACAAGAGTGTACCAGATTCGTCTTCCCT
1 -TCGA-TCTTATCTCCCTGAAACAAGAGTGGAACAGATTCTTCTTCCCT
* * * ***
3415 TCAATCTTATCTCCCTGAAACAAGAGTGGAGCAGATCCGTT-TTAGAAAGATTTT
1 TCGATCTTATCTCCCTGAAACAAGAGTGGAACAGATTC-TTCTT-------CCCT
* * * *
3469 TCGAGTCTTATCTCCCTGAAACAATAGTGGAGCAGATTTTTCTTGCCT
1 TCGA-TCTTATCTCCCTGAAACAAGAGTGGAACAGATTCTTCTTCCCT
* * * * ** * **
3517 TGGATCTTATCTCCCTAAAACAATAATGGAGTAGA-TCTATTTTACAAAGATT
1 TCGATCTTATCTCCCTGAAACAAGAGTGGAACAGATTCT-TCTT-C----CCT
*
3569 TCTTGAGTCTTATCTCCCTGAAACAAGAGTGGAGA-AGATTCATCTTCCCT
1 TC--GA-TCTTATCTCCCTGAAACAAGAGTGGA-ACAGATTCTTCTTCCCT
*
3619 TGGATCTTATCTCCCCTGAAA
1 TCGATCTTATCT-CCCTGAAA
3640 GAATAAAAGA
Statistics
Matches: 246, Mismatches: 49, Indels: 64
0.69 0.14 0.18
Matches are distributed among these distances:
46 3 0.01
47 105 0.43
48 22 0.09
49 1 0.00
50 2 0.01
52 2 0.01
53 1 0.00
54 13 0.05
55 95 0.39
56 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (47 bp):
TCGATCTTATCTCCCTGAAACAAGAGTGGAACAGATTCTTCTTCCCT
Found at i:3438 original size:102 final size:102
Alignment explanation
Indices: 3262--3639 Score: 531
Period size: 102 Copynumber: 3.7 Consensus size: 102
3252 ATCCAAATAA
* *
3262 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTAGATCAGATTCTTCTTCCCTTGGATCTTATCTCC
1 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGGAGCAGATTCTTCTTCCCTTGGATCTTATCTCC
* * *
3327 CTGAAACAAGAGTGGAACATATTTGTTTTACAAAGAT
66 CTGAAACAAGAGTGGAGCAGATCTGTTTTACAAAGAT
* * * **
3364 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGTACCAGATTCGTCTTCCCTTCAATCTTATCTCC
1 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGGAGCAGATTCTTCTTCCCTTGGATCTTATCTCC
* *
3429 CTGAAACAAGAGTGGAGCAGATCCGTTTTAGAAAGAT
66 CTGAAACAAGAGTGGAGCAGATCTGTTTTACAAAGAT
* * * *
3466 TTTTCGAGTCTTATCTCCCTGAAACAATAGTGGAGCAGATTTTTCTTGCCTTGGATCTTATCTCC
1 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGGAGCAGATTCTTCTTCCCTTGGATCTTATCTCC
* * * * *
3531 CTAAAACAATAATGGAGTAGATCTATTTTACAAAGAT
66 CTGAAACAAGAGTGGAGCAGATCTGTTTTACAAAGAT
* * *
3568 TTCTTGAGTCTTATCTCCCTGAAACAAGAGTGGAGAAGATTCATCTTCCCTTGGATCTTATCTCC
1 TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGGAGCAGATTCTTCTTCCCTTGGATCTTATCT-C
3633 CCTGAAA
65 CCTGAAA
3640 GAATAAAAGA
Statistics
Matches: 240, Mismatches: 35, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
102 233 0.97
103 7 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (102 bp):
TTCTCGAGTCTTATCTCCCTGAAACAAGAGTGGAGCAGATTCTTCTTCCCTTGGATCTTATCTCC
CTGAAACAAGAGTGGAGCAGATCTGTTTTACAAAGAT
Found at i:3503 original size:55 final size:51
Alignment explanation
Indices: 3317--3607 Score: 170
Period size: 55 Copynumber: 5.6 Consensus size: 51
3307 TTCCCTTGGA
* * * *
3317 TCTTATCTCCCTGAAACAAGAGTGGAACATATTTGTTTTACAAAGATTTCTCGAG
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGA--TCTTTTA-AAAGATTT-TTGAG
* * * *** * *
3372 TCTTATCTCCCTGAAACAAGAGTGTACCAGATTCGTCTT------CCCTTCAA
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGA-TC-TTTTAAAAGATTTTTGAG
3419 TCTTATCTCCCTGAAACAAGAGTGGAGCAGATCCGTTTTAGAAAGATTTTTCGAG
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGAT-C-TTTTA-AAAGATTTTT-GAG
* *** ** *
3474 TCTTATCTCCCTGAAACAATAGTGGAGCAGAT-TTTT-CTTG-CCTTGGA-
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGATCTTTTAAAAGATTTTTGAG
* * * *
3521 TCTTATCTCCCTAAAACAATAATGGAGTAGATCTATTTTACAAAGATTTCTTGAG
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGATC--TTTTA-AAAGATTT-TTGAG
*
3576 TCTTATCTCCCTGAAACAAGAGTGGAGAAGAT
1 TCTTATCTCCCTGAAACAAGAGTGGAGCAGAT
3608 TCATCTTCCC
Statistics
Matches: 179, Mismatches: 39, Indels: 36
0.70 0.15 0.14
Matches are distributed among these distances:
46 1 0.01
47 65 0.36
48 2 0.01
49 2 0.01
50 5 0.03
52 5 0.03
53 1 0.01
54 7 0.04
55 91 0.51
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (51 bp):
TCTTATCTCCCTGAAACAAGAGTGGAGCAGATCTTTTAAAAGATTTTTGAG
Found at i:3874 original size:3 final size:3
Alignment explanation
Indices: 3866--3908 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
3856 GTTTTATATC
