Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_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: 1667290
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:966237 original size:20 final size:20
Alignment explanation
Indices: 966212--966263 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
966202 AAGAATCGCG
*
966212 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
966232 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
966252 TTGCGATTCTGG
1 TTGCGATTCTGG
966264 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:967246 original size:16 final size:17
Alignment explanation
Indices: 967225--967269 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
967215 TTATGGGTTT
967225 TTATTTATTTATTTC-A
1 TTATTTATTTATTTCTA
*
967241 TTATTT-TTTCTTTCTA
1 TTATTTATTTATTTCTA
*
967257 TT-TTGATTTATTT
1 TTATTTATTTATTT
967270 AATATTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATTTATTTATTTCTA
Found at i:967409 original size:6 final size:6
Alignment explanation
Indices: 967389--967419 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
967379 TATCGAATTG
967389 AATTTT AAGTTTT AATTTT AATTTT AATTTT
1 AATTTT AA-TTTT AATTTT AATTTT AATTTT
967420 CGCAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (6 bp):
AATTTT
Found at i:968437 original size:18 final size:18
Alignment explanation
Indices: 968414--968452 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
968404 CTCATATAAA
968414 TTTAGAATTCTCTTATAT
1 TTTAGAATTCTCTTATAT
* * *
968432 TTTAGATTTTTTTTATAT
1 TTTAGAATTCTCTTATAT
968450 TTT
1 TTT
968453 TATTGATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTAGAATTCTCTTATAT
Found at i:968647 original size:18 final size:18
Alignment explanation
Indices: 968624--968667 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
968614 TAATTTAATT
968624 ATAAATAAATTATCTAAA
1 ATAAATAAATTATCTAAA
* * *
968642 ATAAATCAGTTATTTAAA
1 ATAAATAAATTATCTAAA
968660 ATAAATAA
1 ATAAATAA
968668 TTCAATCACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAATAAATTATCTAAA
Found at i:974773 original size:30 final size:30
Alignment explanation
Indices: 974739--974823 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
974729 TTTTAATCAA
* *
974739 AATATTA-ATTATTAATATTTCTAATAATAT
1 AATATTATATTATTAATA-TTATAATAAAAT
*
974769 AATATTATATTTTTAATATTATAATAAAAT
1 AATATTATATTATTAATATTATAATAAAAT
*
974799 AATCAATTATATTA-TAATAATATAA
1 AAT--ATTATATTATTAATATTATAA
974824 GATATTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 20 0.43
31 19 0.40
32 8 0.17
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
AATATTATATTATTAATATTATAATAAAAT
Found at i:974778 original size:22 final size:23
Alignment explanation
Indices: 974739--974794 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
974729 TTTTAATCAA
974739 AATATTAATTATTAATATTTCTAAT
1 AATA-TAA-TATTAATATTTCTAAT
*
974764 AATATAATATT-ATATTTTTAAT
1 AATATAATATTAATATTTCTAAT
*
974786 ATTATAATA
1 AATATAATA
974795 AAATAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.62
23 4 0.14
24 3 0.10
25 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATAATATTAATATTTCTAAT
Found at i:974954 original size:27 final size:27
Alignment explanation
Indices: 974874--974959 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
974864 AATAAAAGTT
* *
974874 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
974901 ATATTA-TTAAAT-TATTAATAATGAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
974928 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
974957 ATA
1 ATA
974960 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 19 0.41
28 12 0.26
29 7 0.15
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:975717 original size:30 final size:30
Alignment explanation
Indices: 975658--975717 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
975648 TATTTTAAAA
* * * *
975658 AAATCTCTTAAACTCTAAACTATTTCATTC
1 AAATCCCTAAAACTCTAAAATATTCCATTC
*
975688 AAATCCCTAAAACTCTAAAATCTTCCATTC
1 AAATCCCTAAAACTCTAAAATATTCCATTC
975718 CATTTCACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATCCCTAAAACTCTAAAATATTCCATTC
Found at i:976238 original size:21 final size:22
Alignment explanation
Indices: 976212--976265 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
976202 TACTTTTTAA
976212 AAAAAATAAAATTTTAATT-TT-
1 AAAAAATAAAATTTT-ATTATTG
*
976233 AAAAAATAATATTTTATTATTG
1 AAAAAATAAAATTTTATTATTG
976255 AAAAAATAAAA
1 AAAAAATAAAA
976266 AAATTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.10
21 16 0.55
22 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAAATAAAATTTTATTATTG
Found at i:976285 original size:2 final size:2
Alignment explanation
Indices: 976280--976330 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
976270 TAATTTTAAT
976280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
976322 TA TA TA TA T
1 TA TA TA TA T
976331 TAGTCCACCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:978533 original size:13 final size:13
Alignment explanation
Indices: 978512--978553 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
978502 AATATTTAAA
978512 AAACAAAAAAAAT
1 AAACAAAAAAAAT
* *
978525 AAACGAAAACAAT
1 AAACAAAAAAAAT
*
978538 AAATAAAAAAAAT
1 AAACAAAAAAAAT
978551 AAA
1 AAA
978554 GAAACGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.10
Consensus pattern (13 bp):
AAACAAAAAAAAT
Found at i:980291 original size:105 final size:105
Alignment explanation
Indices: 980062--980971 Score: 1637
Period size: 105 Copynumber: 8.7 Consensus size: 105
980052 AATGACATCC
* *
980062 TCGTCGTGAAGTTGAAC-TG-GTACTGTCTTGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTG
1 TCGTCGTGAAGTTGAACTTGCGT--TGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
980125 GCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCT
64 GCTCTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCT
* * *
980168 TCGCCGTGAAGTTGAACTTGCGTTGTCTGGAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
*
980233 TC-GGAATTCGAGAAATGTTTGTTGACAACCAGCGGTCCCT
66 TCTGAAATT-GAGAAATGTTTGTTGACAACCAGCGGTCCCT
980273 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
* *
980338 CCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
980378 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
* *
980443 TCTGAATTTGAGAAATGTTTGTTGACAACCAGTGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
980483 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
*
980548 TCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
980588 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
980653 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
980693 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
980758 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
980798 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
*
980863 TCTGAAATTGAGAAATGTTTGTTGACAACCAGTGGTCCCT
66 TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
*
980903 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGGGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
980968 TCTG
66 TCTG
980972 GGTAAAACCT
Statistics
Matches: 781, Mismatches: 19, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
105 712 0.91
106 65 0.08
107 2 0.00
108 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC
TCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCT
