Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004894.1 Hibiscus syriacus cultivar Beakdansim tig00011017_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: 143737
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:1505 original size:122 final size:121
Alignment explanation
Indices: 1356--1642 Score: 396
Period size: 122 Copynumber: 2.3 Consensus size: 121
1346 CCATATTATG
** *
1356 TGAGATGACAACTTTCAGACCAAGGAGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGT
1 TGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGC
* * **
1421 ATTTTGAAGGCCCATACTAGTATAAGATAATGTGGGGGCACGACTGAACCCACATGT
66 ATTTTGAAGGCCCATACCAGTA-AAGATAAGGTGGGGGCACGACTGAACCCACATCA
1478 TGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGC
1 TGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGC
*** *
1543 ATTTTGAAGGCTTGTACCAGTAAAGATAAGGTTGGGGCACGACTGAACCCACATCA
66 ATTTTGAAGGCCCATACCAGTAAAGATAAGGTGGGGGCACGACTGAACCCACATCA
* * *
1599 TGATGATAAAACAAGATTCAGACCAAGAAGTCATTG-AGAATGAG
1 TGA-GAT--GACAAGATTCAGACCAAGGAGGCA-TGAAGAATGAG
1643 TCTCGTAACT
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
121 33 0.22
122 83 0.56
124 29 0.20
125 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (121 bp):
TGAGATGACAAGATTCAGACCAAGGAGGCATGAAGAATGAGCCTTACAATTTGAGGTGATGGGGC
ATTTTGAAGGCCCATACCAGTAAAGATAAGGTGGGGGCACGACTGAACCCACATCA
Found at i:2427 original size:36 final size:36
Alignment explanation
Indices: 2369--2559 Score: 194
Period size: 36 Copynumber: 5.3 Consensus size: 36
2359 GGGCAAGTCA
* * *
2369 ATCTTAAGCCTTCACTAGAGAGTAGTGAAGCGATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
* *
2405 AT-TTGAAGCATTCACCAAAGAGTAGTGAAACAAT-C
1 ATCTT-AAGCCTTCACCAAAGAGTAGTGAAGCAATCC
* * * * * *
2440 ATCTTAAGCCTTCACCGAAGAATGGTAAAGCAAACA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
2476 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-A-CC
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAATCC
* *
2510 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAG-CAATCC
2547 ATCTGTAAGCCTT
1 ATCT-TAAGCCTT
2560 TAGAGCAAGA
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
34 28 0.22
35 30 0.24
36 54 0.43
37 6 0.05
38 8 0.06
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCC
Found at i:2450 original size:71 final size:70
Alignment explanation
Indices: 2369--2539 Score: 195
Period size: 71 Copynumber: 2.4 Consensus size: 70
2359 GGGCAAGTCA
* * * *
2369 ATCTTAAGCCTTCA-CTAGAGAGTAGTGAAGCGATCCAT-TTGAAGCATTCACCA-AAGAGTAGT
1 ATCTTAAGCCTTCACCGA-AGAGTAGTGAAGCAAACAATCTT-AAGCATTCA-CAGAAGAGTAGT
*
2431 GAAACAATC
63 GAAAC-ACC
* * * *
2440 ATCTTAAGCCTTCACCGAAGAATGGTAAAGCAAACAATCTTAAGCCTTCACAGAAGAGTAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAAGCATTCACAGAAGAGTAGTGAA
*
2505 GCACC
66 ACACC
2510 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG
2540 TAAATCCATC
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
70 31 0.37
71 49 0.58
72 4 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (70 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCTTAAGCATTCACAGAAGAGTAGTGAA
ACACC
Found at i:2798 original size:41 final size:42
Alignment explanation
Indices: 2691--2875 Score: 212
Period size: 42 Copynumber: 4.5 Consensus size: 42
2681 TTCACAATTT
* * *
2691 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
2733 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
2774 ATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
* * * *
2816 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
*
2857 ACAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
2876 CATAAGACCT
Statistics
Matches: 115, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
41 48 0.42
42 67 0.58
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGC
Found at i:2830 original size:83 final size:83
Alignment explanation
Indices: 2691--2875 Score: 352
Period size: 83 Copynumber: 2.2 Consensus size: 83
2681 TTCACAATTT
2691 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
2756 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
2774 ATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
2839 AGCCTTTAGAGCAAGATG
66 AGCCTTTAGAGCAAGATG
*
2857 ACAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
2876 CATAAGACCT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 99 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (83 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
AGCCTTTAGAGCAAGATG
Found at i:3066 original size:295 final size:292
Alignment explanation
Indices: 2546--3374 Score: 1238
Period size: 294 Copynumber: 2.8 Consensus size: 292
2536 GAAGTAAATC
2546 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTC-GG-CATCC------CCTTCGGGTA-GA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* *
2602 TGTTTCACATGAATTTGAAAATG-AAAAATTATGTTTTAAGAAGATGAAA-TTTTGAAAACT-AG
66 TGTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
*
2664 AATGCGATTTTCAAATTTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
131 AATGCGA-TTTCAAA--ATCACAATTTATAAGTCC-TCGGGCCATCAGTAAGTCTTTCGAGCATG
2729 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATCA
192 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATCA
* *
2794 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
257 GTAAGTC-TTCGAGCATGATGATTAAATCCTTAGGGT
* *
2831 CATCTGTAAGCCTTTAGAGCAAGATGACAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
*
2896 TGTCTTCAAATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAATATGAAATTTTTGAAAACTA
66 TGT-TTCAAATGAATTTGAAAATG-AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTA
2961 AGAATGCGATTTCAAAATCACAATTTATAAGTCCTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
129 AGAATGCGATTTCAAAATCACAATTTATAAGTCCTCGGGCCATCAGTAAGTCTTTCGAGCATGAT
*
3026 GCTTAACTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTTC-TTCGGGCCATCAG
194 GCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG-TCATTCGGGCCATCAG
3090 TAAGTCTTCGAGCATGATGATTAAATCCTTAGGGT
258 TAAGTCTTCGAGCATGATGATTAAATCCTTAGGGT
* *
3125 CGTCTGTAAGCCTTT-GAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
* * *
3189 TGTTTTCAAAGGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAT
66 TG-TTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAA
* * * * * * *
3254 GAATGTGATTTCCAAAATCAC-ACTTAGTAAGTCATTCAGGCCATCAATAAGTCTTTTGAACATG
130 GAATGCGATTT-CAAAATCACAATTTA-TAAGTC-CTCGGGCCATCAGTAAGTCTTTCGAGCATG
* *
3318 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAGCAAGACGATAAGTCATTCG
192 ATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCG
3375 AGCTATCCAT
Statistics
Matches: 497, Mismatches: 27, Indels: 31
0.90 0.05 0.06
Matches are distributed among these distances:
285 36 0.07
286 2 0.00
287 5 0.01
292 52 0.10
293 93 0.19
294 123 0.25
295 116 0.23
296 19 0.04
297 24 0.05
298 18 0.04
299 9 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (292 bp):
CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGA
TGTTTCAAATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTAAG
AATGCGATTTCAAAATCACAATTTATAAGTCCTCGGGCCATCAGTAAGTCTTTCGAGCATGATGC
TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCATTCGGGCCATCAGTAA
GTCTTCGAGCATGATGATTAAATCCTTAGGGT
Found at i:3093 original size:41 final size:41
Alignment explanation
Indices: 2987--3168 Score: 190
Period size: 41 Copynumber: 4.5 Consensus size: 41
2977 ATCACAATTT
* *
2987 ATAAGTCC-TCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * * * *
3027 CTTAACTCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * *
3069 ATAAGTTCTTCGGGCCATCAGTAAGTC-TTCGAGCATGATG
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
* * * * *
3109 ATTAAATCCTTAGGGTCGTCTGTAAGCCTTT-GAGCAAGATG
1 A-TAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
3150 ATAAGTCCTTCGGGCCATC
1 ATAAGTCCTTCGGGCCATC
3169 CATAAGACCT
Statistics
Matches: 111, Mismatches: 27, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
40 26 0.23
41 56 0.50
42 29 0.26
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAGATG
Found at i:3125 original size:82 final size:82
Alignment explanation
Indices: 2987--3168 Score: 287
Period size: 82 Copynumber: 2.2 Consensus size: 82
2977 ATCACAATTT
* * * *
2987 ATAAG-TCCTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAACTCCTTCGGGTCATCTGTA
1 ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTCATCTGTA
3051 AGCCTTTAGAGCAAGATG
66 AGCCTTT-GAGCAAGATG
*
3069 ATAAGTTCTTCGGGCCATCAGTAAGTC-TTCGAGCATGATGATTAAATCCTTAGGGTCGTCTGTA
1 ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTCATCTGTA
3133 AGCCTTTGAGCAAGATG
66 AGCCTTTGAGCAAGATG
*
3150 ATAAGTCCTTCGGGCCATC
1 ATAAGTTCTTCGGGCCATC
3169 CATAAGACCT
Statistics
Matches: 93, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 28 0.30
82 45 0.48
83 20 0.22
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (82 bp):
ATAAGTTCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTAGGGTCATCTGTA
AGCCTTTGAGCAAGATG
Found at i:3563 original size:216 final size:212
Alignment explanation
Indices: 3069--3566 Score: 642
Period size: 216 Copynumber: 2.3 Consensus size: 212
3059 GAGCAAGATG
* * *