3866 ATT ATT ATT ATT ATT ATT AGTT ATT ATT ATT ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT A
3909 ATTTAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:5184 original size:15 final size:15
Alignment explanation
Indices: 5164--5194 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5154 AATCCCCAAA
*
5164 TTTTAATATTTTTAT
1 TTTTAATATTATTAT
5179 TTTTAATATTATTAT
1 TTTTAATATTATTAT
5194 T
1 T
5195 GGTTTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAATATTATTAT
Found at i:6767 original size:3 final size:3
Alignment explanation
Indices: 6759--6799 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6749 CTCTTTTGAT
*
6759 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6800 CCATAGGGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:12349 original size:2 final size:2
Alignment explanation
Indices: 12344--12373 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12334 AGCGTGCAAG
12344 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
12374 GTTTATAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18540 original size:20 final size:21
Alignment explanation
Indices: 18515--18566 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
18505 TTTTCCCAAT
*
18515 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
18535 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
18556 TCGCAATGCGA
1 TCGCAATGCGA
18567 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:18580 original size:20 final size:20
Alignment explanation
Indices: 18555--18648 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
18545 AATTGGGAAA
18555 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
18575 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
18595 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
18616 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
18636 TTCGCAACGCGAT
1 ATCGCAATGCGAT
18649 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:19719 original size:33 final size:33
Alignment explanation
Indices: 19677--19803 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
19667 GGAAATTACT
19677 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
19710 ATCGCAATGCGAAATGAAAATCGCAACGTTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
19742 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
19776 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
19804 GTCATGGTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:19784 original size:66 final size:66
Alignment explanation
Indices: 19678--19803 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
19668 GAAATTACTA
19678 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTTAAT
19743 T
66 T
*
19744 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACG
19804 GTCATGGTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGTTAAT
T
Found at i:20204 original size:33 final size:33
Alignment explanation
Indices: 20147--20245 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
20137 ACGAGATAAT
*
20147 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
20181 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
20214 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
20246 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:20239 original size:19 final size:19
Alignment explanation
Indices: 20122--20301 Score: 164
Period size: 19 Copynumber: 9.8 Consensus size: 19
20112 TCTTTTGGTT
*
20122 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
20141 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
20161 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
20179 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
20195 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
20213 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
20228 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
20248 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
20267 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
20286 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