Found at i:981775 original size:48 final size:48
Alignment explanation
Indices: 981701--981793 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
981691 TTATTTCCTC
* **
981701 TTTTTTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACG
*
981749 TTTTTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCATCCTAA
1 TTTTTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAA
981794 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (48 bp):
TTTTTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTAAACG
Found at i:991255 original size:10 final size:10
Alignment explanation
Indices: 991230--991263 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
991220 AACGTTAGTA
*
991230 AAATAGAAAT
1 AAATAAAAAT
*
991240 AGATAAAAAT
1 AAATAAAAAT
991250 AAATAAAAAT
1 AAATAAAAAT
991260 AAAT
1 AAAT
991264 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:992510 original size:17 final size:16
Alignment explanation
Indices: 992473--992527 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 16
992463 AATAAATATT
*
992473 TAAAAAAAC-AAAAAA
1 TAAATAAACGAAAAAA
992488 -AAATAAACGAAAACAA
1 TAAATAAACGAAAA-AA
992504 TAAATAAA--AAAAAA
1 TAAATAAACGAAAAAA
*
992518 TAAAGAAACG
1 TAAATAAACG
992528 TATATATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 16 0.48
15 8 0.24
16 2 0.06
17 7 0.21
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.09
Consensus pattern (16 bp):
TAAATAAACGAAAAAA
Found at i:997317 original size:27 final size:27
Alignment explanation
Indices: 997262--997336 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
997252 TCAAGGGCTT
* *
997262 GGGGTTATTTTAGGTTATTTCACACTTTA
1 GGGG-TATTTT-GGTCATTTCACAATTTA
*
997291 GGGGTATTTTGGTCATTTTACAATTTA
1 GGGGTATTTTGGTCATTTCACAATTTA
* * **
997318 AGTGTATTTCAGTCATTTC
1 GGGGTATTTTGGTCATTTC
997337 CTTCCATCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 28 0.74
28 6 0.16
29 4 0.11
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (27 bp):
GGGGTATTTTGGTCATTTCACAATTTA
Found at i:998226 original size:16 final size:16
Alignment explanation
Indices: 998207--998265 Score: 118
Period size: 16 Copynumber: 3.7 Consensus size: 16
998197 ACTAGTCAAA
998207 GTCAAAGTCAACACTG
1 GTCAAAGTCAACACTG
998223 GTCAAAGTCAACACTG
1 GTCAAAGTCAACACTG
998239 GTCAAAGTCAACACTG
1 GTCAAAGTCAACACTG
998255 GTCAAAGTCAA
1 GTCAAAGTCAA
998266 TAGTCAGGTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (16 bp):
GTCAAAGTCAACACTG
Found at i:998249 original size:22 final size:22
Alignment explanation
Indices: 998184--998233 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
998174 TTGACTTTTT
*
998184 AGTCAAAGTCATCACTAGTCAA
1 AGTCAAAGTCAACACTAGTCAA
*
998206 AGTCAAAGTCAACACTGGTCAA
1 AGTCAAAGTCAACACTAGTCAA
998228 AGTCAA
1 AGTCAA
998234 CACTGGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.20
Consensus pattern (22 bp):
AGTCAAAGTCAACACTAGTCAA
Found at i:1004914 original size:27 final size:24
Alignment explanation
Indices: 1004876--1004942 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 24
1004866 TTCAAAAATT
1004876 TCCAGATAAGTTTACCTCACCATCTTC
1 TCCAGATAAGTTTACCT--CCA-CTTC
1004903 TCCAGATAAGTTTA-CT-CACTTC
1 TCCAGATAAGTTTACCTCCACTTC
*
1004925 TCCGGATAAGTTTACCTC
1 TCCAGATAAGTTTACCTC
1004943 GCAATTTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 17 0.46
23 4 0.11
26 2 0.05
27 14 0.38
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (24 bp):
TCCAGATAAGTTTACCTCCACTTC
Found at i:1009275 original size:2 final size:2
Alignment explanation
Indices: 1009268--1009315 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1009258 TCTAATCATA
1009268 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1009310 AT AT AT
1 AT AT AT
1009316 CATGTTTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1010261 original size:12 final size:12
Alignment explanation
Indices: 1010244--1010268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1010234 TAATATATAA
1010244 TTAAAAAATTAT
1 TTAAAAAATTAT
1010256 TTAAAAAATTAT
1 TTAAAAAATTAT
1010268 T
1 T
1010269 ATTTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAAATTAT
Found at i:1010299 original size:22 final size:21
Alignment explanation
Indices: 1010256--1010295 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1010246 AAAAAATTAT
*
1010256 TTAAAAAATTATTATTTTTAA
1 TTAAAAAATTAATATTTTTAA
*
1010277 TTAAAATATTAATATTTTT
1 TTAAAAAATTAATATTTTT
1010296 TAATATTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAAAAATTAATATTTTTAA
Found at i:1014961 original size:19 final size:19
Alignment explanation
Indices: 1014937--1014978 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1014927 ATAGCAACAA
1014937 CATCCGGTCTTTTAGACTT
1 CATCCGGTCTTTTAGACTT
1014956 CATCCGGTCTTTTAGACTT
1 CATCCGGTCTTTTAGACTT
1014975 CATC
1 CATC
1014979 AATAACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (19 bp):
CATCCGGTCTTTTAGACTT
Found at i:1020243 original size:46 final size:46
Alignment explanation
Indices: 1020167--1020284 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
1020157 TAAACCAATT
* * * * **
1020167 CATAACTAAAAATGCATGAACGAATCCATTAAGGCGTGAAAGGATGC
1 CATAACT-GAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGC
1020214 CATAACTGAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGC
1 CATAACTGAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGC
*
1020260 CATAAATGAAATGCATGAAAGGATG
1 CATAACTGAAATGCATGAAAGGATG
1020285 ACATAACTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
46 57 0.89
47 7 0.11
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (46 bp):
CATAACTGAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGC
Found at i:1020325 original size:73 final size:72
Alignment explanation
Indices: 1020203--1020337 Score: 225
Period size: 73 Copynumber: 1.9 Consensus size: 72
1020193 CATTAAGGCG
* *
1020203 TGAAAGGATGCCATAACTGAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGCCATAAATG
1 TGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGCCATAAATG
1020268 AAATGCA
66 AAATGCA
* *
1020275 TGAAAGGATGACATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATAA
1 TGAAAGGATGACATAACT-AAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGCCATAA
1020338 CTAAAAAATG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
72 17 0.29
73 41 0.71
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.20
Consensus pattern (72 bp):
TGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGCCATAAATG
AAATGCA
Found at i:1020450 original size:26 final size:24
Alignment explanation
Indices: 1020203--1020670 Score: 201
Period size: 26 Copynumber: 19.7 Consensus size: 24
1020193 CATTAAGGCG
1020203 TGAAAGGATGCCATAACTGAAATGCA
1 TGAAAGGATGCCATAA-T-AAATGCA
* *
1020229 TGAAAGGATG-CAT--T-AAGGAA
1 TGAAAGGATGCCATAATAAATGCA
1020249 TGAAAGGATGCCATAAATGAAATGCA
1 TGAAAGGATGCCAT-AAT-AAATGCA
*
1020275 TGAAAGGATGACATAACTAAAAATGCA
1 TGAAAGGATGCCATAA-T--AAATGCA
* *
1020302 TGAATGGATG-CAT--T-AAGGCA
1 TGAAAGGATGCCATAATAAATGCA
1020322 TGAAAGGATGCCATAACTAAAAAATGCA
1 TGAAAGGATGCCATAA-T---AAATGCA
* * *
1020350 TGAACGGATG-GAT--T-AAGGCA
1 TGAAAGGATGCCATAATAAATGCA
1020370 TGAAAGGATGCCATAACTAAAAATGCA
1 TGAAAGGATGCCATAA-T--AAATGCA
* * *
1020397 TGAACGGGTG-CAT--T-AAGGCA
1 TGAAAGGATGCCATAATAAATGCA
1020417 TGAAAGGATGCCATAAATGAAATGCA