3069 ATAAGTTCTTCGGGCCATCAGTAAGTC-TTCGAGCATGATGATTAAATCCTTAGGGTCGTCTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTA
* * * * * *
3133 AGCC-TTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGTAGGATGTTTTCA
66 AGCCTTTTGAGCAAGACGATAAGTCATTCGAGCCATCCATAAGACCTTCAGGCAAGATATTTTCA
* * * * *
3197 AAGGAATTTGAAAATGAGAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACTATGAATGTGA
131 AAGGAATTTGAAAATGAGAAAATAATGTTTTAAGAAAATGAAATTTTTGAAAACTAAGAAGGCGA
3262 TTTCCAAAATCACACTT
196 TTTCCAAAATCACACTT
* * * * * *
3279 AGTAAGTCATTCAGGCCATCAATAAGTCTTTTGAACATGATGCTTAAATCCTTCGGGTCATCTGT
1 A-TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGT
* *
3344 AAGCCTTTTGAGCAAGACGATAAGTCATTCGAGCTATCCATAAGACCTTCGGGCAAGATATCTTT
65 AAGCCTTTTGAGCAAGACGATAAGTCATTCGAGCCATCCATAAGACCTTCAGGCAAGATAT-TTT
* * * * *
3409 -ACATGAATTTGAAGAATGAGAAAGTAATGTTTTAAGAAAATGAAATTTTTGAGAAGTAAGAAGG
129 CAAAGGAATTTGAA-AATGAGAAAATAATGTTTTAAGAAAATGAAATTTTTGAAAACTAAGAAGG
* *
3473 CGATTTCCAATACTTCGCACTAT
193 CGATTTCCAA-A-ATCACACT-T
* *
3496 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTA
3561 AGCCTT
66 AGCCTT
3567 CCGAAGAGTA
Statistics
Matches: 243, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
210 1 0.00
211 22 0.09
212 36 0.15
213 58 0.24
214 55 0.23
215 1 0.00
216 68 0.28
217 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (212 bp):
ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTA
AGCCTTTTGAGCAAGACGATAAGTCATTCGAGCCATCCATAAGACCTTCAGGCAAGATATTTTCA
AAGGAATTTGAAAATGAGAAAATAATGTTTTAAGAAAATGAAATTTTTGAAAACTAAGAAGGCGA
TTTCCAAAATCACACTT
Found at i:3677 original size:37 final size:37
Alignment explanation
Indices: 3632--3816 Score: 243
Period size: 37 Copynumber: 5.1 Consensus size: 37
3622 CCTCCGGGCT
*
3632 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * *
3669 ATCTTAAGCCTTCATCGAAGAGTAATGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* * * * *
3706 ATTTTAAGTCTTCACTGAAGAGTAGTGAAACAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
* *
3743 ATTTTAAGCCTT---CGAAGAGTAGTGAAG-AAATCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
3776 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
3813 ATCT
1 ATCT
3817 CGAGTCTTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
33 16 0.12
34 13 0.10
36 15 0.12
37 84 0.66
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCA
Found at i:3677 original size:78 final size:78
Alignment explanation
Indices: 3528--3681 Score: 197
Period size: 78 Copynumber: 2.0 Consensus size: 78
3518 AAGTCTTTCG
* * * *
3528 AGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCCGAAGAGTAGGGAAGCAAATCCATC
1 AGCATGATGATTAAATCCTCCGGGTAATCTGTAAGCCTTCCAAAGAGTAGGGAAGCAAATCAATC
3593 AATAAGCCTTCCA
66 AATAAGCCTTCCA
* *
3606 AGCATGATGATTAAGTCCTCCGGGCT-ATCT-TAAGCCTTCACCAAAGAGTAGTGAAGCAAATCA
1 AGCATGATGATTAAATCCTCCGGG-TAATCTGTAAGCCTT--CCAAAGAGTAGGGAAGCAAATCA
*
3669 ATC-TTAAGCCTTC
63 ATCAATAAGCCTTC
3682 ATCGAAGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
77 8 0.12
78 34 0.52
79 24 0.36
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (78 bp):
AGCATGATGATTAAATCCTCCGGGTAATCTGTAAGCCTTCCAAAGAGTAGGGAAGCAAATCAATC
AATAAGCCTTCCA
Found at i:3729 original size:74 final size:70
Alignment explanation
Indices: 3632--3816 Score: 253
Period size: 70 Copynumber: 2.6 Consensus size: 70
3622 CCTCCGGGCT
*
3632 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATCGAAGAGTAATGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCC-T--TCGAAGAGTAATGA
3697 AGCAAATCC
63 AG-AAATCC
* * * * * * *
3706 ATTTTAAGTCTTCACTGAAGAGTAGTGAAACAAATCCATTTTAAGCCTTCGAAGAGTAGTGAAGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCGAAGAGTAATGAAGA
*
3771 AATCT
66 AATCC
3776 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCT
3817 CGAGTCTTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
70 40 0.42
71 15 0.16
73 1 0.01
74 40 0.42
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (70 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCGAAGAGTAATGAAGA
AATCC
Found at i:6688 original size:15 final size:16
Alignment explanation
Indices: 6641--6698 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
6631 TGTTTGTACA
*
6641 ATATATGTAAT-TATT
1 ATATATATAATATATT
6656 AT-TATATAATA-ATCT
1 ATATATATAATATAT-T
6671 ATATATA-AATATATT
1 ATATATATAATATATT
6686 ATATA-AT-ATATAT
1 ATATATATAATATAT
6699 CAGAGGATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.43
15 15 0.41
16 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATATAATATATT
Found at i:12966 original size:21 final size:21
Alignment explanation
Indices: 12940--12987 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12930 TGATTGCGGC
*
12940 CGTCGCGGGCGCTATTACGAT
1 CGTCGCGGACGCTATTACGAT
*
12961 CGTCGCGGACGCTATTGCGAT
1 CGTCGCGGACGCTATTACGAT
*
12982 TGTCGC
1 CGTCGC
12988 AGGTAACTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.33, T:0.25
Consensus pattern (21 bp):
CGTCGCGGACGCTATTACGAT
Found at i:13692 original size:12 final size:12
Alignment explanation
Indices: 13675--13706 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
13665 CTTAATCTTT
13675 AATTTACCTTGA
1 AATTTACCTTGA
13687 AATTTACCTTGA
1 AATTTACCTTGA
13699 AATTTACC
1 AATTTACC
13707 CTTTAGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (12 bp):
AATTTACCTTGA
Found at i:13817 original size:2 final size:2
Alignment explanation
Indices: 13812--13880 Score: 83
Period size: 2 Copynumber: 36.0 Consensus size: 2
13802 TTTATTTATT
* *
13812 TA TA TA T- TT TA T- TA TA TA TA TC T- TA TA TCA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
13851 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
13881 ATAGATGTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
1 4 0.07
2 54 0.90
3 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:13961 original size:35 final size:32
Alignment explanation
Indices: 13910--14001 Score: 100
Period size: 35 Copynumber: 2.8 Consensus size: 32
13900 CCATTTACTA
13910 TATATATTTTTCTTAATATTATATTTTATACGTTTT
1 TATATA-TTTTCTTAATATTATATTTT-T--GTTTT
*
13946 TATATATTTTCTTAATATTCTATTTTTGTTTT
1 TATATATTTTCTTAATATTATATTTTTGTTTT
* *
13978 TATTTA-TTT-AT-ATATTATATTTTT
1 TATATATTTTCTTAATATTATATTTTT
14002 ACTTTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.23
30 1 0.02
31 3 0.06
32 10 0.19
34 1 0.02
35 19 0.37
36 6 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (32 bp):
TATATATTTTCTTAATATTATATTTTTGTTTT
Found at i:13986 original size:32 final size:34
Alignment explanation
Indices: 13910--13986 Score: 104
Period size: 35 Copynumber: 2.3 Consensus size: 34
13900 CCATTTACTA
13910 TATATATTTTTCTTAATATTATATTTTATACGTTTT
1 TATATA-TTTTCTTAATATTATATTTTATA-GTTTT
*
13946 TATATATTTTCTTAATATTCTATTTT-T-GTTTT
1 TATATATTTTCTTAATATTATATTTTATAGTTTT
*
13978 TATTTATTT
1 TATATATTT
13987 ATATATTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 13 0.33
34 1 0.03
35 19 0.49
36 6 0.15
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (34 bp):
TATATATTTTCTTAATATTATATTTTATAGTTTT
Found at i:14018 original size:18 final size:18
Alignment explanation
Indices: 13975--14033 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 18
13965 CTATTTTTGT
* *
13975 TTTTATTTATTTATA-TA
1 TTTTATTTTTTTCTATTA
* *
13992 TTATA-TTTTTACT-TTA
1 TTTTATTTTTTTCTATTA
14008 TTTTATTTTTTTCTATTA
1 TTTTATTTTTTTCTATTA
14026 TTTT-TTTT
1 TTTTATTTT
14034 CTTAATATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 11 0.33
17 15 0.45
18 7 0.21
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTTTCTATTA
Found at i:14161 original size:20 final size:20
Alignment explanation
Indices: 14136--14181 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
14126 GTATACATTA
14136 TTTTTAT-TCTTTTTTAATTT
1 TTTTTATCT-TTTTTTAATTT
14156 TTTTTATCTTTTTTTAATTT
1 TTTTTATCTTTTTTTAATTT
14176 TTTTTA
1 TTTTTA
14182 CTCCATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATCTTTTTTTAATTT
Found at i:14170 original size:10 final size:9
Alignment explanation
Indices: 14136--14181 Score: 56
Period size: 10 Copynumber: 4.7 Consensus size: 9
14126 GTATACATTA
14136 TTTTTATTCT
1 TTTTTATT-T
14146 TTTTTAATTT
1 TTTTT-ATTT
14156 TTTTTATCTT
1 TTTTTAT-TT
14166 TTTTTAATTT
1 TTTTT-ATTT
14176 TTTTTA
1 TTTTTA
14182 CTCCATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 3 0.09
10 25 0.76
11 5 0.15
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:14263 original size:19 final size:19
Alignment explanation
Indices: 14226--14267 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14216 TTTTTTAACA
14226 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTTTGTTTAT
*
14245 TTTTATT-ATTTTTTATTAT
1 TTTTATTCATTTTGT-TTAT
14264 TTTT
1 TTTT
14268 TACGTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTCATTTTGTTTAT
Found at i:14269 original size:10 final size:10
Alignment explanation
Indices: 14226--14269 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
14216 TTTTTTAACA
14226 TTTTATTCATT
1 TTTTATT-ATT
*
14237 TTGT-TTA-T
1 TTTTATTATT
14245 TTTTATTATT
1 TTTTATTATT
14255 TTTTATTATT
1 TTTTATTATT
14265 TTTTA
1 TTTTA
14270 CGTGTTTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 18 0.62