20302 TGCGTTTTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.02
17 1 0.01
18 4 0.03
19 57 0.43
20 45 0.34
21 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:20260 original size:39 final size:38
Alignment explanation
Indices: 20217--20301 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 38
20207 GCGACCAGAC
20217 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
20256 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
20294 AATCGCAA
1 AATCGCAA
20302 TGCGTTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 19 0.41
39 27 0.59
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:20907 original size:20 final size:20
Alignment explanation
Indices: 20882--20934 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
20872 GCGCTATGTA
20882 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
20902 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
20922 TATCTCGTTGCGA
1 AATCGCGTTGCGA
20935 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:20968 original size:20 final size:20
Alignment explanation
Indices: 20943--20996 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
20933 GATTTTGTAT
20943 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
20963 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
20983 TATCGCATTGCGAT
1 TATCGCATTGCGAT
20997 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:20981 original size:61 final size:61
Alignment explanation
Indices: 20883--20999 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
20873 CGCTATGTAA
* * * * *
20883 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
20944 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
21000 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:21015 original size:61 final size:61
Alignment explanation
Indices: 20883--21017 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
20873 CGCTATGTAA
* * * * * ** *
20883 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
20944 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
21006 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
21018 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:21107 original size:21 final size:21
Alignment explanation
Indices: 21067--21107 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21057 ATTGTATACC
**
21067 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
21088 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
21108 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:23852 original size:13 final size:13
Alignment explanation
Indices: 23850--23894 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
23840 CCGTTGACCC
23850 GACCCGACCCGTT
1 GACCCGACCCGTT
*
23863 TACCCGACCCGTT
1 GACCCGACCCGTT
*
23876 GACTCGACCCGTT
1 GACCCGACCCGTT
23889 GACCCG
1 GACCCG
23895 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:23855 original size:18 final size:18
Alignment explanation
Indices: 23828--23873 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
23818 ACCGGTCACA
*
23828 ACCCGGCCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
23846 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
23864 ACCCGACCCG
1 ACCCGACCCG
23874 TTGACTCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.52, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:23885 original size:18 final size:18
Alignment explanation
Indices: 23834--23886 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
23824 CACAACCCGG
*
23834 CCCGACCCGTTGACCCGA
1 CCCGACCCGTTGACTCGA
23852 CCCGACCCGTT---T--A
1 CCCGACCCGTTGACTCGA
23865 CCCGACCCGTTGACTCGA
1 CCCGACCCGTTGACTCGA
23883 CCCG
1 CCCG
23887 TTGACCCGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 12 0.41
16 1 0.03
18 16 0.55
ACGTcount: A:0.15, C:0.49, G:0.21, T:0.15
Consensus pattern (18 bp):
CCCGACCCGTTGACTCGA
Found at i:26432 original size:23 final size:24
Alignment explanation
Indices: 26394--26475 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
26384 AATTATGTTA
*
26394 TGATACCTGACCTGGATTCTGATC
1 TGATACTTGACCTGGATTCTGATC
*