1 TGAAAGGATGCCAT-AAT-AAATGCA
* * *
1020443 TGAAAGGAT-AC-T--TTAATGTA
1 TGAAAGGATGCCATAATAAATGCA
*
1020463 TAAAAGGATGCCATAACTTAAAAATGCA
1 TGAAAGGATGCCATAA--T--AAATGCA
* *
1020491 TGAACA-TATG-CAT--T-AAGGCA
1 TGAA-AGGATGCCATAATAAATGCA
*
1020511 TGAAAGGATGCCATAACTGAAATACA
1 TGAAAGGATGCCATAA-T-AAATGCA
* *
1020537 TGAAACGATG-CAT--T-AAGGCA
1 TGAAAGGATGCCATAATAAATGCA
**
1020557 TGAAAGGATGTTATAAATGAAATGCA
1 TGAAAGGATGCCAT-AAT-AAATGCA
* **
1020583 TGAAATGATGTTATAAATGAAATGCA
1 TGAAAGGATGCCAT-AAT-AAATGCA
*
1020609 TGAAAGGATGCTATAAATGAAATGCA
1 TGAAAGGATGCCAT-AAT-AAATGCA
*
1020635 TGAAAGGATG-CAT--T-AAGGCA
1 TGAAAGGATGCCATAATAAATGCA
1020655 TGAAAGGATGCCATAA
1 TGAAAGGATGCCATAA
1020671 ATGAAATTAA
Statistics
Matches: 342, Mismatches: 46, Indels: 111
0.69 0.09 0.22
Matches are distributed among these distances:
19 1 0.00
20 108 0.32
21 21 0.06
22 4 0.01
23 3 0.01
24 8 0.02
25 11 0.03
26 126 0.37
27 34 0.10
28 25 0.07
29 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (24 bp):
TGAAAGGATGCCATAATAAATGCA
Found at i:1020469 original size:46 final size:46
Alignment explanation
Indices: 1020272--1020677 Score: 427
Period size: 46 Copynumber: 8.6 Consensus size: 46
1020262 TAAATGAAAT
* * * *
1020272 GCATGAAAGGATGACATAACTAAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAAAT-GAAATGCATGAAAGGATGCATTAAG
** * *
1020319 GCATGAAAGGATGCCATAACTAAAAAATGCATGAACGGATGGATTAAG
1 GCATGAAAGGATGCCATAA--ATGAAATGCATGAAAGGATGCATTAAG
* * * *
1020367 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGGTGCATTAAG
1 GCATGAAAGGATGCCATAAAT-GAAATGCATGAAAGGATGCATTAAG
* * *
1020414 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATACTTTAAT
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
* * * * *
1020460 GTATAAAAGGATGCCATAACTTAAAAATGCATGAACA-TATGCATTAAG
1 GCATGAAAGGATGCCATAA-AT-GAAATGCATGAA-AGGATGCATTAAG
* * *
1020508 GCATGAAAGGATGCCATAACTGAAATACATGAAACGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
** * * *
1020554 GCATGAAAGGATGTTATAAATGAAATGCATGAAATGATGTTATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATG-CAT---T--AAG
*
1020606 GCATGAAAGGATGCTATAAATGAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
1020652 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
1020678 TAATGAATAA
Statistics
Matches: 304, Mismatches: 42, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.00
46 117 0.38
47 65 0.21
48 78 0.26
49 1 0.00
50 1 0.00
51 2 0.01
52 39 0.13
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
Found at i:1020480 original size:141 final size:139
Alignment explanation
Indices: 1020272--1020670 Score: 462
Period size: 141 Copynumber: 2.8 Consensus size: 139
1020262 TAAATGAAAT
* * * * * *
1020272 GCATGAAAGGATGACATAACTAAAAATGCATGAATGGATGCATTAAGGCATGAAAGGATGCCATA
1 GCATGAAAGGATGACATAAAT-GAAATGCATGAAAGGAT-CTTTAATGTATGAAAGGATGCCATA
* *
1020337 ACTAAAAAATGCATGAACGGATGGATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATG-AA
64 ACTAAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACT-AAAATACATGAAA
*
1020401 CGGGTGCATTAAG
128 C-GATGCATTAAG
* *
1020414 GCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATACTTTAATGTATAAAAGGATGCCATAA
1 GCATGAAAGGATGACATAAATGAAATGCATGAAAGGAT-CTTTAATGTATGAAAGGATGCCATAA
* ** *
1020479 CTTAAAAATGCATGAACATATGCATTAAGGCATGAAAGGATGCCATAACTGAAATACATGAAACG
65 CTAAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAAACG
1020544 ATGCATTAAG
130 ATGCATTAAG
** * *
1020554 GCATGAAAGGATGTTATAAATGAAATGCATGAAATGATGTTATAAATGAAATGCATGAAAGGATG
1 GCATGAAAGGATGACATAAATGAAATGCATGAAAGGATCTT-T-AATG---T--ATGAAAGGATG
* ** *
1020619 CTATAA--ATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
59 CCATAACTAAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAA
1020671 ATGAAATTAA
Statistics
Matches: 221, Mismatches: 28, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
139 2 0.01
140 54 0.24
141 90 0.41
142 19 0.09
144 41 0.19
146 15 0.07
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (139 bp):
GCATGAAAGGATGACATAAATGAAATGCATGAAAGGATCTTTAATGTATGAAAGGATGCCATAAC
TAAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATACATGAAACGA
TGCATTAAG
Found at i:1020521 original size:20 final size:20
Alignment explanation
Indices: 1020498--1020566 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 20
1020488 GCATGAACAT
1020498 ATGCATTAAGGCATGAAAGG
1 ATGCATTAAGGCATGAAAGG
** *
1020518 ATGCCATAACTGAAATACATGAAACG
1 ATG-CAT---T--AAGGCATGAAAGG
1020544 ATGCATTAAGGCATGAAAGG
1 ATGCATTAAGGCATGAAAGG
1020564 ATG
1 ATG
1020567 TTATAAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 16 0.43
21 3 0.08
22 1 0.03
24 1 0.03
25 3 0.08
26 13 0.35
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGCATTAAGGCATGAAAGG
Found at i:1020684 original size:98 final size:96
Alignment explanation
Indices: 1020316--1020684 Score: 352
Period size: 94 Copynumber: 3.8 Consensus size: 96
1020306 TGGATGCATT
** * *
1020316 AAGGCATGAAAGGATGCCATAACTAAAAAATGCATGAACGGATGGATTAAGGCATGAAAGGATGC
1 AAGGCATGAAAGGATGCCATAA--ATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * *** ** *
1020381 CATAACT-AAA-AATG-CATGAACGGGTGCATT
64 CATAAATGAAATAATGAAATGAACATATAAATA
* * * * *
1020411 AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATACTTTAATGTATAAAAGGATGCCA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
* * * ** *
1020476 TAACTTAAA-AATG-CATGAACATATGCATT
66 TAAATGAAATAATGAAATGAACATATAAATA
* * * **
1020505 AAGGCATGAAAGGATGCCATAACTGAAATACATGAAACGATGCATTAAGGCATGAAAGGATGTTA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
* ***
1020570 TAAATGAAATGCATGAAATGATGTTATAAATGA
66 TAAATGAAAT-AATGAAATGAACATATAAAT-A
* *
1020603 AATGCATGAAAGGATGCTATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
1 AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
1020668 TAAATGAAATTAATGAA
66 TAAATGAAA-TAATGAA
1020685 TAATTACTAA
Statistics
Matches: 228, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
93 39 0.17
94 82 0.36
95 22 0.10
96 3 0.01
97 9 0.04
98 72 0.32
99 1 0.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (96 bp):
AAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCA
TAAATGAAATAATGAAATGAACATATAAATA
Found at i:1021105 original size:81 final size:80
Alignment explanation
Indices: 1021005--1021255 Score: 340
Period size: 81 Copynumber: 3.1 Consensus size: 80
1020995 ACAATTCTAA
1021005 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATG-CAGTTAGATGAA
1021070 AGGTTAAATACCTTTG
65 AGGTTAAATACCTTTG
* *
1021086 AGTAAAATATTAATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
* *
1021151 GATTAAATACATTTG
66 GGTTAAATACCTTTG
* ** * ** * *
1021166 AGTAAAAGATTAATAGCCTAGCTGTGCAGGTGGCAGAAAAATGTCAATCATGCAAGTTAGGTGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGC-AGTTAGATGAA
* **
1021231 AGGCTAAAGGCCTTTG
65 AGGTTAAATACCTTTG
*
1021247 GGTAAAAGA
1 AGTAAAAGA
1021256 CTAAAGACCT
Statistics
Matches: 149, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 70 0.47
81 79 0.53
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (80 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
GGTTAAATACCTTTG
Found at i:1021185 original size:80 final size:80
Alignment explanation
Indices: 1021005--1021232 Score: 330
Period size: 80 Copynumber: 2.8 Consensus size: 80
1020995 ACAATTCTAA