11 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTATTATT
Found at i:14308 original size:26 final size:27
Alignment explanation
Indices: 14261--14314 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
14251 TATTTTTTAT
14261 TATTTTTTACGTGTTTTGTTATT-TTC
1 TATTTTTTACGTGTTTTGTTATTATTC
* *
14287 TATTTTTT-CTTGTTTTATTTATTATTC
1 TATTTTTTACGTGTTTT-GTTATTATTC
14314 T
1 T
14315 CACGTTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 13 0.54
27 4 0.17
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.72
Consensus pattern (27 bp):
TATTTTTTACGTGTTTTGTTATTATTC
Found at i:17465 original size:27 final size:26
Alignment explanation
Indices: 17435--17487 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
17425 CAAAAAGAGA
* *
17435 AAAAATAGAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAAACAAAGA-AAAAT
17462 AAAAAGAGAAAAAAACAAAGAAAAAT
1 AAAAAGAGAAAAAAACAAAGAAAAAT
17488 TGAAGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.77, C:0.04, G:0.13, T:0.06
Consensus pattern (26 bp):
AAAAAGAGAAAAAAACAAAGAAAAAT
Found at i:17467 original size:13 final size:14
Alignment explanation
Indices: 17441--17487 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
17431 GAGAAAAAAT
17441 AGAAAA-AAGCAAAG
1 AGAAAATAA-CAAAG
17455 AGAAAATAA-AAAG
1 AGAAAATAACAAAG
*
17468 AGAAAAAAACAAAG
1 AGAAAATAACAAAG
17482 A-AAAAT
1 AGAAAAT
17488 TGAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 16 0.55
14 11 0.38
15 2 0.07
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (14 bp):
AGAAAATAACAAAG
Found at i:17671 original size:69 final size:69
Alignment explanation
Indices: 17559--17693 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
17549 GATTTAAACT
* *
17559 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAATCACTTCACTCCAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTCCAAGATCATAGAGCA
17624 TCAA
66 TCAA
* * * * * *
17628 ATGAGATTGATCAAGTACAATCATTTCTAAATCATTGAGTCACTCCACTCGAATATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTCCAAGATCATAGAGCA
17693 T
66 T
17694 TAAGAGAGAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCAAATCACTGAATCACTCCACTCCAAGATCATAGAGCA
TCAA
Found at i:18474 original size:13 final size:12
Alignment explanation
Indices: 18440--18467 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18430 ACTTTTGGTT
18440 AAACATTTTTCG
1 AAACATTTTTCG
18452 AAACATTTTTCG
1 AAACATTTTTCG
18464 AAAC
1 AAAC
18468 TCTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (12 bp):
AAACATTTTTCG
Found at i:18686 original size:32 final size:31
Alignment explanation
Indices: 18634--18719 Score: 82
Period size: 32 Copynumber: 2.7 Consensus size: 31
18624 AACAATGAGG
* * *
18634 GCATCTTTAAAGATTAAACATCAAATGTTGGA
1 GCATCTTT-GAGATTCAACATCAAATATTGGA
* * *
18666 GCATTTTTTGAGATTCAACATCGAATATTGGG
1 GCA-TCTTTGAGATTCAACATCAAATATTGGA
*
18698 GCATCTTTGGGAATTCAACATC
1 GCATCTTTGAG-ATTCAACATC
18720 CTGATGCAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.14
32 34 0.77
33 4 0.09
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (31 bp):
GCATCTTTGAGATTCAACATCAAATATTGGA
Found at i:19503 original size:106 final size:106
Alignment explanation
Indices: 19340--19544 Score: 340
Period size: 106 Copynumber: 1.9 Consensus size: 106
19330 ATATCGTGCC
* *
19340 ACTCGAGACAATACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTATCAAAAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
*
19405 AATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AAATTCGA-AGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
19446 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
*
19511 AAATTCGAAGCCAATTTCAACTTCACAGCGAAGG
66 AAATTCGAAGCCAATTTCAACTTCACAACGAAGG
19545 GGCGGCTGGC
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 91 0.99
107 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTATCAAAAAACAATTTCCC
AAATTCGAAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:19586 original size:63 final size:62
Alignment explanation
Indices: 19463--19599 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 62
19453 ACAACACAAG
* * *
19463 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAAATTCGAAGCCAAT
1 TTCAACTTCACAACGAAGGGACGACTGGCTATCAACAAACAATTT-CCAAATTCCAAGCCAAT
* * * *
19526 TTCAACTTCACAGCGAAGGGGCGGCTGGCTATCAACAAACAATTT-CATAGTTCCAGAGCCAAT
1 TTCAACTTCACAACGAAGGGACGACTGGCTATCAACAAACAATTTCCA-AATTCCA-AGCCAAT
*
19589 TTTAACTTCAC
1 TTCAACTTCAC
19600 TGTGGAGGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 2 0.03
62 5 0.08
63 57 0.89
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (62 bp):
TTCAACTTCACAACGAAGGGACGACTGGCTATCAACAAACAATTTCCAAATTCCAAGCCAAT
Found at i:19859 original size:37 final size:36
Alignment explanation
Indices: 19798--19884 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 36
19788 TTTGAATCTG
*
19798 TTTTC-TTTGAAACTAATTTCGTCTCCCTTGAGACA
1 TTTTCTTTTGAAACAAATTTCGTCTCCCTTGAGACA
*
19833 TTTTCTTTTGAAACGAAATTTTGTCTCCCTTGAGACA
1 TTTTCTTTTGAAAC-AAATTTCGTCTCCCTTGAGACA
* *
19870 ATTTCTCTTGAAACA
1 TTTTCTTTTGAAACA
19885 TAAATATTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
35 5 0.11
36 9 0.20
37 32 0.70
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (36 bp):
TTTTCTTTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:19975 original size:37 final size:36
Alignment explanation
Indices: 19900--19976 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
19890 ATTGAAAACA
* *
19900 TTTCCCTTGAAATAAATTTTATCTCGCTTGGGGAAG
1 TTTCCCTTGAAAAAAATTTTATCTCGCTTGGAGAAG
* *
19936 TTTCCCTTGAAACAAAATTTTGTCTCTCTT-GAGACAG
1 TTTCCCTTGAAA-AAAATTTTATCTCGCTTGGAGA-AG
19973 TTTC
1 TTTC
19977 TATTGAGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 15 0.43
37 20 0.57
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAAAAAATTTTATCTCGCTTGGAGAAG
Found at i:19984 original size:15 final size:15
Alignment explanation
Indices: 19964--19997 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
19954 TTTGTCTCTC
19964 TTGAGACAGTTTCTA
1 TTGAGACAGTTTCTA
*
19979 TTGAGACAGTTTCTC
1 TTGAGACAGTTTCTA
19994 TTGA
1 TTGA
19998 AACATAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (15 bp):
TTGAGACAGTTTCTA
Found at i:19992 original size:117 final size:117
Alignment explanation
Indices: 19862--20099 Score: 361
Period size: 117 Copynumber: 2.0 Consensus size: 117
19852 TTTGTCTCCC
*
19862 TTGAGACAATTTCTCTTGAAACATAAATATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
1 TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
* *
19927 TTGGGGA-AGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTA
66 -TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
* * * * *
19979 TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTC
1 TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
* * *
20044 TGGATATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTC
66 TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
20096 TTGA
1 TTGA
20100 AATATAAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 4 0.04
117 105 0.96
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (117 bp):
TTGAGACAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGC
TGGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTA
Found at i:20064 original size:36 final size:36
Alignment explanation
Indices: 20017--20103 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 36
20007 ATTGAAAACA
* * * *
20017 TTTCCTTTGAAATTAATTTTGTCTCTCTGGATATAG
1 TTTCCCTTGAAATAAATTTTGTCTCCCTGGAGATAG
* *
20053 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCCCTGGAGATAG
*
20090 TTTCTCTTGAAATA
1 TTTCCCTTGAAATA
20104 TAAACCTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCCCTGGAGATAG
Found at i:20078 original size:37 final size:37
Alignment explanation
Indices: 20031--20101 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
20021 CTTTGAAATT
* *
20031 AATTTTGTCTCTCTGGATATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAACAA
* *
20068 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAA
1 AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAA
20102 TATAAACCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (37 bp):
AATTTTGTCTCCCTGGAGATAGTTTCCCTTGAAACAA
Found at i:20252 original size:36 final size:37
Alignment explanation
Indices: 20168--20270 Score: 172
Period size: 36 Copynumber: 2.8 Consensus size: 37
20158 AAAACGAGTT
*
20168 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTGTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
20205 TTGAGACAGTTTCCCTTGAAACAAAAT-TTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
* *
20241 TTGAGATAGTTTCCCTTAAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
20271 TGAATATCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 33 0.53
37 29 0.47
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:20347 original size:37 final size:36
Alignment explanation
Indices: 20285--20401 Score: 155
Period size: 36 Copynumber: 3.2 Consensus size: 36
20275 TATCTTTTCC
** *
20285 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
20321 TT-AGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGA-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* *