26418 TGATA-TTGACATGGATTCTGATC
1 TGATACTTGACCTGGATTCTGATC
* * *
26441 TGATACATGACCTGAATTCTGATA
1 TGATACTTGACCTGGATTCTGATC
26465 TGATACTTGAC
1 TGATACTTGAC
26476 TTGAATTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.42
24 29 0.58
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (24 bp):
TGATACTTGACCTGGATTCTGATC
Found at i:26492 original size:24 final size:24
Alignment explanation
Indices: 26382--26482 Score: 105
Period size: 24 Copynumber: 4.2 Consensus size: 24
26372 ATTTCAAATT
* * *
26382 TGAATTATGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* * *
26406 TGGATTCTGATCTGATA-TTGACA
1 TGAATTCTGATATGATACTTGACC
* * *
26429 TGGATTCTGATCTGATACATGACC
1 TGAATTCTGATATGATACTTGACC
*
26453 TGAATTCTGATATGATACTTGACT
1 TGAATTCTGATATGATACTTGACC
26477 TGAATT
1 TGAATT
26483 ATGTTTTGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 21 0.33
24 43 0.67
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:26599 original size:35 final size:35
Alignment explanation
Indices: 26552--26626 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
26542 TGGAGGAAGA
*
26552 TTACTTGGAGGCTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
26587 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
26622 TTACT
1 TTACT
26627 GTTCGTGACG
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:0.09, C:0.29, G:0.29, T:0.32
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:28657 original size:13 final size:13
Alignment explanation
Indices: 28599--28646 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
28589 CACAACCCGG
*
28599 CCCGACCTGTTGA
1 CCCGACCCGTTGA
*
28612 CCCGACCCGTTTA
1 CCCGACCCGTTGA
*
28625 CCCGACCCATTGA
1 CCCGACCCGTTGA
28638 CCCGACCCG
1 CCCGACCCG
28647 ACCCGTTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.17, C:0.48, G:0.19, T:0.17
Consensus pattern (13 bp):
CCCGACCCGTTGA
Found at i:31215 original size:47 final size:48
Alignment explanation
Indices: 31146--31236 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
31136 TCAAATTTGA
* * * *
31146 ATTCTGTTATGATACCTGACCTGGATTCTGATTTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
*
31193 ATTCTGATCTGATACATGACCTGAATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGAC
31237 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
Found at i:31253 original size:24 final size:24
Alignment explanation
Indices: 31143--31243 Score: 114
Period size: 24 Copynumber: 4.2 Consensus size: 24
31133 ATTTCAAATT
* *
31143 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* * *
31167 TGGATTCTGATTTGATA-TTGACA
1 TGAATTCTGATATGATACTTGACC
* * *
31190 TGGATTCTGATCTGATACATGACC
1 TGAATTCTGATATGATACTTGACC
*
31214 TGAATTCTGATATGATACTTGACT
1 TGAATTCTGATATGATACTTGACC
31238 TGAATT
1 TGAATT
31244 ATGTTTTGAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.31
24 44 0.69
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:31360 original size:35 final size:35
Alignment explanation
Indices: 31313--31387 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
31303 TGGAGGAAGA
*
31313 TTACTTGGAGGCTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
31348 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
31383 TTACT
1 TTACT
31388 GTTCGTGACG
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:0.09, C:0.29, G:0.29, T:0.32
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:33376 original size:13 final size:13
Alignment explanation
Indices: 33374--33410 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
33364 CCGTTGACCC
33374 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
33387 TACCCGACCCATT
1 GACCCGACCCGTT
33400 GACCCGACCCG
1 GACCCGACCCG
33411 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:33379 original size:18 final size:18
Alignment explanation
Indices: 33352--33442 Score: 93
Period size: 18 Copynumber: 5.2 Consensus size: 18
33342 ACCGGTCACA
*
33352 ACCCGGCCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
33370 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
33388 ACCCGACCC-A----TTG