1021005 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATG-CAGTTAGATGAA
* *
1021070 AGGTTAAATACCTTTG
65 AGATTAAATACATTTG
* *
1021086 AGTAAAATATTAATGGCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
1021151 GATTAAATACATTTG
66 GATTAAATACATTTG
* ** * ** * *
1021166 AGTAAAAGATTAATAGCCTAGCTGTGCAGGTGGCAGAAAAATGTCAATCATGCAAGTTAGGTGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGC-AGTTAGATGAA
1021231 AG
65 AG
1021233 GCTAAAGGCC
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
80 70 0.53
81 62 0.47
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (80 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCAGTTAGATGAAA
GATTAAATACATTTG
Found at i:1021259 original size:22 final size:22
Alignment explanation
Indices: 1021229--1021284 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1021219 AAGTTAGGTG
*
1021229 AAAGGCTAAAGGCCTTTGGGTA
1 AAAGACTAAAGGCCTTTGGGTA
*
1021251 AAAGACTAAAGACCTTTGGGTA
1 AAAGACTAAAGGCCTTTGGGTA
1021273 AAAGACTAAAGG
1 AAAGACTAAAGG
1021285 AATTATAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (22 bp):
AAAGACTAAAGGCCTTTGGGTA
Found at i:1023244 original size:2 final size:2
Alignment explanation
Indices: 1023237--1023285 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1023227 TGTCAGAAAG
1023237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1023279 AT AT AT A
1 AT AT AT A
1023286 GCTTTTATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1026143 original size:26 final size:26
Alignment explanation
Indices: 1026114--1026477 Score: 150
Period size: 20 Copynumber: 15.5 Consensus size: 26
1026104 ATGCATTAAG
* * *
1026114 GCATGAATGGATGTCATAACTGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026140 GCATGAAAGGATACCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026166 GCATGAAAGGATG-CAT---TG--AG
1 GCATGAAAGGATGCCATAAATGAAAT
* *
1026186 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAAAT-GAAAT
* * *
1026213 GTATGAACGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATGAAAT
* * *
1026233 GCATGAAAGGATTCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAAAT-GAAAT
*
1026260 GCATGAACGGA---CATAAA-G----
1 GCATGAAAGGATGCCATAAATGAAAT
* *
1026278 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAAAT-GAAAT
* *
1026305 GCATGAACGGATG-CATTAA-G--A-
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026326 -CATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026345 GCATGAAAGGATGCCATAACTAGAAAT
1 GCATGAAAGGATGCCATAAAT-GAAAT
* * *
1026372 GCATGAACGGATG-GAT---T--AAG
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026392 GCATGAAAGGATGCCATAACTGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026418 GCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATGAAAT
1026438 GCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAGGATGCCATAAATGAAAT
*
1026464 TCATGAAAGGATGC
1 GCATGAAAGGATGC
1026478 ATTAAGGCAT
Statistics
Matches: 256, Mismatches: 36, Indels: 92
0.67 0.09 0.24
Matches are distributed among these distances:
18 11 0.04
20 81 0.32
21 19 0.07
22 4 0.02
23 2 0.01
24 10 0.04
25 6 0.02
26 73 0.29
27 50 0.20
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAAATGAAAT
Found at i:1026228 original size:47 final size:47
Alignment explanation
Indices: 1026140--1026338 Score: 296
Period size: 47 Copynumber: 4.3 Consensus size: 47
1026130 TAACTGAAAT
* * * * *
1026140 GCATGAAAGGATACCATAAAT-GAAATGCATGAAAGGATGCATTGAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
1026186 GCATGAAAGGATGCCATAACTAAAAATGTATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
* *
1026233 GCATGAAAGGATTCCATAACTAAAAATGCATGAACGGA--CATAAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
1026278 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
*
1026325 ACATGAAAGGATGC
1 GCATGAAAGGATGC
1026339 ATTAAGGCAT
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 43 0.31
46 19 0.14
47 76 0.55
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.19
Consensus pattern (47 bp):
GCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAG
Found at i:1026280 original size:92 final size:92
Alignment explanation
Indices: 1026140--1026336 Score: 297
Period size: 92 Copynumber: 2.1 Consensus size: 92
1026130 TAACTGAAAT
* **
1026140 GCATGAAAGGATACCATAAATGAAATGCATGAAAGGATGCATTGAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATACCATAAATAAAATGCATGAAAGGA-GCATAAAGGCATGAAAGGATGCCATAA
*
1026205 CTAAAAATGTATGAACGGATGCATTAAG
65 CTAAAAATGCATGAACGGATGCATTAAG
* * *
1026233 GCATGAAAGGATTCCATAACTAAAAATGCATGAACGGA-CATAAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATACCATAAAT-AAAATGCATGAAAGGAGCATAAAGGCATGAAAGGATGCCATAA
1026297 CTAAAAATGCATGAACGGATGCATTAAG
65 CTAAAAATGCATGAACGGATGCATTAAG
*
1026325 ACATGAAAGGAT
1 GCATGAAAGGAT
1026337 GCATTAAGGC
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
92 62 0.65
93 19 0.20
94 14 0.15
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (92 bp):
GCATGAAAGGATACCATAAATAAAATGCATGAAAGGAGCATAAAGGCATGAAAGGATGCCATAAC
TAAAAATGCATGAACGGATGCATTAAG
Found at i:1026331 original size:20 final size:20
Alignment explanation
Indices: 1026306--1026610 Score: 135
Period size: 20 Copynumber: 13.7 Consensus size: 20
1026296 ACTAAAAATG
*
1026306 CATGAACGGATGCATTAAGA
1 CATGAAAGGATGCATTAAGA
*
1026326 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGA
*
1026346 CATGAAAGGATGCCATAACTAGAAA
1 CATGAAAGGATG-CAT---TA-AGA
* * *
1026371 TGCATGAACGGATGGATTAAGG
1 --CATGAAAGGATGCATTAAGA
1026393 CATGAAAGGATGCCA-TAACTGAAA
1 CATGAAAGGATG-CATTAA--G--A
*
1026417 TGCATGAAAGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
1026439 CATGAAAGGATGCCATAAATGAAA
1 CATGAAAGGATG-CATTAA-G--A
*
1026463 TTCATGAAAGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
* *
1026485 CATGAAATGATGCATTAAGG
1 CATGAAAGGATGCATTAAGA
* * *
1026505 CATTAAAGAATGCCATAACTAAAAA
1 CATGAAAGGATG-CAT---T-AAGA
* *
1026530 TGCATGAACGGATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
*
1026552 CATGAAAGGATGCTATAAATGAAA
1 CATGAAAGGATGC-ATTAA-G--A
* *
1026576 TGCATGAAAGAATGCATTAAGG
1 --CATGAAAGGATGCATTAAGA
1026598 CATGAAAGGATGC
1 CATGAAAGGATGC
1026611 CATAAATGAA
Statistics
Matches: 217, Mismatches: 34, Indels: 68
0.68 0.11 0.21
Matches are distributed among these distances:
20 108 0.50
21 16 0.07
22 6 0.03
23 3 0.01
24 6 0.03
25 14 0.06
26 44 0.20
27 20 0.09
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGA
Found at i:1026353 original size:67 final size:67
Alignment explanation
Indices: 1026275--1026405 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
1026265 AACGGACATA
1026275 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCA
1 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCA
1026340 TT
66 TT
* * *
1026342 AAGGCATGAAAGGATGCCATAACTAGAAATGCATGAACGGATGGATTAAGGCATGAAAGGATGC
1 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGC
1026406 CATAACTGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.42, C:0.13, G:0.27, T:0.18
Consensus pattern (67 bp):
AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGACATGAAAGGATGCA
TT
Found at i:1026431 original size:93 final size:92
Alignment explanation
Indices: 1026326--1026497 Score: 290
Period size: 93 Copynumber: 1.9 Consensus size: 92
1026316 TGCATTAAGA
* * *
1026326 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAGAAATGCATGAACGGATGGATTAA
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT-GAAATGCATGAAAGGATGCATTAA
1026391 GGCATGAAAGGATGCCATAACTGAAATG
65 GGCATGAAAGGATGCCATAACTGAAATG
*
1026419 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATTCATGAAAGGATGCATTAAG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
*
1026484 GCATGAAATGATGC
66 GCATGAAAGGATGC
1026498 ATTAAGGCAT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.20
Consensus pattern (92 bp):
CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCATTAAG
GCATGAAAGGATGCCATAACTGAAATG
Found at i:1026436 original size:46 final size:46
Alignment explanation
Indices: 1026326--1026497 Score: 290
Period size: 46 Copynumber: 3.7 Consensus size: 46
1026316 TGCATTAAGA
1026326 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAGAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT-GAAATG
* *
1026373 CATGAACGGATGGATTAAGGCATGAAAGGATGCCATAACTGAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTGAAATG
* *
1026419 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATT
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTGAAATG
*
1026465 CATGAAAGGATGCATTAAGGCATGAAATGATGC
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGC
1026498 ATTAAGGCAT
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
46 80 0.68
47 38 0.32
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.20
Consensus pattern (46 bp):
CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTGAAATG
Found at i:1026488 original size:66 final size:67
Alignment explanation
Indices: 1026418--1026564 Score: 224
Period size: 66 Copynumber: 2.2 Consensus size: 67
1026408 TAACTGAAAT
* * *
1026418 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT-GAAATTCATGAAAGGATGCATTA
1 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATAAAAATGCATGAAAGGATGCATTA
1026482 AG
66 AG
* * * *
1026484 GCATGAAATGATGCATTAAGGCATTAAAGAATGCCATAACTAAAAATGCATGAACGGATGCATTA
1 GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATAAAAATGCATGAAAGGATGCATTA
1026549 AG
66 AG
1026551 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1026565 TATAAATGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 37 0.51
67 35 0.49
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (67 bp):
GCATGAAAGGATGCATTAAGGCATGAAAGAATGCCATAAATAAAAATGCATGAAAGGATGCATTA
AG
Found at i:1026531 original size:113 final size:113
Alignment explanation
Indices: 1026275--1026610 Score: 443
Period size: 113 Copynumber: 3.0 Consensus size: 113
1026265 AACGGACATA
*
1026275 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGACATGAAAGGATG-C
1 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCC
* * * *
1026339 AT---T--AAGGCATGAAAGGATGCCATAACTAGAAATGCATGAACGGATGGATT
66 ATAAATGAAATGCATGAAAGGATG-CAT---T---AAGGCATGAAAGGATGCATT
* *
1026389 AAGGCATGAAAGGATGCCATAACT-GAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCC
1 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCC
* *
1026453 ATAAATGAAATTCATGAAAGGATGCATTAAGGCATGAAATGATGCATT
66 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATT
* * *
1026501 AAGGCATTAAAGAATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCT
1 AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCC
*
1026566 ATAAATGAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGC
66 ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1026611 CATAAATGAA
Statistics
Matches: 198, Mismatches: 17, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
112 38 0.19
113 114 0.58
114 27 0.14
115 1 0.01
117 1 0.01
118 3 0.02
119 14 0.07
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (113 bp):
AAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCC
ATAAATGAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCATT
Found at i:1026591 original size:46 final size:45
Alignment explanation
Indices: 1026484--1026622 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 45
1026474 ATGCATTAAG
* * * *
1026484 GCATGAAATGATGCATTAAGGCATTAAAGAATGCCATAACTAAAAAT
1 GCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAAAT-GAAAT
* *
1026531 GCATGAACGGATGCATTAAGGCATGAAAGGATGCTATAAATGAAAT
1 GCATGAA-AGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1026577 GCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1 GCATGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1026623 TAACGAATAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 46 0.56
47 35 0.43
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
GCATGAAAGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
Found at i:1026623 original size:159 final size:159
Alignment explanation
Indices: 1026090--1026622 Score: 755
Period size: 159 Copynumber: 3.3 Consensus size: 159
1026080 TAATAACTAA
* * * * *
1026090 AAATGCATGAACGGATGCATTAAGGCATGAATGGATGTCATAACTGAAATGCATGAAAGGATACC
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGAT-GC
* * *
1026155 ATAAATGAAATGCATGAAAGGATGCATTGAGGCATGAAAGGATGCCATAACTAAAAATGTATGAA
65 AT---T--AAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAA
* *
1026220 CGGATGCATTAAGGCATGAAAGGATTCCATAACTAA
125 CGGATGCATTAAGGCATGAAAGGATGCCATAACT-G
* * * * *
1026256 AAATGCATGAACGGA--CATAAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGC
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT-GAAATGCATGAAAGGATGC
* *
1026319 ATTAAGACATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAGAAATGCATGAACGGAT
65 ATTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGAT
*
1026384 GGATTAAGGCATGAAAGGATGCCATAACTG
130 GCATTAAGGCATGAAAGGATGCCATAACTG
*
1026414 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATTCATGAAAGGATGCA
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCA
* * *
1026479 TTAAGGCATGAAATGATGCATTAAGGCATTAAAGAATGCCATAACTAAAAATGCATGAACGGATG
66 TTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATG
* *
1026544 CATTAAGGCATGAAAGGATGCTATAAATG
131 CATTAAGGCATGAAAGGATGCCATAACTG
*
1026573 AAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1026623 TAACGAATAA
Statistics
Matches: 335, Mismatches: 29, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
158 14 0.04
159 236 0.70
160 26 0.08
161 1 0.00
164 28 0.08
165 15 0.04
166 15 0.04
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (159 bp):
AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGGATGCA
TTAAGGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGATG
CATTAAGGCATGAAAGGATGCCATAACTG
Found at i:1026639 original size:113 final size:112
Alignment explanation
Indices: 1026414--1026640 Score: 321
Period size: 113 Copynumber: 2.0 Consensus size: 112
1026404 GCCATAACTG
* *
1026414 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATTCATGAAAGGATGCA
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATGCA
* * ** *
1026479 TTAAGGCATGAAATGATGCATTAAGGCATTAAAGAATGCCATAACTAA
66 TTAAGGCATGAAAGGATGCATAAAGAAATTAAAGAAT-CAATAACTAA
* *
1026527 AAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCTATAAATGAAATGCATGAAAGAATGCA
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATGCA
* *
1026592 TTAAGGCATGAAAGGATGCCATAAATGAAATTAACGAAT-AATTACTAA
66 TTAAGGCATGAAAGGATG-CATAAA-GAAATTAAAGAATCAATAACTAA
1026640 A
1 A
1026641 GAAATATGAA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
113 86 0.85
114 5 0.05
115 10 0.10