20358 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
20394 TTGAAACA
1 TTGAAACA
20402 TAAAAAAATC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 1 0.01
36 39 0.55
37 30 0.42
38 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:21645 original size:16 final size:16
Alignment explanation
Indices: 21624--21665 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
21614 TCGTCCCTTA
21624 TATATATTTTTTTAAT
1 TATATATTTTTTTAAT
*
21640 TATATATATTTTTTATT
1 TATATAT-TTTTTTAAT
21657 TACTATATT
1 TA-TATATT
21666 CCTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATATTTTTTTAAT
Found at i:21689 original size:16 final size:16
Alignment explanation
Indices: 21621--21697 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 16
21611 ATTTCGTCCC
21621 TTATATA-TATTTTTT
1 TTATATATTATTTTTT
*
21636 TAATTATATATATTTTTTAT
1 TTA-TATAT-TA-TTTTT-T
*
21656 TTACTATATTCCTCTTTTT
1 TTA-TATATT-AT-TTTTT
21675 TTATATATTA-TTTTT
1 TTATATATTATTTTTT
21690 TTATATAT
1 TTATATAT
21698 CTTATATCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
15 15 0.30
16 4 0.08
18 8 0.16
19 11 0.22
20 12 0.24
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATATTATTTTTT
Found at i:21691 original size:18 final size:17
Alignment explanation
Indices: 21621--21697 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 17
21611 ATTTCGTCCC
*
21621 TTATATATATTTTTTTAA
1 TTATATATATTTTTTT-T
*
21639 TTATATATATTTTTTAT
1 TTATATATATTTTTTTT
* *
21656 TTACTATAT-TCCTCTTTT
1 TTA-TATATAT-TTTTTTT
*
21674 TT-TATATATTATTTTT
1 TTATATATATTTTTTTT
21690 TTATATAT
1 TTATATAT
21698 CTTATATCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
16 11 0.23
17 10 0.21
18 26 0.55
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATATATTTTTTTT
Found at i:21845 original size:32 final size:36
Alignment explanation
Indices: 21766--21863 Score: 107
Period size: 37 Copynumber: 2.8 Consensus size: 36
21756 ATTTACTATG
*
21766 TATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATATTTTCTTAATATTATATTTTATA-GTTTT
*
21803 TATATATATTTTCTTAATATTCTATTTT-T-GTTTT
1 TATATATATTTTCTTAATATTATATTTTATAGTTTT
*
21837 TAT-T-TATTTAT-ATATATATTATATTTT
1 TATATATATTT-TCTTA-ATATTATATTTT
21864 TACTTTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
32 7 0.13
33 13 0.24
34 8 0.15
36 1 0.02
37 26 0.47
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (36 bp):
TATATATATTTTCTTAATATTATATTTTATAGTTTT
Found at i:21880 original size:17 final size:17
Alignment explanation
Indices: 21834--21895 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 17
21824 CTATTTTTGT
*
21834 TTTTATTTATTTATATATA
1 TTTTATTT-TTTCTAT-TA
*
21853 TATTATATTTTTACT-TTA
1 T-TT-TATTTTTTCTATTA
21871 TTTTATTTTTTCTATTA
1 TTTTATTTTTTCTATTA
21888 TTTT-TTTT
1 TTTTATTTT
21896 CTTAATATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 13 0.35
17 9 0.24
18 3 0.08
19 2 0.05
20 5 0.14
21 5 0.14
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTTCTATTA
Found at i:21934 original size:9 final size:9
Alignment explanation
Indices: 21920--21978 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
21910 TATTTTTATT
21920 TTTTATTTG
1 TTTTATTTG
21929 TTTTATTTG
1 TTTTATTTG
21938 TTTTATTTAG
1 TTTTATTT-G
* *
21948 TATTATAT-
1 TTTTATTTG
*
21956 ATTTATTAT-
1 TTTTATT-TG
21965 TTTTATTTG
1 TTTTATTTG
21974 TTTTA
1 TTTTA
21979 GTAAATACTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
8 5 0.12
9 29 0.71
10 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (9 bp):
TTTTATTTG
Found at i:22131 original size:19 final size:19
Alignment explanation
Indices: 22094--22135 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
22084 TTTTTTAACA
22094 TTTTATTCATTTTGTTTAT
1 TTTTATTCATTTTGTTTAT
*
22113 TTTTATT-ATTTTTTATTAT
1 TTTTATTCATTTTGT-TTAT
22132 TTTT
1 TTTT
22136 TTACGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTATTCATTTTGTTTAT
Found at i:22138 original size:11 final size:10
Alignment explanation
Indices: 22094--22136 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
22084 TTTTTTAACA
22094 TTTTATTCATT
1 TTTTATT-ATT
*
22105 TTGT-TTA-T
1 TTTTATTATT
22113 TTTTATTATT
1 TTTTATTATT
22123 TTTTATTATT
1 TTTTATTATT
22133 TTTT
1 TTTT
22137 TACGTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 17 0.61
11 3 0.11
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTATTATT
Found at i:23905 original size:23 final size:23
Alignment explanation
Indices: 23865--23916 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
23855 CGAAAATATG
* *
23865 TCATAAAGATAGAAAAAAATTTA
1 TCATAAAAATAGAAAAAAACTTA
23888 TCATAAAAATA-AAGAAAAACTTA
1 TCATAAAAATAGAA-AAAAACTTA
23911 TCATAA
1 TCATAA
23917 TTGCAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (23 bp):
TCATAAAAATAGAAAAAAACTTA
Found at i:24598 original size:16 final size:17
Alignment explanation
Indices: 24563--24599 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24553 TATGGGATGA
24563 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
24580 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTGT
24596 AAAA
1 AAAA
24600 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:24640 original size:17 final size:17
Alignment explanation
Indices: 24618--24650 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24608 TACTACCATA
*
24618 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
24635 ATATTATATTTTATAT
1 ATATTATATTTTATAT
24651 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:29545 original size:21 final size:22
Alignment explanation
Indices: 29519--29579 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
29509 CAGAACCCCA
29519 GGGGGGTATCGATTCCC-C-TG
1 GGGGGGTATCGATTCCCTCATG
*
29539 TGGGGGGTATCGGTTCCCTCATG
1 -GGGGGGTATCGATTCCCTCATG
29562 GGGGGG-ATCGATTCCCTC
1 GGGGGGTATCGATTCCCTC
29580 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 27 0.75
22 7 0.19
23 2 0.06
ACGTcount: A:0.10, C:0.25, G:0.39, T:0.26
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCTCATG
Found at i:33427 original size:22 final size:21
Alignment explanation
Indices: 33385--33424 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33375 GAGTTTGTTT
*
33385 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
33406 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
33425 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:41284 original size:19 final size:19
Alignment explanation
Indices: 41243--41287 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
41233 ATCTCAAATT
41243 ATTTTA-AATTTAATTGTA
1 ATTTTATAATTTAATTGTA
* *
41261 ATTTTATAATTTTATTTTA
1 ATTTTATAATTTAATTGTA
*
41280 TTTTTATA
1 ATTTTATA
41288 TTATATAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTATAATTTAATTGTA
Found at i:49937 original size:21 final size:21
Alignment explanation
Indices: 49907--50008 Score: 118
Period size: 21 Copynumber: 5.0 Consensus size: 21
49897 GATTTACATA
* **
49907 TTCGCATTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
49928 TTCGCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
49949 TTCGCGTTGCAATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
49970 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
49989 TTCGCGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
50009 AATCGCAACG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
19 14 0.21
21 52 0.79
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:50008 original size:40 final size:40
Alignment explanation
Indices: 49932--50009 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
49922 TTGAAGTTCG
**
49932 CGTTGCGATAGTCCAAGTTCGCGTTGCAATTTTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATAGTCCAAATT
* *
49972 CGTTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAA
1 CGTTGCGATAGTCCAAGTTCGCGTTGCAATAGTCCAAA
50010 ATCGCAACGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCAATAGTCCAAATT
Found at i:50730 original size:19 final size:19
Alignment explanation
Indices: 50707--50781 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
50697 CGTTGCGATT
*
50707 TTGGACTATCGCAACTAAT
1 TTGGACTATCGCAACTAAC
*
50726 TTGGAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAAC-T-AAC
* *
50749 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACTAAC
50768 TTGGACTATCGCAA
1 TTGGACTATCGCAA
50782 TGCGATTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 22 0.48
21 16 0.35
22 1 0.02
23 7 0.15
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (19 bp):
TTGGACTATCGCAACTAAC
Found at i:50821 original size:21 final size:20
Alignment explanation
Indices: 50776--51115 Score: 225
Period size: 21 Copynumber: 16.6 Consensus size: 20
50766 ACTTGGACTA
* *
50776 TCGCAATGCGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
*
50796 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
*
50817 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTAC-AAT
*
50837 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTACA-AT
*
50858 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
* *
50878 TCGCGTTGCGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
* *
50898 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
*