1 ACCCGACCCGACCCGTTG
33401 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
33419 ACTCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
33440 ACC
1 ACC
33443 GTTGACCGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
13 11 0.18
14 1 0.02
17 1 0.02
18 36 0.60
21 11 0.18
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:33396 original size:31 final size:31
Alignment explanation
Indices: 33358--33436 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
33348 CACAACCCGG
*
33358 CCCGACCCGTTGACCCGACCCGACCCGTTTA
1 CCCGACCCGTTGACCCGACCCGACCCGTTGA
*
33389 CCCGACCCATTGACCCGACCCGACCCGTTGA
1 CCCGACCCGTTGACCCGACCCGACCCGTTGA
*
33420 CTCGACCCGTTGACCCG
1 CCCGACCCGTTGACCCG
33437 TTGACCGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.15
Consensus pattern (31 bp):
CCCGACCCGTTGACCCGACCCGACCCGTTGA
Found at i:33425 original size:13 final size:13
Alignment explanation
Indices: 33409--33433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33399 TGACCCGACC
33409 CGACCCGTTGACT
1 CGACCCGTTGACT
33422 CGACCCGTTGAC
1 CGACCCGTTGAC
33434 CCGTTGACCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:36000 original size:47 final size:48
Alignment explanation
Indices: 35931--36021 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
35921 TCAAATTTGA
* * * *
35931 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
*
35978 ATTCTGATCTGATACATGACCTGAATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGAC
36022 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
Found at i:36026 original size:24 final size:24
Alignment explanation
Indices: 35928--36028 Score: 114
Period size: 24 Copynumber: 4.2 Consensus size: 24
35918 ATTTCAAATT
* *
35928 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* * *
35952 TGGATTCTGATCTGATA-TTGACA
1 TGAATTCTGATATGATACTTGACC
* * *
35975 TGGATTCTGATCTGATACATGACC
1 TGAATTCTGATATGATACTTGACC
*
35999 TGAATTCTGATATGATACTTGACT
1 TGAATTCTGATATGATACTTGACC
36023 TGAATT
1 TGAATT
36029 ATGTTTTGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 21 0.32
24 44 0.68
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:36145 original size:35 final size:35
Alignment explanation
Indices: 36098--36172 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
36088 TGGAGGAAGA
*
36098 TTACTTGGAGGCTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
36133 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
36168 TTACT
1 TTACT
36173 GTTCGTGACG
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:0.09, C:0.29, G:0.29, T:0.32
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:38164 original size:13 final size:13
Alignment explanation
Indices: 38146--38193 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
38136 CACAACCCGG
38146 CCCGACCCGTTGA
1 CCCGACCCGTTGA
*
38159 CCCGACCCGTTTA
1 CCCGACCCGTTGA
*
38172 CCCGACCCATTGA
1 CCCGACCCGTTGA
38185 CCCGACCCG
1 CCCGACCCG
38194 ACCCGTTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.17, C:0.50, G:0.19, T:0.15
Consensus pattern (13 bp):
CCCGACCCGTTGA
Found at i:38167 original size:18 final size:18
Alignment explanation
Indices: 38157--38211 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
38147 CCGACCCGTT
*
38157 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
38175 GACCC-A----TTGACCC
1 GACCCGACCCGTTGACCC
*
38188 GACCCGACCCGTTGACTC
1 GACCCGACCCGTTGACCC
38206 GACCCG
1 GACCCG
38212 TTGACCGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
17 1 0.03
18 17 0.57
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:38192 original size:31 final size:31
Alignment explanation
Indices: 38157--38217 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
38147 CCGACCCGTT
*
38157 GACCCGACCCGTTTACCCGACCCATTGACCC
1 GACCCGACCCGTTGACCCGACCCATTGACCC
* *
38188 GACCCGACCCGTTGACTCGACCCGTTGACC
1 GACCCGACCCGTTGACCCGACCCATTGACC
38218 GTTGACCGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCATTGACCC
Found at i:38208 original size:13 final size:13
Alignment explanation