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (112 bp):
AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATGCATGAAAGAATGCA
TTAAGGCATGAAAGGATGCATAAAGAAATTAAAGAATCAATAACTAA
Found at i:1027100 original size:81 final size:81
Alignment explanation
Indices: 1026963--1027127 Score: 287
Period size: 81 Copynumber: 2.0 Consensus size: 81
1026953 AGTTCTAAAT
*
1026963 TAAAAGATTAATGGCCTAGTTGTGCATTTTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTTGCAGAAAAGTGTCAATTATGCCAGTTAGATGAAAG
*
1027028 GTTAAATACTTTTGAG
66 GTTAAATACATTTGAG
*
1027044 TAAAAGATTAATGGCCTAGTTGTGCA-TTTGACAGAAAAGTGTCAATTATGCTAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGTTGTGCATTTTG-CAGAAAAGTGTCAATTATGCCAGTTAGATGAAA
1027108 GGTTAAATACATTTGAG
65 GGTTAAATACATTTGAG
1027125 TAA
1 TAA
1027128 TGGCCTAGCT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
80 4 0.05
81 76 0.95
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGTTGTGCATTTTGCAGAAAAGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACATTTGAG
Found at i:1028490 original size:15 final size:16
Alignment explanation
Indices: 1028472--1028511 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
1028462 TAAAATTTGT
*
1028472 TAAAATAATTA-AATA
1 TAAAATAAATATAATA
1028487 TAAAATAAATATAATA
1 TAAAATAAATATAATA
1028503 -AAAATAAAT
1 TAAAATAAAT
1028512 TTACCTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATAAATATAATA
Found at i:1030625 original size:10 final size:10
Alignment explanation
Indices: 1030612--1030688 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
1030602 CGAACGGATG
1030612 TAAACGAACA
1 TAAACGAACA
*
1030622 TAAACGAAAA
1 TAAACGAACA
* * *
1030632 CAAATGAACC
1 TAAACGAACA
1030642 TAAACGAACACAA
1 TAAACG-A-AC-A
*
1030655 TAAATGAACA
1 TAAACGAACA
* *
1030665 TAAATGAACG
1 TAAACGAACA
1030675 TAAACGAACA
1 TAAACGAACA
1030685 TAAA
1 TAAA
1030689 TGAAAATATA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
10 41 0.79
11 3 0.06
12 3 0.06
13 5 0.10
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.13
Consensus pattern (10 bp):
TAAACGAACA
Found at i:1030640 original size:20 final size:23
Alignment explanation
Indices: 1030617--1030673 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1030607 GGATGTAAAC
1030617 GAACATAAACG-A-A-AACAAAT
1 GAACATAAACGAACACAACAAAT
* *
1030637 GAACCTAAACGAACACAATAAAT
1 GAACATAAACGAACACAACAAAT
*
1030660 GAACATAAATGAAC
1 GAACATAAACGAAC
1030674 GTAAACGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 10 0.33
21 1 0.03
22 1 0.03
23 18 0.60
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.12
Consensus pattern (23 bp):
GAACATAAACGAACACAACAAAT
Found at i:1030683 original size:20 final size:20
Alignment explanation
Indices: 1030655--1030692 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1030645 ACGAACACAA
*
1030655 TAAATGAACATAAATGAACG
1 TAAACGAACATAAATGAACG
1030675 TAAACGAACATAAATGAA
1 TAAACGAACATAAATGAA
1030693 AATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (20 bp):
TAAACGAACATAAATGAACG
Found at i:1031063 original size:21 final size:21
Alignment explanation
Indices: 1031039--1031083 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1031029 TCATGAACGG
*
1031039 TTCGTTGAACGTTCAGTTTGT
1 TTCGTTGAACGTTCAGTTCGT
*
1031060 TTCGTTGAACGTTCTGTTCGT
1 TTCGTTGAACGTTCAGTTCGT
1031081 TTC
1 TTC
1031084 CATGACTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (21 bp):
TTCGTTGAACGTTCAGTTCGT
Found at i:1032740 original size:14 final size:14
Alignment explanation
Indices: 1032721--1032747 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1032711 ATGAAATCGC
1032721 AATCACGAATCACT
1 AATCACGAATCACT
1032735 AATCACGAATCAC
1 AATCACGAATCAC
1032748 AATTTCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.07, T:0.19
Consensus pattern (14 bp):
AATCACGAATCACT
Found at i:1033737 original size:42 final size:42
Alignment explanation
Indices: 1033690--1033864 Score: 199
Period size: 42 Copynumber: 4.2 Consensus size: 42
1033680 TCTAACTAAA
* ** * * *
1033690 GCGATGCCTCCTTTTGTTATACTTTAAACGAGAATCGAAATT
1 GCGATGCCTCATTCCGTTCTACTTTAGACGAGAATCGAAAGT
*
1033732 GCGATGTCTCATTCCGTTCTACTTTAGACGAGAATCGAAAGT
1 GCGATGCCTCATTCCGTTCTACTTTAGACGAGAATCGAAAGT
* * *
1033774 ACGATGCCT-ACTTCCGTTTTACTTTAGACGAGAATTGAAAGT
1 GCGATGCCTCA-TTCCGTTCTACTTTAGACGAGAATCGAAAGT
* * * * *
1033816 GTGATGCCTCATTTCGTTCTATTTTAGACAAGAATCAAAAGT
1 GCGATGCCTCATTCCGTTCTACTTTAGACGAGAATCGAAAGT
1033858 GCGATGC
1 GCGATGC
1033865 ATTCTTCCAT
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 109 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (42 bp):
GCGATGCCTCATTCCGTTCTACTTTAGACGAGAATCGAAAGT
Found at i:1033834 original size:84 final size:84
Alignment explanation
Indices: 1033691--1033864 Score: 222
Period size: 84 Copynumber: 2.1 Consensus size: 84
1033681 CTAACTAAAG
* ** * *
1033691 CGATGCCTCCTTTTGTTATACTTTAAACGAGAATCGAAATTGCGATGTCTCATTCCGTTCTACTT
1 CGATGCCTACTTCCGTTATACTTTAAACGAGAATCGAAAGTGCGATGCCTCATTCCGTTCTACTT
* *
1033756 TAGACGAGAATCGAAAGTA
66 TAGACAAGAATCAAAAGTA
* * * * * *
1033775 CGATGCCTACTTCCGTTTTACTTTAGACGAGAATTGAAAGTGTGATGCCTCATTTCGTTCTATTT
1 CGATGCCTACTTCCGTTATACTTTAAACGAGAATCGAAAGTGCGATGCCTCATTCCGTTCTACTT
*
1033840 TAGACAAGAATCAAAAGTG
66 TAGACAAGAATCAAAAGTA
1033859 CGATGC
1 CGATGC
1033865 ATTCTTCCAT
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (84 bp):
CGATGCCTACTTCCGTTATACTTTAAACGAGAATCGAAAGTGCGATGCCTCATTCCGTTCTACTT
TAGACAAGAATCAAAAGTA
Found at i:1037153 original size:19 final size:19
Alignment explanation
Indices: 1037131--1037179 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1037121 CCTTAGCTAT
*
1037131 GGTATCGATACCGAGCTTG
1 GGTATCGATACCGAACTTG
1037150 GGTATCGATACCGAACTTG
1 GGTATCGATACCGAACTTG
1037169 GGTATCGATAC
1 GGTATCGATAC
1037180 TCAATTTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (19 bp):
GGTATCGATACCGAACTTG
Found at i:1050199 original size:72 final size:72
Alignment explanation
Indices: 1050092--1050309 Score: 240
Period size: 72 Copynumber: 3.0 Consensus size: 72
1050082 CATGATTGGT
* * * * * *
1050092 GGCAAGTTTGGCTCTGTTGGTGGGGAAAATACGGGCAGAAGTGGCGTTGTTGGTGTAAATTCATC
1 GGCAAGTCTGGCTCCGTTGGAGGAGCAAATACGGGCGGAAGTGGCGTTGTTGGTGTAAATTCATC
*
1050157 ATCTGGA
66 GTCTGGA
* * * * * *
1050164 GGCATGT-TAGTCTCCGTTGGAGTAGCAAATACGGGCGGGAGTGGCGTTGCTGGTGTAAACTCAT
1 GGCAAGTCT-GGCTCCGTTGGAGGAGCAAATACGGGCGGAAGTGGCGTTGTTGGTGTAAATTCAT
*
1050228 CGTCTGGT
65 CGTCTGGA
* * * * *
1050236 GGCAAGTCTGGCTCGGTTGGTGGAGCAAATACGGGCGGTAGTGGTGTGGTTGGTGTAAATTCATC
1 GGCAAGTCTGGCTCCGTTGGAGGAGCAAATACGGGCGGAAGTGGCGTTGTTGGTGTAAATTCATC
*
1050301 GCCTGGA
66 GTCTGGA
1050308 GG
1 GG
1050310 TCAAAGTATT
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
71 1 0.01
72 117 0.98
73 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.38, T:0.28
Consensus pattern (72 bp):
GGCAAGTCTGGCTCCGTTGGAGGAGCAAATACGGGCGGAAGTGGCGTTGTTGGTGTAAATTCATC
GTCTGGA
Found at i:1053751 original size:16 final size:16
Alignment explanation
Indices: 1053730--1053764 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1053720 ACTAAGTTCT
*
1053730 GTTAAGCTGCTAGTTA
1 GTTAAGCTGCTAGATA
*
1053746 GTTAAGCTGTTAGATA
1 GTTAAGCTGCTAGATA
1053762 GTT
1 GTT
1053765 TGCGTTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (16 bp):
GTTAAGCTGCTAGATA