50919 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTAC-AAT
*
50939 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTACA-AT
*
50960 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTACA-AT
* *
50980 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTACAA-T
*
51001 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTAC-AAT
*
51021 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTACA-AT
* *
51042 TCGTATTGCGATAGTTCAAGT
1 TCGCATTGCGATAGTACAA-T
51063 TCGCATTGCGATAGT-CGAAGT
1 TCGCATTGCGATAGTAC-AA-T
* **
51084 TCGCATTACGATAGTTGAAGT
1 TCGCATTGCGATAGTACAA-T
51105 TCGCATTGCGA
1 TCGCATTGCGA
51116 ATTTGGAAAC
Statistics
Matches: 271, Mismatches: 27, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
20 121 0.45
21 150 0.55
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
TCGCATTGCGATAGTACAAT
Found at i:50842 original size:62 final size:62
Alignment explanation
Indices: 50771--51080 Score: 352
Period size: 62 Copynumber: 5.0 Consensus size: 62
50761 AACGAACTTG
*
50771 GACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *
50833 GACTATCGCATTGCGATTTACATATTCGCATTGCGAT-TTACATA-TTCGCGTTGCGAT--T-
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTC
* * * * * *
50891 TACATATTCGCGTTGCGATAGTCCA-AGTTCGCATTGCGATAGT-CGACTATCGCATTGCGAT--
1 GAC-TA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATAG
50952 T-
61 TC
* *
50953 TACATATTCGCATTGCGATTTACATATTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GAC-TA-TCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* *
51017 GACTATCGCATTGCGATTTACATATTCGTATTGCGATAGTTCAAGTTCGCATTGCGATAGTC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
51079 GA
1 GA
51081 AGTTCGCATT
Statistics
Matches: 214, Mismatches: 21, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
58 2 0.01
59 3 0.01
60 13 0.06
61 63 0.29
62 128 0.60
63 3 0.01
64 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (62 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:50880 original size:82 final size:82
Alignment explanation
Indices: 50771--51115 Score: 425
Period size: 82 Copynumber: 4.2 Consensus size: 82
50761 AACGAACTTG
* * *
50771 GACTATCGCAATGCGATTTACATATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGT-CG
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGAT-GTACATA-TTCGCATTGCGATAGTCCA
*
50834 ACTATCGCATTGCGAT--T-
64 AGT-TCGCATTGCGATAGTC
* * * *
50851 TACATATTCGCATTGCGATTTACATATTCGCGTTGCGATTTACATATTCGCGTTGCGATAGTCCA
1 GAC-TA-TCGCATTGCGATTTACATATTCGCATTGCGATGTACATATTCGCATTGCGATAGTCCA
50916 AGTTCGCATTGCGATAGTC
64 AGTTCGCATTGCGATAGTC
* *
50935 GACTATCGCATTGCGATTTACATATTCGCATTGCGATTTACATATTCGCGTTGCGATAGTCCAAG
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATGTACATATTCGCATTGCGATAGTCCAAG
51000 TTCGCATTGCGATAGTC
66 TTCGCATTGCGATAGTC
* * *
51017 GACTATCGCATTGCGATTTACATATTCGTATTGCGATAGTTCA-AGTTCGCATTGCGATAGTCGA
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGAT-GTACATA-TTCGCATTGCGATAGTCCA
* *
51081 AGTTCGCATTACGATAGTT
64 AGTTCGCATTGCGATAGTC
*
51100 GAAGT-TCGCATTGCGA
1 G-ACTATCGCATTGCGA
51116 ATTTGGAAAC
Statistics
Matches: 237, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
80 2 0.01
81 32 0.14
82 147 0.62
83 52 0.22
84 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (82 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATGTACATATTCGCATTGCGATAGTCCAAG
TTCGCATTGCGATAGTC
Found at i:50900 original size:102 final size:102
Alignment explanation
Indices: 50782--51033 Score: 418
Period size: 102 Copynumber: 2.5 Consensus size: 102
50772 ACTATCGCAA
50782 TGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGC
1 TGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGC
50847 GATTTACATATTCGCATTGCGATTTACATATTCGCGT
66 GATTTACATATTCGCATTGCGATTTACATATTCGCGT
*
50884 TGCGATTTACATATTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGC
1 TGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGC
50949 GATTTACATATTCGCATTGCGATTTACATATTCGCGT
66 GATTTACATATTCGCATTGCGATTTACATATTCGCGT
* * * *
50986 TGCGATAGTCCA-AGTTCGCATTGCGATAGT-CGACTATCGCATTGCGAT
1 TGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGAT
51034 TTACATATTC
Statistics
Matches: 141, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
102 111 0.79
103 30 0.21
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (102 bp):
TGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGC
GATTTACATATTCGCATTGCGATTTACATATTCGCGT
Found at i:52288 original size:150 final size:149
Alignment explanation
Indices: 52018--52319 Score: 595
Period size: 150 Copynumber: 2.0 Consensus size: 149
52008 GTTCACTCTA
52018 TTTATCTCATTAAACTTGCCGTTTTGTCCATTTTGATGTTTTTTTATAATTTTAACTTTGTATTA
1 TTTATCTCATTAAACTTGCCGTTTTGTCCATTTTGATGTTTTTTTATAATTTTAACTTTGTATTA
52083 TTTAATATTTATTATTAATAGAAAATAAAGAAATATATATTTTAAAAATTCTTGAATCAGTGGGT
66 TTTAATATTTATTATTAATAGAAAATAAAGAAATATATATTTTAAAAATTCTTGAATCAGTGGGT
52148 GAGTCTAGTTTCAGTTCTG
131 GAGTCTAGTTTCAGTTCTG
52167 TTTATCTCATTAAACTTGCCGTTTTGTCCATTTTGATGTTTTTTTTATAATTTTAACTTTGTATT
1 TTTATCTCATTAAACTTGCCGTTTTGTCCATTTTGATG-TTTTTTTATAATTTTAACTTTGTATT
52232 ATTTAATATTTATTATTAATAGAAAATAAAGAAATATATATTTTAAAAATTCTTGAATCAGTGGG
65 ATTTAATATTTATTATTAATAGAAAATAAAGAAATATATATTTTAAAAATTCTTGAATCAGTGGG
52297 TGAGTCTAGTTTCAGTTCTG
130 TGAGTCTAGTTTCAGTTCTG
52317 TTT
1 TTT
52320 CAGATCATAA
Statistics
Matches: 152, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
149 38 0.25
150 114 0.75
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (149 bp):
TTTATCTCATTAAACTTGCCGTTTTGTCCATTTTGATGTTTTTTTATAATTTTAACTTTGTATTA
TTTAATATTTATTATTAATAGAAAATAAAGAAATATATATTTTAAAAATTCTTGAATCAGTGGGT
GAGTCTAGTTTCAGTTCTG
Found at i:63155 original size:17 final size:17
Alignment explanation
Indices: 63133--63180 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
63123 CAGATCGAAT
63133 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
*
63150 GAACTCGAACTC-AACTC
1 GAACTCG-ACTCGAGCTC
*
63167 GAACTCAACTCGAG
1 GAACTCGACTCGAG
63181 TTCTTAACGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (17 bp):
GAACTCGACTCGAGCTC
Found at i:63156 original size:6 final size:6
Alignment explanation
Indices: 63133--63179 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
63123 CAGATCGAAT
*
63133 GAACTC G-ACTC GAGCTC GAACTC GAACTC -AACTC GAACTC -AACTC
1 GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC GAACTC
63178 GA
1 GA
63180 GTTCTTAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (6 bp):
GAACTC
Found at i:63165 original size:11 final size:11
Alignment explanation
Indices: 63133--63179 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
63123 CAGATCGAAT
*
63133 GAACTCGACTC
1 GAACTCAACTC
*
63144 GAGCTCGAACTC
1 GAACTC-AACTC
63156 GAACTCAACTC
1 GAACTCAACTC
63167 GAACTCAACTC
1 GAACTCAACTC
63178 GA
1 GA
63180 GTTCTTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (11 bp):
GAACTCAACTC
Found at i:63516 original size:7 final size:7
Alignment explanation
Indices: 63506--63625 Score: 57
Period size: 7 Copynumber: 17.1 Consensus size: 7
63496 CTTTAAACTA
63506 TAAACCC
1 TAAACCC
63513 TAAACCC
1 TAAACCC
63520 -AAA-CC
1 TAAACCC
63525 TAAAACCC
1 T-AAACCC
**
63533 TAAACTA
1 TAAACCC
***
63540 TAAAGTA
1 TAAACCC
*
63547 TAAGCCC
1 TAAACCC
*
63554 TAAATCC
1 TAAACCC
*
63561 TAAACCT
1 TAAACCC
***
63568 TAAATTA
1 TAAACCC
*
63575 TAAACTC
1 TAAACCC
63582 TAAAACCC
1 T-AAACCC
*
63590 TAAAACC
1 TAAACCC
63597 TAAACCC
1 TAAACCC
**
63604 TAAGA-TA
1 TAA-ACCC
63611 TAAACCC
1 TAAACCC
63618 TAAACCC
1 TAAACCC
63625 T
1 T
63626 TAATCCAATT
Statistics
Matches: 84, Mismatches: 23, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
5 2 0.02
6 4 0.05
7 68 0.81
8 10 0.12
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:63535 original size:41 final size:40
Alignment explanation
Indices: 63471--63567 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 40
63461 AGATAACACT
* * *
63471 CTAAACCCTAAACTTAAAACCTAATCTTTAAACTATAAACC
1 CTAAACCC-AAACCTAAAACCTAAACTATAAACTATAAACC
* *
63512 CTAAACCCAAACCTAAAACCCTAAACTATAAAGTATAAGCC
1 CTAAACCCAAACCTAAAA-CCTAAACTATAAACTATAAACC
*
63553 CTAAATCCTAAACCT
1 CTAAA-CCCAAACCT
63568 TAAATTATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 9 0.19
41 31 0.65
42 8 0.17
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.23
Consensus pattern (40 bp):
CTAAACCCAAACCTAAAACCTAAACTATAAACTATAAACC
Found at i:63584 original size:28 final size:28
Alignment explanation
Indices: 63531--63585 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
63521 AACCTAAAAC
*
63531 CCTAAACTATAAAGTATAAGCCCTAAAT
1 CCTAAACTATAAAGTATAAACCCTAAAT
* *
63559 CCTAAACCT-TAAATTATAAACTCTAAA
1 CCTAAA-CTATAAAGTATAAACCCTAAA
63586 ACCCTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (28 bp):
CCTAAACTATAAAGTATAAACCCTAAAT
Found at i:63591 original size:36 final size:35
Alignment explanation
Indices: 63504--63631 Score: 120
Period size: 36 Copynumber: 3.7 Consensus size: 35
63494 ATCTTTAAAC
63504 TATAAACCCTAAACCC-AAA-CCTAAAACCCTAA-A
1 TATAAACCCTAAACCCTAAATCCT-AAACCCTAAGA
*** * *
63537 CTATAAAGTATAAGCCCTAAATCCTAAACCTTAA-A
1 -TATAAACCCTAAACCCTAAATCCTAAACCCTAAGA
* *