Indices: 38192--38216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38182 TGACCCGACC
38192 CGACCCGTTGACT
1 CGACCCGTTGACT
38205 CGACCCGTTGAC
1 CGACCCGTTGAC
38217 CGTTGACCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:40775 original size:47 final size:48
Alignment explanation
Indices: 40706--40796 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
40696 TCAAATTTGA
* * * *
40706 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
*
40753 ATTCTGATCTGATACATGACCTGAATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGAC
40797 TTGAATTATG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGAATTCTGATATGATACTTGACATGG
Found at i:40801 original size:24 final size:24
Alignment explanation
Indices: 40703--40803 Score: 114
Period size: 24 Copynumber: 4.2 Consensus size: 24
40693 ATTTCAAATT
* *
40703 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* * *
40727 TGGATTCTGATCTGATA-TTGACA
1 TGAATTCTGATATGATACTTGACC
* * *
40750 TGGATTCTGATCTGATACATGACC
1 TGAATTCTGATATGATACTTGACC
*
40774 TGAATTCTGATATGATACTTGACT
1 TGAATTCTGATATGATACTTGACC
40798 TGAATT
1 TGAATT
40804 ATGTTTTGAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 21 0.32
24 44 0.68
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:40920 original size:35 final size:35
Alignment explanation
Indices: 40873--40947 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
40863 TGGAGGAAGA
*
40873 TTACTTGGAGGCTCCTCGGCTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
*
40908 TTACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
40943 TTACT
1 TTACT
40948 GTTCGTGACG
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:0.09, C:0.29, G:0.29, T:0.32
Consensus pattern (35 bp):
TTACTTGCAGGCTCCTCGGCTGTGTGCTCAGGGCC
Found at i:43500 original size:18 final size:18
Alignment explanation
Indices: 43457--43503 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
43447 CTTTGTGTCG
43457 TATTG-ATATTATTTTCA
1 TATTGTATATTATTTTCA
* * **
43474 CATTATATATTATTTTTT
1 TATTGTATATTATTTTCA
43492 TATTGTATATTA
1 TATTGTATATTA
43504 AATACCTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTGTATATTATTTTCA
Found at i:44623 original size:2 final size:2
Alignment explanation
Indices: 44578--44606 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44568 TATTTTAGAA
44578 AT AT A- 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
44607 TAAGATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46660 original size:3 final size:3
Alignment explanation
Indices: 46654--46703 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
46644 AATAATAAAA
* * * *
46654 TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46702 TA
1 TA
46704 CATTTGCAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:49376 original size:26 final size:26
Alignment explanation
Indices: 49340--49391 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49330 CAGTTAAAAC
49340 GAATTGGATGGAGCAAATATGAAATT
1 GAATTGGATGGAGCAAATATGAAATT
49366 GAATTGGATGGAGCAAATATGAAATT
1 GAATTGGATGGAGCAAATATGAAATT
49392 ACCGATGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (26 bp):
GAATTGGATGGAGCAAATATGAAATT
Found at i:54640 original size:20 final size:22
Alignment explanation
Indices: 54602--54641 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
54592 TATAAAAAAA
54602 AAAACAATCCCCAAACGGCTCC
1 AAAACAATCCCCAAACGGCTCC
54624 AAAAC-ATCCCC-AACGGCT
1 AAAACAATCCCCAAACGGCT
54642 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAACAATCCCCAAACGGCTCC
Found at i:55562 original size:27 final size:27
Alignment explanation
Indices: 55532--55594 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
55522 GAAAAACCCT
*
55532 AAGAGAAG-GAAGATTAAAAAAAGGAAA
1 AAGAGAAGAGAACATTAAAAAAA-GAAA
*
55559 AAGAGAAGAGAACATTAAAAAAAGAAG
1 AAGAGAAGAGAACATTAAAAAAAGAAA
55586 AAGAGAAGA
1 AAGAGAAGA
55595 CTTAGCTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.67, C:0.02, G:0.25, T:0.06
Consensus pattern (27 bp):
AAGAGAAGAGAACATTAAAAAAAGAAA
Found at i:56778 original size:18 final size:17
Alignment explanation