Found at i:1063467 original size:17 final size:17
Alignment explanation
Indices: 1063445--1063477 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1063435 TACTACCATA
*
1063445 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
1063462 ATATTATATTTTATAT
1 ATATTATATTTTATAT
1063478 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:1064653 original size:22 final size:22
Alignment explanation
Indices: 1064628--1064675 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
1064618 TTATGTCATG
*
1064628 AAAACATAATTATTAAAAT-TAA
1 AAAACATAA-TATAAAAATATAA
* *
1064650 AAAATATTATATAAAAATATAA
1 AAAACATAATATAAAAATATAA
1064672 AAAA
1 AAAA
1064676 AATACTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAACATAATATAAAAATATAA
Found at i:1064850 original size:26 final size:26
Alignment explanation
Indices: 1064821--1064871 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1064811 AGTTGATAGG
1064821 ATTTGCCAAAGAAAAAATAAACTTAT
1 ATTTGCCAAAGAAAAAATAAACTTAT
*
1064847 ATTTGCCAAAGAAAAATTAAACTTA
1 ATTTGCCAAAGAAAAAATAAACTTA
1064872 AAAGAAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (26 bp):
ATTTGCCAAAGAAAAAATAAACTTAT
Found at i:1066844 original size:22 final size:20
Alignment explanation
Indices: 1066797--1066870 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
1066787 ACACGAAAGC
*
1066797 CAAATTCGCAACACAGTTTT
1 CAAATTCGCAACACAATTTT
1066817 CAAATTCGCAACACAAATTTGT
1 CAAATTCGCAACAC-AATTT-T
* **
1066839 CAAATTCGCAACTCACCTTT
1 CAAATTCGCAACACAATTTT
*
1066859 CAATTTCGCAAC
1 CAAATTCGCAAC
1066871 TCGAATTCGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 26 0.55
21 7 0.15
22 14 0.30
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.28
Consensus pattern (20 bp):
CAAATTCGCAACACAATTTT
Found at i:1066884 original size:20 final size:21
Alignment explanation
Indices: 1066859--1066918 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1066849 ACTCACCTTT
1066859 CAATTTCGCAACTCGAATTCG
1 CAATTTCGCAACTCGAATTCG
* *
1066880 -GATTTCGCAACTCGAATGCG
1 CAATTTCGCAACTCGAATTCG
1066900 CCAATTTCGCAACTC-AATT
1 -CAATTTCGCAACTCGAATT
1066919 TTACTGCGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 18 0.55
21 3 0.09
22 12 0.36
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
CAATTTCGCAACTCGAATTCG
Found at i:1067051 original size:21 final size:23
Alignment explanation
Indices: 1067006--1067052 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
1066996 ATAATTCAAT
*
1067006 TTAAAAATAAATACATGATATTA
1 TTAAAAATAAATACATGAAATTA
*
1067029 TTAAAAA-AAATA-TTGAAATTA
1 TTAAAAATAAATACATGAAATTA
1067050 TTA
1 TTA
1067053 TTTTGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 5 0.23
23 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
TTAAAAATAAATACATGAAATTA
Found at i:1067208 original size:20 final size:22
Alignment explanation
Indices: 1067164--1067219 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 22
1067154 AACGCTGTAA
1067164 AATT-GAGTTGCGAAATTGACG
1 AATTCGAGTTGCGAAATTGACG
*
1067185 AATTCGAGTTGCGAAA-T-CCG
1 AATTCGAGTTGCGAAATTGACG
1067205 AATTCGAGTTGCGAA
1 AATTCGAGTTGCGAA
1067220 TTTGGTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 17 0.52
21 5 0.15
22 11 0.33
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCGAGTTGCGAAATTGACG
Found at i:1068063 original size:11 final size:11
Alignment explanation
Indices: 1068047--1068114 Score: 58
Period size: 9 Copynumber: 6.6 Consensus size: 11
1068037 CTGCGGTTTT
1068047 GCCGGTTTTCA
1 GCCGGTTTTCA
1068058 GCCGG--TTCA
1 GCCGGTTTTCA
*
1068067 CCTCGGTTTT-A
1 GC-CGGTTTTCA
1068078 -CCGGTTTTCA
1 GCCGGTTTTCA
*
1068088 GCCGGTTCT-A
1 GCCGGTTTTCA
*
1068098 -CTGGTTTTCA
1 GCCGGTTTTCA
1068108 GCCGGTT
1 GCCGGTT
1068115 CATTGCCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
9 18 0.40
10 7 0.16
11 18 0.40
12 2 0.04
ACGTcount: A:0.09, C:0.28, G:0.26, T:0.37
Consensus pattern (11 bp):
GCCGGTTTTCA
Found at i:1068103 original size:20 final size:20
Alignment explanation
Indices: 1068070--1068115 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
1068060 CGGTTCACCT
*
1068070 CGGTTTTACCGGTTTTCAGC
1 CGGTTCTACCGGTTTTCAGC
*
1068090 CGGTTCTACTGGTTTTCAGC
1 CGGTTCTACCGGTTTTCAGC
1068110 CGGTTC
1 CGGTTC
1068116 ATTGCCATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.39
Consensus pattern (20 bp):
CGGTTCTACCGGTTTTCAGC
Found at i:1068905 original size:31 final size:30
Alignment explanation
Indices: 1068870--1068929 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
1068860 ATCTCCCGAT
*
1068870 ATTTAGTCCGTTTGTAATATGGTCCTCCAAC
1 ATTTAGTCCGTTTGAAATATGGT-CTCCAAC
**
1068901 ATTTAGTTTGTTTGAAATATGGTCTCCAA
1 ATTTAGTCCGTTTGAAATATGGTCTCCAA
1068930 AGTAACTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (30 bp):
ATTTAGTCCGTTTGAAATATGGTCTCCAAC
Found at i:1069733 original size:22 final size:22
Alignment explanation
Indices: 1069705--1069974 Score: 378
Period size: 22 Copynumber: 12.3 Consensus size: 22
1069695 TGTTTTCAAC
1069705 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
1069727 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
*** *
1069749 ATAAATTTTTCCATAATTTAAA
1 ATAAATCAATCCATATTTTAAA
1069771 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
*
1069793 ATAAATCAATACATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
1069815 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
* *** *
1069837 ATAATTTTTTCCATATTCTAAA
1 ATAAATCAATCCATATTTTAAA
1069859 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
***
1069881 ATAAATTTTTCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
1069903 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
* *** *
1069925 ATAATTTTTTTCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
1069947 ATAAATCAATCCATATTTTAAA
1 ATAAATCAATCCATATTTTAAA
1069969 ATAAAT
1 ATAAAT
1069975 TTTAAAATAG
Statistics
Matches: 212, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 212 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAAATCAATCCATATTTTAAA
Found at i:1069753 original size:44 final size:44
Alignment explanation
Indices: 1069714--1069977 Score: 447
Period size: 44 Copynumber: 6.0 Consensus size: 44
1069704 CATAAATCAA
1069714 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
* ***
1069758 TCCATAATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
* *
1069802 TACATATTTTAAAATAAATCAATCCATATTTTAAAATAATTTTT
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
*
1069846 TCCATATTCTAAAATAAATCAATCCATATTTTAAAATAAATTTT
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
*
1069890 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAATTTTT
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
*
1069934 TTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
1 TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
1069978 AAAATAGATT
Statistics
Matches: 203, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 203 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.42
Consensus pattern (44 bp):
TCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTT
Found at i:1069991 original size:11 final size:12
Alignment explanation
Indices: 1069961--1070000 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1069951 ATCAATCCAT
1069961 ATTTTAAAATAA
1 ATTTTAAAATAA
*
1069973 ATTTTAAAATAG
1 ATTTTAAAATAA
1069985 A-TTT-AAAT-A