63572 TTATAAACTCTAAAACCCTAAAACCTAAACCCTAAGA
1 -TATAAACCCT-AAACCCTAAATCCTAAACCCTAAGA
*
63609 TATAAACCCTAAACCCTTAATCC
1 TATAAACCCTAAACCCTAAATCC
63632 AATTATGTGA
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
34 12 0.16
35 31 0.41
36 32 0.42
37 1 0.01
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (35 bp):
TATAAACCCTAAACCCTAAATCCTAAACCCTAAGA
Found at i:66011 original size:105 final size:103
Alignment explanation
Indices: 65813--66017 Score: 329
Period size: 103 Copynumber: 2.0 Consensus size: 103
65803 CACTCAAATG
**
65813 TCCCTTATTATTTTTTTTTCTTTTGTCAATTTTTTTCAACTTTAACTCATTATTATTAAATTAAT
1 TCCCTTATTAAATTTTTTTCTTTTGTCAATTTTTTTCAACTTTAACTCATTATTATTAAATTAAT
* * *
65878 TACTGATAAAAATATGAGAAAATATATTTTGAAAATTA
66 TACTGATAAAAATATAAAAAAATATATTTTAAAAATTA
*
65916 TCCCTTATTAAATTTTTTTCTTTTGTCAATTTTTTTCAACTTTAACTCATTATTATTTAAAATTT
1 TCCCTTATTAAATTTTTTTCTTTTGTCAATTTTTTTCAACTTTAACTCATTATTA-TT-AAATTA
*
65981 ATTATTGATAAAAATATAAAAAAATATATTTTAAAAA
64 ATTACTGATAAAAATATAAAAAAATATATTTTAAAAA
66018 CCTTTAATCA
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 53 0.57
104 2 0.02
105 38 0.41
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.50
Consensus pattern (103 bp):
TCCCTTATTAAATTTTTTTCTTTTGTCAATTTTTTTCAACTTTAACTCATTATTATTAAATTAAT
TACTGATAAAAATATAAAAAAATATATTTTAAAAATTA
Found at i:66699 original size:20 final size:20
Alignment explanation
Indices: 66674--66727 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
66664 GACCAACAAA
66674 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
66694 TTCGCAAC-CTAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
66714 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
66728 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:66808 original size:21 final size:21
Alignment explanation
Indices: 66670--66844 Score: 116
Period size: 21 Copynumber: 8.6 Consensus size: 21
66660 AAATGACCAA
66670 CAAATTCGCAACGCGA-ATTC
1 CAAATTCGCAACGCGATATTC
* *
66690 CAATTTCGCAAC-CTAGT-TTC
1 CAAATTCGCAACGCGA-TATTC
*
66710 CAATTTCGCAACGCGAATATGT-
1 CAAATTCGCAACGCG-ATAT-TC
** *
66732 -AAA-TCGCATTGCGATTTTC
1 CAAATTCGCAACGCGATATTC
***
66751 CAAATTCGCGTTGCGATATTC
1 CAAATTCGCAACGCGATATTC
***
66772 CAAATTCGCGTTGCGATATTC
1 CAAATTCGCAACGCGATATTC
*
66793 CAAATTCGCAACGCGATAGT-
1 CAAATTCGCAACGCGATATTC
* * *
66813 CAAATTCACAAC-TGA-ATTT
1 CAAATTCGCAACGCGATATTC
66832 CAAATTCGCAACG
1 CAAATTCGCAACG
66845 AGAATTTAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.02
19 18 0.14
20 48 0.38
21 55 0.43
22 2 0.02
23 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (21 bp):
CAAATTCGCAACGCGATATTC
Found at i:66851 original size:20 final size:20
Alignment explanation
Indices: 66793--66862 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
66783 TGCGATATTC
* *
66793 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACGAGAAT-TT
* *
66813 CAAATTCACAAC-TGAATTT
1 CAAATTCGCAACGAGAATTT
66832 CAAATTCGCAACGAGAATTT
1 CAAATTCGCAACGAGAATTT
*
66852 -AATTTCGCAAC
1 CAAATTCGCAAC
66863 AGGTTTTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 23 0.55
20 19 0.45
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGAGAATTT
Found at i:66858 original size:19 final size:18
Alignment explanation
Indices: 66821--66881 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
66811 GTCAAATTCA
* *
66821 CAACTGAATTTCAAATTCG
1 CAACAGAATTT-AATTTCG
66840 CAACGAGAATTTAATTTCG
1 CAAC-AGAATTTAATTTCG
** *
66859 CAACAGGTTTTAGTTTCG
1 CAACAGAATTTAATTTCG
66877 CAACA
1 CAACA
66882 CAAATGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.44
19 14 0.39
20 6 0.17
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (18 bp):
CAACAGAATTTAATTTCG
Found at i:67623 original size:12 final size:12
Alignment explanation
Indices: 67602--67635 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
67592 ACCACATTTC
*
67602 CAATACCAAACA
1 CAATATCAAACA
67614 CAATATCAAACA
1 CAATATCAAACA
*
67626 CAATCTCAAA
1 CAATATCAAA
67636 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:67788 original size:24 final size:24
Alignment explanation
Indices: 67761--67814 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
67751 GTATTCAAAA
*
67761 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* *
67785 TTTGATCTTGATCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
67809 TTTGAT
1 TTTGAT
67815 GATGTGATGG
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:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:70114 original size:18 final size:18
Alignment explanation
Indices: 70074--70114 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
70064 AAGCAAAAGG
* *
70074 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAAACA
70092 AAATCAAAATCCCAAACA
1 AAATCAAAATCCCAAACA
*
70110 CAATC
1 AAATC
70115 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (18 bp):
AAATCAAAATCCCAAACA
Found at i:70596 original size:25 final size:25
Alignment explanation
Indices: 70558--70607 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
70548 AAATCAATTA
*
70558 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
70583 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
70608 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:71015 original size:18 final size:18
Alignment explanation
Indices: 70994--71030 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70984 GTAATTGGAG
70994 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
71012 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
71030 T
1 T
71031 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:71037 original size:24 final size:24
Alignment explanation
Indices: 70986--71038 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
70976 TTTCATATGT
* * *
70986 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
71010 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
71034 AATTT
1 AATTT
71039 CGACTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:71307 original size:35 final size:35
Alignment explanation
Indices: 71232--71307 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
71222 AATGGCAACT
*
71232 AAAATCATAAGTCTGAAATGCTTCTGAGTACCATC
1 AAAATCATAAGTCCGAAATGCTTCTGAGTACCATC
* *
71267 CAAATCATAAGTCCGAAATGCTTCTGA-TGCTCATC
1 AAAATCATAAGTCCGAAATGCTTCTGAGTAC-CATC
71302 AAAATC
1 AAAATC
71308 CAAAGCTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATGCTTCTGAGTACCATC
Found at i:71348 original size:39 final size:39
Alignment explanation
Indices: 71299--71385 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
71289 TCTGATGCTC
71299 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
71338 ATCCAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
71377 ATCAAAATC
1 ATCAAAATC
71386 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:71609 original size:20 final size:20
Alignment explanation
Indices: 71560--71602 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
71550 ATGTTGCGAT
*
71560 CAACGCGAAAGTTAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
71580 CAACGTGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
71600 CAA
1 CAA
71603 ACCGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:75053 original size:22 final size:22
Alignment explanation
Indices: 75025--75075 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
75015 GATGGAGATA
*
75025 GACGGATTTCGTCAGAAATGGG
1 GACGGATTTCATCAGAAATGGG
* *
75047 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCAGAAATGGG
75069 GACGGAT
1 GACGGAT
75076 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.22
Consensus pattern (22 bp):
GACGGATTTCATCAGAAATGGG
Found at i:75228 original size:20 final size:20
Alignment explanation
Indices: 75203--75247 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
75193 GCGTAAAAAC
* *
75203 ATTTGACTTTTGCGTTACAA
1 ATTTGACTTTCGCATTACAA
*
75223 ATTTGACTTTCGCATTACGA
1 ATTTGACTTTCGCATTACAA
75243 ATTTG
1 ATTTG
75248 GAAAATCGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
ATTTGACTTTCGCATTACAA
Found at i:75264 original size:21 final size:21
Alignment explanation
Indices: 75240--75279 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
75230 TTTCGCATTA
75240 CGAATTTGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAACG
75261 CGAATTTGGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
75280 TACGATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
CGAATTTGGAAAATCGCAACG
Found at i:75341 original size:20 final size:20
Alignment explanation
Indices: 75292--75345 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
75282 CGATTTACAT
75292 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
75312 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
75332 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
75346 TTTGTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:75459 original size:22 final size:22
Alignment explanation
Indices: 75434--75476 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
75424 TTTTCTCTAA
* * *
75434 TTAAAATGTTATCTTATTTATT
1 TTAAAAAGTTATATAATTTATT
75456 TTAAAAAGTTATATAATTTAT
1 TTAAAAAGTTATATAATTTAT
75477 AATAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