Indices: 56752--56796 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
56742 TTTACATTCG
* *
56752 AATTCAATTTGGTTTCT
1 AATTAAATTTAGTTTCT
56769 CAATTAAATTTAGTTTCT
1 -AATTAAATTTAGTTTCT
56787 AATGTAAATT
1 AAT-TAAATT
56797 CGTTTGCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (17 bp):
AATTAAATTTAGTTTCT
Found at i:58416 original size:36 final size:35
Alignment explanation
Indices: 58322--58460 Score: 147
Period size: 35 Copynumber: 3.9 Consensus size: 35
58312 AAGTCTTTAC
*
58322 AGGTTCAGTTCGATCAAACTGGTAATTCCTTATAT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
* *
58357 AGGTTCAGAC-CGATCGAACTGGTAATTCCTTATGGT
1 AGGTTCAG-CTCGATCAAACTGGTAATTCCTTAT-AT
* * * *
58393 AGGTTCAGCTCGGTCAAATTGGTAATTCTTTACAT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
* * *
58428 AGGTTCAGACT-GATCGAGCTAGTAATTCCTTAT
1 AGGTTCAG-CTCGATCAAACTGGTAATTCCTTAT
58461 GGATCTAAAC
Statistics
Matches: 84, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
35 55 0.65
36 29 0.35
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (35 bp):
AGGTTCAGCTCGATCAAACTGGTAATTCCTTATAT
Found at i:58443 original size:71 final size:71
Alignment explanation
Indices: 58322--58462 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 71
58312 AAGTCTTTAC
* * *
58322 AGGTTCAGTTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATCGAACTGGTAATTCCT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTACATAGGTTCAGACCGATCGAACTAGTAATTCCT
58387 TATGGT
66 TATGGT
* * * * *
58393 AGGTTCAGCTCGGTCAAATTGGTAATTCTTTACATAGGTTCAGACTGATCGAGCTAGTAATTCCT
1 AGGTTCAGCTCGATCAAACTGGTAATTCCTTACATAGGTTCAGACCGATCGAACTAGTAATTCCT
58458 TATGG
66 TATGG
58463 ATCTAAACTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (71 bp):
AGGTTCAGCTCGATCAAACTGGTAATTCCTTACATAGGTTCAGACCGATCGAACTAGTAATTCCT
TATGGT
Found at i:62208 original size:35 final size:35
Alignment explanation
Indices: 62158--62226 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
62148 GAAGTCTTTG
**
62158 TAGGTTCAGTTCGATCAAACTAGTAATTCCTTATA
1 TAGGTTCAGACCGATCAAACTAGTAATTCCTTATA
* *
62193 TAGGTTCAGACCGATCGAACTGGTAATTCCTTAT
1 TAGGTTCAGACCGATCAAACTAGTAATTCCTTAT
62227 GGCAGGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (35 bp):
TAGGTTCAGACCGATCAAACTAGTAATTCCTTATA
Found at i:64224 original size:19 final size:19
Alignment explanation
Indices: 64200--64252 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
64190 CATAATCAAC
64200 TTGACCTGACTCGTTGAAT
1 TTGACCTGACTCGTTGAAT
* *
64219 TTGACCCGACTCGTTGACT
1 TTGACCTGACTCGTTGAAT
*
64238 TTGACCTGACCCGTT
1 TTGACCTGACTCGTT
64253 AACTGTTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.17, C:0.28, G:0.21, T:0.34
Consensus pattern (19 bp):
TTGACCTGACTCGTTGAAT
Found at i:65665 original size:45 final size:45
Alignment explanation
Indices: 65091--65664 Score: 823
Period size: 45 Copynumber: 12.8 Consensus size: 45
65081 ACTACAACAT
* *
65091 TACTTTTCTGTTGATAATGCACCCATATGCATTTCAATTATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* * **
65136 TACCTTTCTGTTGACAATGTACATATATGCATTTCAACTATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* *
65181 TACTTTTCTGTTGACAATACACCCTTATGCATTTCAACTATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* *
65226 TACTTCTT-TGTTGACAATGCACCTATATGCATTTCAACTATAGAA
1 TACTT-TTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
**
65271 TACTTCGCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* * * *
65316 TACTTCTCTCTTGACAATGCACCCATATACATTTCAACTATAACA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* *
65361 TACTTTTCTGTTGACAATGCACCTATATGCATTTCAAATATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* * * *
65406 TACTTTTCTATTGACAATGCACCCATATACATTTTAACTATAACA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
65451 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
65496 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTAT-GACA
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAG-CA
* * *
65541 TACTTTTCTGTTAACAATGCACTCATATGCATTTCAGCTAT-G-A
1 TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