TTAAAAAGTTATATAATTTATT
Found at i:80900 original size:2 final size:2
Alignment explanation
Indices: 80895--80922 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80885 ATATATTTGG
80895 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
80923 TTACATTTTT
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:82865 original size:21 final size:20
Alignment explanation
Indices: 82839--82932 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 20
82829 GCGTAGCATT
82839 TCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGAT-GTTAAAAA
* ** **
82860 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATGTTAAAAA
* ** **
82880 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATGTTAAAAA
* *
82900 TCACGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-GTTAAAAA
82921 TCGCGTTGCGAT
1 TCGCGTTGCGAT
82933 TTTCCATTTC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
20 33 0.56
21 26 0.44
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCGTTGCGATGTTAAAAA
Found at i:82885 original size:20 final size:20
Alignment explanation
Indices: 82860--82952 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
82850 TAGTTAAAAA
*
82860 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
82880 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
82900 TCACGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
82921 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
82941 TCGCGTTGCGAT
1 TCGCGTTGCGAT
82953 AGTCTACAGT
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:82907 original size:61 final size:61
Alignment explanation
Indices: 82835--82952 Score: 209
Period size: 61 Copynumber: 1.9 Consensus size: 61
82825 ATTCGCGTAG
* *
82835 CATTTCGCGTTGCGATAGTTAAAAATCGCGTTGCGATTTTTCATTTCGCGTTGCGATTTTC
1 CATTTCACGTTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
*
82896 CATTTCACGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
1 CATTTCACGTTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGAT
82953 AGTCTACAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (61 bp):
CATTTCACGTTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
Found at i:82972 original size:22 final size:22
Alignment explanation
Indices: 82944--82996 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
82934 TTCCATTTCG
82944 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
*
82966 TGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
82988 CGTTGCGAT
1 CGTTGCGAT
82997 TTTCCAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:83622 original size:5 final size:5
Alignment explanation
Indices: 83614--83650 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
83604 CCGTCCGTCC
* *
83614 CGTGT CGTGT CGTGT CGGGT CGTGT CGGGT CGTGT CG
1 CGTGT CGTGT CGTGT CGTGT CGTGT CGTGT CGTGT CG
83651 GGGTCGTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.22, G:0.46, T:0.32
Consensus pattern (5 bp):
CGTGT
Found at i:83627 original size:10 final size:10
Alignment explanation
Indices: 83614--83658 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
83604 CCGTCCGTCC
*
83614 CGTGTCGTGT
1 CGTGTCGGGT
83624 CGTGTCGGGT
1 CGTGTCGGGT
83634 CGTGTCGGGT
1 CGTGTCGGGT
83644 CGTGTCGGGGT
1 CGTGTC-GGGT
83655 CGTG
1 CGTG
83659 GTAATACGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 25 0.76
11 8 0.24
ACGTcount: A:0.00, C:0.20, G:0.49, T:0.31
Consensus pattern (10 bp):
CGTGTCGGGT
Found at i:83834 original size:21 final size:20
Alignment explanation
Indices: 83779--83835 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
83769 ACAACTGTAG
83779 ACTATCGTAACGCGATTTTCA
1 ACTATCG-AACGCGATTTTCA
**
83800 ACTAAAGAACCGCGATTTTCA
1 ACTATCGAA-CGCGATTTTCA
83821 ACTATCGCAACGCGA
1 ACTATCG-AACGCGA
83836 ACTGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (20 bp):
ACTATCGAACGCGATTTTCA
Found at i:88950 original size:18 final size:18
Alignment explanation
Indices: 88926--88962 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
88916 TTTAAAGATT
*
88926 TTTTTAATAATAATTTTAA
1 TTTTAAATAA-AATTTTAA
88945 TTTTAAATAAAATTTTAA
1 TTTTAAATAAAATTTTAA
88963 AAATTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAATAAAATTTTAA
Found at i:103226 original size:48 final size:46
Alignment explanation
Indices: 103155--103297 Score: 187
Period size: 48 Copynumber: 3.0 Consensus size: 46
103145 CAGCACTCCG
* *
103155 AGCACATCCTCCCGGAAGACAAGAATCCGACAACACAAGTAAAGTTCT
1 AGCACCTCCT-CCGGAAGACAAGAATCCGACAACACAA-TAAAGGTCT
*
103203 AGCACCTCCTCTCGGGAGACAAGAATCCGACAACACAACTAAAGGTCT
1 AGCACCTCCTC-CGGAAGACAAGAATCCGACAACACAA-TAAAGGTCT
* *
103251 AGCACCTCCTCCTGGAAGACAAGATTCTGACAACACGAATAAAGGTC
1 AGCACCTCCTCC-GGAAGACAAGAATCCGACAACAC-AATAAAGGTC
103298 CAGGCTTACG
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
47 2 0.02
48 81 0.95
49 2 0.02
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.15
Consensus pattern (46 bp):
AGCACCTCCTCCGGAAGACAAGAATCCGACAACACAATAAAGGTCT
Found at i:109282 original size:24 final size:24
Alignment explanation
Indices: 109255--109310 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
109245 CTCTCGGTGA
*
109255 TGGTTCTGTGTGGTTTCTCTCGTC
1 TGGTTCTGTATGGTTTCTCTCGTC
109279 TGGTTCTGTATGGTTTCTCTCGTC
1 TGGTTCTGTATGGTTTCTCTCGTC
*
109303 CGGTTCTG
1 TGGTTCTG
109311 GTGATCTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.02, C:0.21, G:0.29, T:0.48
Consensus pattern (24 bp):
TGGTTCTGTATGGTTTCTCTCGTC
Found at i:110608 original size:84 final size:82
Alignment explanation
Indices: 110383--111184 Score: 834
Period size: 84 Copynumber: 9.7 Consensus size: 82
110373 TTGAATATAA
* * *
110383 TCGAACTCAAAGGTCTTTAG--CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCAAAGGTCTTTGGTTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
* * * *
110446 CCTCGAAGCTGAGTGTAA
66 CGTTG-AGCTGAGCGTAG
*** * * *
110464 TCGAACTCGGGGGTCTTTGG--CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TCGAACTCAAAGGTCTTTGGTTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
110527 CGTTGAGCTGATCGTAG
66 CGTTGAGCTGAGCGTAG
* * * *
110544 TCGAACTCAAAGGTCTTTTGGTCTCAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGGT-TCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
110609 GTCGTTGAGCTGAGCGTAG
64 GCCGTTGAGCTGAGCGTAG
* * * * *
110628 TCGAACTCAAAAGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1 TCGAACTCAAAGGTCTTTGGTT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*
110693 ACC-TTGGAGCTGAGCGTAG
64 GCCGTT-GAGCTGAGCGTAG
* *
110712 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTGGTT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* ** * *
110777 GCCCTCAAGGCTGAGTGTAA
64 GCCGTTGA-GCTGAGCGTAG
** * * *
110797 TCGAACTC-GGGGTCTTTGG--CAGATAGCCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGC
1 TCGAACTCAAAGGTCTTTGGTTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
*
110859 CGTTGAGCTGATCGTAG
66 CGTTGAGCTGAGCGTAG
* * * *
110876 TCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGGT-TCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
110941 GCCGTTGAGCTGAGCGTAG
64 GCCGTTGAGCTGAGCGTAG
* * * * *
110960 TCGAACTCAAATGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
1 TCGAACTCAAAGGTCTTTGGTT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
111025 GCC-TTGGAGCTGAGCGTAG
64 GCCGTT-GAGCTGAGCGTAG
* *
111044 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTCTTTGGTT--CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * *
111109 GCCCTCGAAGCTGAGTGTAA
64 GCCGTTG-AGCTGAGCGTAG
**** * * *
111129 TCGAACTTGGGGGTCTTTGG--CAGATATCCCTTCTTGACTTAAGCTATGCTGCAAAT
1 TCGAACTCAAAGGTCTTTGGTTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAAT
111185 AGTTTGTTTG
Statistics
Matches: 614, Mismatches: 88, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
79 16 0.03
80 69 0.11
81 103 0.17
82 1 0.00
83 14 0.02
84 365 0.59
85 46 0.07
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (82 bp):
TCGAACTCAAAGGTCTTTGGTTCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
CGTTGAGCTGAGCGTAG
Found at i:110865 original size:248 final size:247
Alignment explanation
Indices: 110402--111135 Score: 850
Period size: 248 Copynumber: 2.9 Consensus size: 247
110392 AAGGTCTTTA
* * * * * * *
110402 GCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT-ACCTTGGAGCTGAGCGTAGTCG
** * * *
110467 AACTCGGGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
65 AACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
* * * * *
110529 TTGAGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGGTCTCAGATAACCCTTCTAGCCTTGAGTT
130 TCGAGCTGAGT-GTAGTCGAACTC-GAGGTCTTTTGG---CAGATAACCCTTCTCGACTTAAGTT
* * * *
110593 ATACTGTAAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGTTG
190 ATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGGTC
* * *
110651 GCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGA
110716 ACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
66 ACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
* * * *
110781 TCAAGGCTGAGTGTAATCGAACTCGGGGTC-TTTGGCAGATAGCCCTTCTCGACTTAAGTTATGC
130 TCGA-GCTGAGTGTAGTCGAACTCGAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
110845 TGTAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTC
194 TGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGGTC
* * * * *
110899 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAGTCG
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTACC-TTGGAGCTGAGCGTAGTCG
* * * * * *
110963 AACTCAAATGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC
65 AACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * *
111028 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTT
129 CTCGAGCTGAGTGTAGTCGAACTCG-AGGTC-TT--TTGGCAGATAACCCTTCTCGACTTAAGTT
* * * * *
111093 ATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACT
190 ATGCTGTAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACT
111136 TGGGGGTCTT
Statistics
Matches: 414, Mismatches: 57, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
247 18 0.04
248 214 0.52
249 42 0.10
250 2 0.00
251 5 0.01
252 100 0.24
253 32 0.08
254 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (247 bp):
GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTACCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
CGAGCTGAGTGTAGTCGAACTCGAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
TAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGGTC
Found at i:110889 original size:332 final size:332
Alignment explanation
Indices: 110402--111184 Score: 1424
Period size: 332 Copynumber: 2.4 Consensus size: 332
110392 AAGGTCTTTA
* *
110402 GCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
110467 AACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
66 AACTC-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
*
110532 AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCTCAGATAACCCTTCTAGCCTTGAGTTATAC
130 AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATAC
*
110597 TGTAAATGATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGTTGGCAGACAACCC
195 TGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGTTGGCAGACAACCC
110662 TTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
260 TTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
110727 TTTGGTTG
325 TTTGGTTG
110735 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTC-AAGGCTGAGTGTAATC
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA-GCTGAGTGTAATC
* *
110799 GAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGTAAATGATGTGCCGTTG
65 GAACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG
*
110864 AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGC
130 AGCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATAC
*
110929 TGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAATGTCTTTTGTTGGCAGACAACCC
195 TGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGTTGGCAGACAACCC
*
110994 TTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
260 TTCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC
111059 TTTGGTTG
325 TTTGGTTG
111067 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
* * *
111132 AACTTGGGGGTCTTTGGCAGATATCCCTTCTTGACTTAAGCTATGCTGCAAAT
66 AAC-TCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
111185 AGTTTGTTTG
Statistics
Matches: 433, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
332 322 0.74
333 111 0.26
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (332 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
AACTCGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
GCTGATCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACT
GTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTGTTGGCAGACAACCCT
TCTAGACTTAAGTTGTGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCT
TTGGTTG
Found at i:115587 original size:24 final size:24
Alignment explanation
Indices: 115560--115615 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
115550 CTCTCGGTGA
*
115560 TGGTTCTGTGTGGTTTCTCTCGTC
1 TGGTTCTGTATGGTTTCTCTCGTC
115584 TGGTTCTGTATGGTTTCTCTCGTC
1 TGGTTCTGTATGGTTTCTCTCGTC
*
115608 CGGTTCTG
1 TGGTTCTG
115616 GTGATCTCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.02, C:0.21, G:0.29, T:0.48
Consensus pattern (24 bp):
TGGTTCTGTATGGTTTCTCTCGTC
Found at i:130918 original size:224 final size:224
Alignment explanation
Indices: 130528--130980 Score: 897
Period size: 224 Copynumber: 2.0 Consensus size: 224
130518 TTGACAAAAT
130528 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
1 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
130593 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
66 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
130658 GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
131 GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
130723 CTCAAGTAAGTCGTACTACCCTTAGAAGA
196 CTCAAGTAAGTCGTACTACCCTTAGAAGA
130752 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
1 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
130817 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
66 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
130882 GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
131 GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
130947 CTCAAGTAAGTCGTACTACCCTTAGAAGA
196 CTCAAGTAAGTCGTACTACCCTTAGAAGA
*
130976 GATGC
1 CATGC
130981 TATAAAAATG
Statistics
Matches: 228, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 228 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (224 bp):
CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
CTCAAGTAAGTCGTACTACCCTTAGAAGA
Found at i:132646 original size:21 final size:21
Alignment explanation
Indices: 132622--132661 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
132612 TTTATTTTAT
132622 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
132643 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
132662 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:132710 original size:33 final size:32
Alignment explanation
Indices: 132656--132746 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 32
132646 TTTGTTTCAA
132656 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
132688 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTG-AAGTTTTTAAGTATTTGAAT
* *
132721 TTATCAAACTTGGAAGTATTTAAGTA
1 TTATCGAACTT-GAAGTTTTTAAGTA
132747 ATTCAATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 12 0.22
33 42 0.76
34 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (32 bp):
TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
Found at i:132783 original size:13 final size:13
Alignment explanation
Indices: 132765--132794 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
132755 ATGTTGAGTT
132765 AATTAAGTATTTC
1 AATTAAGTATTTC
*
132778 AATTAAGTATTTG
1 AATTAAGTATTTC
132791 AATT
1 AATT
132795 TATCGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (13 bp):
AATTAAGTATTTC
Found at i:133015 original size:21 final size:21
Alignment explanation
Indices: 132989--133045 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
132979 TTGGAGCATG
*
132989 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
133010 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
133031 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
133046 AAGTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:133237 original size:15 final size:15
Alignment explanation
Indices: 133212--133267 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
133202 ATCTGGAATA
*
133212 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
133227 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
133242 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
133259 TTAAAACCG
1 TTAAAACCG
133268 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:133276 original size:21 final size:18
Alignment explanation
Indices: 133231--133264 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
133221 GTTTTTTTAT
133231 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
133248 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
133265 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:133384 original size:15 final size:17
Alignment explanation
Indices: 133358--133389 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
133348 TTCTATGGGA
133358 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
133374 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
133390 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:139037 original size:34 final size:33
Alignment explanation
Indices: 138999--139082 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
138989 TTGATATCTC
* * **
138999 AAACCAGAATTCATTCTCTTTAATTTCCAAATTG
1 AAACCAAAATTC-TTCTCTTCAATACCCAAATTG
*
139033 AAACCAAAATTTCTTCTCTTCGATACCCAAATTG
1 AAACCAAAA-TTCTTCTCTTCAATACCCAAATTG
139067 AAACCAAAATTTCTTC
1 AAACCAAAA-TTCTTC
139083 GATGTCCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (33 bp):
AAACCAAAATTCTTCTCTTCAATACCCAAATTG
Found at i:140813 original size:2 final size:2
Alignment explanation
Indices: 140808--140833 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
140798 TAATGTGTGT
140808 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
140834 CCCCTAAGGT
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):
TA
Done.