* * *
65584 TATCCTTTTCTATTGACAATGCACCCATATGTATTTTAACTATAGCA
1 TA--CTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
*
65631 TACTTTTCTGTTGATAATGCACCCATATGCATTT
1 TACTTTTCTGTTGACAATGCACCCATATGCATTT
65665 TTATTTTCAT
Statistics
Matches: 470, Mismatches: 52, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
43 3 0.01
44 1 0.00
45 460 0.98
46 3 0.01
47 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (45 bp):
TACTTTTCTGTTGACAATGCACCCATATGCATTTCAACTATAGCA
Found at i:65757 original size:19 final size:19
Alignment explanation
Indices: 65733--65780 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
65723 CACGTATTCA
65733 GTAAAACATAGTAGTTACG
1 GTAAAACATAGTAGTTACG
65752 GTAAAACATAGTAGTTACG
1 GTAAAACATAGTAGTTACG
65771 GTAAAACATA
1 GTAAAACATA
65781 CATTAACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (19 bp):
GTAAAACATAGTAGTTACG
Found at i:66305 original size:20 final size:19
Alignment explanation
Indices: 66280--66330 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
66270 GATGTTTTCT
66280 TGGTATCGATAC-CCTTACAA
1 TGGTATCGATACGCC-T-CAA
66300 TGGTATCGATACTGCCTCAA
1 TGGTATCGATAC-GCCTCAA
66320 TGGTATCGATA
1 TGGTATCGATA
66331 TTGATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 26 0.90
21 1 0.03
22 2 0.07
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (19 bp):
TGGTATCGATACGCCTCAA
Found at i:66347 original size:96 final size:95
Alignment explanation
Indices: 66152--66330 Score: 227
Period size: 96 Copynumber: 1.9 Consensus size: 95
66142 CTTCCTCCGG
* * * *
66152 GTATCGATACCAAAATTAGGTTCGATGTTGCCTGTTATTGATACCCTTACCATGGTATCGATACT
1 GTATCGATACCAAAATTAGATTCGATGTTGCCTGGTATCGATACCCTTACAATGGTATCGATACT
* * **
66217 ACCATACTATGGTACCGATACCCCCTTACG
66 ACCATACAATGGTACCGATACCCCATTAAA
* *
66247 GTATCGATACCAAAATTAGATTCGATGTTTTCTTGGTATCGATACCCTTACAATGGTATCGATAC
1 GTATCGATACCAAAATTAGATTCGATG-TTGCCTGGTATCGATACCCTTACAATGGTATCGATAC
* *
66312 TGCC-T-CAATGGTATCGATA
65 TACCATACAATGGTACCGATA
66331 TTGATTAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
94 12 0.16
95 27 0.36
96 35 0.47
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (95 bp):
GTATCGATACCAAAATTAGATTCGATGTTGCCTGGTATCGATACCCTTACAATGGTATCGATACT
ACCATACAATGGTACCGATACCCCATTAAA
Found at i:67337 original size:27 final size:27
Alignment explanation
Indices: 67307--67358 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
67297 ACTTCGGTTA
**
67307 GGTAAAATTATGAAAATACCATTATGG
1 GGTAAAATTACAAAAATACCATTATGG
*
67334 GGTAAAATTACAAAAATACCCTTAT
1 GGTAAAATTACAAAAATACCATTAT
67359 ATTGTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (27 bp):
GGTAAAATTACAAAAATACCATTATGG
Found at i:68486 original size:35 final size:35
Alignment explanation
Indices: 68447--68564 Score: 112
Period size: 35 Copynumber: 3.3 Consensus size: 35
68437 GTATCTGCAT
* * *
68447 GTTCAGTTCGATCAAATTGGTAATTTCTTATATTG
1 GTTCAGATCGATCAAATTGGTAATTCCTTATATAG
* * * * **
68482 GTTCAGACCGATCGAACTGATAATTCCTTACGGTAG
1 GTTCAGATCGATCAAATTGGTAATTCCTTA-TATAG
*
68518 GTTCA-ACTCGGTCAAATTGGTAATTCCTTATATAG
1 GTTCAGA-TCGATCAAATTGGTAATTCCTTATATAG
*
68553 GTTCAGACCGAT
1 GTTCAGATCGAT
68565 TAAGCTGTTA
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
35 36 0.58
36 26 0.42
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (35 bp):
GTTCAGATCGATCAAATTGGTAATTCCTTATATAG
Found at i:68577 original size:35 final size:34
Alignment explanation
Indices: 68467--68582 Score: 90
Period size: 35 Copynumber: 3.3 Consensus size: 34
68457 ATCAAATTGG
* *
68467 TAATTTCTTATATTGGTTCAGACCGATCGAACTGA
1 TAATTCCTTATATAGGTTCAGACCGATC-AACTGA
** * * *
68502 TAATTCCTTACGGTAGGTTCA-ACTCGGTCAAATTGG
1 TAATTCCTTA-TATAGGTTCAGAC-CGATC-AACTGA
* *
68538 TAATTCCTTATATAGGTTCAGACCGATTAAGCTGT
1 TAATTCCTTATATAGGTTCAGACCGATCAA-CTGA
*
68573 TAATTTCTTA
1 TAATTCCTTA
68583 CGGATCTAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
34 2 0.03
35 33 0.53
36 27 0.44
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (34 bp):
TAATTCCTTATATAGGTTCAGACCGATCAACTGA
Done.