1 ATTTTAAAATAA
1069994 ATTTTAA
1 ATTTTAA
1070001 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:1074919 original size:3 final size:3
Alignment explanation
Indices: 1074911--1074950 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1074901 GTTCCACATA
1074911 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1074951 AATAATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1074938 original size:20 final size:20
Alignment explanation
Indices: 1074913--1074950 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1074903 TCCACATATA
1074913 TTATTATTATTATTATTATT
1 TTATTATTATTATTATTATT
1074933 TTATTATTATTATTATTA
1 TTATTATTATTATTATTA
1074951 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATTATTATTATTATTATT
Found at i:1075022 original size:25 final size:26
Alignment explanation
Indices: 1074994--1075056 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
1074984 AAAACCCGGA
**
1074994 GCCCCATTTACAAAACAAATTGA-AG
1 GCCCCATTTACAAAACAAATCCATAG
* * *
1075019 G-CCCAGTTACAAAGCATATCCATAG
1 GCCCCATTTACAAAACAAATCCATAG
1075044 GCCCCATTTACAA
1 GCCCCATTTACAA
1075057 GCAAACCCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 16 0.53
25 4 0.13
26 10 0.33
ACGTcount: A:0.38, C:0.29, G:0.13, T:0.21
Consensus pattern (26 bp):
GCCCCATTTACAAAACAAATCCATAG
Found at i:1076458 original size:22 final size:23
Alignment explanation
Indices: 1076432--1076482 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
1076422 TGATAATTTG
1076432 ATATTTGAAT-TTATTATATTTAT
1 ATATTTGAATATT-TTATATTTAT
* *
1076455 -TATTTTAATATTTTATTTTTAT
1 ATATTTGAATATTTTATATTTAT
1076477 ATATTT
1 ATATTT
1076483 ATTGTATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTTGAATATTTTATATTTAT
Found at i:1076465 original size:15 final size:17
Alignment explanation
Indices: 1076441--1076485 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
1076431 GATATTTGAA
1076441 TTTATTATATTTATTA-T
1 TTTA-TATATTTATTATT
1076458 TTTA-ATA-TT-TTATT
1 TTTATATATTTATTATT
1076472 TTTATATATTTATT
1 TTTATATATTTATT
1076486 GTATCTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 3 0.12
14 7 0.29
15 6 0.25
16 2 0.08
17 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATATTTATTATT
Found at i:1082560 original size:2 final size:2
Alignment explanation
Indices: 1082549--1082609 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
1082539 TGAAGGTGAT
1082549 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1082590 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1082610 CAATAAAGTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1084547 original size:21 final size:20
Alignment explanation
Indices: 1084523--1084594 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
1084513 CACCGAAGTG
*
1084523 CCACATAATTATCTCGAATGA
1 CCACATAATT-TCCCGAATGA
*
1084544 CCACATAGGTTTACACCGAAGTG-
1 CCACATA-ATTT-C-CCGAA-TGA
1084567 CCACATAATTGTCCCGAATGA
1 CCACATAATT-TCCCGAATGA
1084588 CCACATA
1 CCACATA
1084595 GAACCCTCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.05
21 20 0.48
22 6 0.14
23 12 0.29
24 2 0.05
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (20 bp):
CCACATAATTTCCCGAATGA
Found at i:1093881 original size:62 final size:62
Alignment explanation
Indices: 1093637--1094120 Score: 480
Period size: 62 Copynumber: 7.7 Consensus size: 62
1093627 GTTTCAATTT
** * *
1093637 TTGACTTCCTCGTGAAGAGAAGTCAATC-TTTGTTATCCCTGACTTCCT-AGCAGAGCCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAA-CATTTGTTATTTCTGAC-TCCTCAGTAGAGTCAATCC
* * * * * * *
1093699 TTGA-ATCCTCATGAAGATAAGTCAA-ACTTTGTTATTTCTGACTCCTCATTAGATTCGATAC
1 TTGACTTCCTCGTGAAGAGAAGTCAACA-TTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
* * * *
1093760 TTGACTTCCTGGTGAAGAGAAGTCAACCTTTTGTTATTTCTGACTCCCCAATAGAGTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAA-CATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
* * * * *
1093823 TTGACTTTCTCGTGAAGAAAAGTCAACATTTGTTATTTTTGACTCCTCGGTAAAGTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
* *
1093885 TTGACTTTCTCGTGAAGAAAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
* * * * *
1093947 TTGACTTTCTCGAGAAGAGAAGTCAACCTTTTTTA-TTCATGACTCC-CTAGCAGAGTCAATCC
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTC-TGACTCCTC-AGTAGAGTCAATCC
** * * * *
1094009 TTGACTTCCTTTTGAAGAGAAGTCGAC-TTTTTTTTATTCTTGACTCCCTCCAAG-AGGAGTTAA
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTAT-TTC-TGACT-CCT-C-AGTA-GAGTCAA
1094072 TCC
60 TCC
* * *
1094075 TTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATATCTGACTCC
1 TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTCTGACTCC
1094121 CTCGCGAAGA
Statistics
Matches: 353, Mismatches: 54, Indels: 28
0.81 0.12 0.06
Matches are distributed among these distances:
60 4 0.01
61 53 0.15
62 183 0.52
63 60 0.17
64 4 0.01
65 6 0.02
66 37 0.10
67 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (62 bp):
TTGACTTCCTCGTGAAGAGAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
Found at i:1093966 original size:187 final size:192
Alignment explanation
Indices: 1093637--1094178 Score: 524
Period size: 186 Copynumber: 2.9 Consensus size: 192
1093627 GTTTCAATTT
* * * * * *
1093637 TTGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATCCCTGACT---TCCTAGCAG-AGCCAAT
1 TTGACTTCCTCGTGAAGAAAAGTCAACTATTTGTTATTCTTGACTCCCTCCAAG-AGAAGTCAAT
* * * * * * *
1093697 CCTTGA-ATCCTCATGAAGATAAGTCAA-ACTTTGTTATTTCTGACTCCTCATTAGATTCGATAC
65 CCTTGACTTCCTCGTGAAGAAAAGTCAACA-TTTGTTATTTCTGACTCCTCAGTAGAGTCAATCC
* * * *
1093760 TTGACTTCCTGGTGAAGAGAAGTCAACCTTTTGTTATTTC-TGACTCCCCAATAGAGTCAATCC
129 TTGACTTTCTCGAGAAGAGAAGTCAACCTTTTGTTATTTCATGACTCCCCAACAGAGTCAATCC
* * *
1093823 TTGACTTTCTCGTGAAGAAAAGTCAAC-ATTTGTTATTTTTGACT-CCT-C-GGTA-AAGTCAAT
1 TTGACTTCCTCGTGAAGAAAAGTCAACTATTTGTTATTCTTGACTCCCTCCAAG-AGAAGTCAAT
*
1093883 CCTTGACTTTCTCGTGAAGAAAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCCT
65 CCTTGACTTCCTCGTGAAGAAAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCCT
* *
1093948 TGACTTTCTCGAGAAGAGAAGTCAACCTTTT-TTA-TTCATGACTCCCTAGCAGAGTCAATCC
130 TGACTTTCTCGAGAAGAGAAGTCAACCTTTTGTTATTTCATGACTCCCCAACAGAGTCAATCC
** * * * * * *
1094009 TTGACTTCCTTTTGAAGAGAAGTCGACTTTTTTTTATTCTTGACTCCCTCCAAGAGGAGTTAATC
1 TTGACTTCCTCGTGAAGAAAAGTCAACTATTTGTTATTCTTGACTCCCTCCAAGAGAAGTCAATC
* * * * * *
1094074 CTTGACTTCCTCGTGAAGAGAAGTAAACCTTTGTTATATCTGACTCCCTCGCGAAGAAGAGTTAA
66 CTTGACTTCCTCGTGAAGAAAAGTCAACATTTGTTATTTCTGACT-CCT--C--AGTAGAGTCAA
* * *
1094139 TCCTTGAATTTCTCGTA-AAGAGAAATTAACC-TTTGTTATT
126 TCCTTGACTTTCTCG-AGAAGAGAAGTCAACCTTTTGTTATT
1094179 CCTAAGTACC
Statistics
Matches: 292, Mismatches: 44, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
185 3 0.01
186 96 0.33
187 91 0.31
188 5 0.02
189 2 0.01
190 48 0.16
191 3 0.01
193 1 0.00
194 3 0.01
195 38 0.13
196 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (192 bp):
TTGACTTCCTCGTGAAGAAAAGTCAACTATTTGTTATTCTTGACTCCCTCCAAGAGAAGTCAATC
CTTGACTTCCTCGTGAAGAAAAGTCAACATTTGTTATTTCTGACTCCTCAGTAGAGTCAATCCTT
GACTTTCTCGAGAAGAGAAGTCAACCTTTTGTTATTTCATGACTCCCCAACAGAGTCAATCC
Found at i:1094409 original size:89 final size:87
Alignment explanation
Indices: 1094211--1094645 Score: 541
Period size: 89 Copynumber: 4.9 Consensus size: 87
1094201 TTCAATTTTT
* * * *
1094211 TTTAGATTTGGTCTTCCCAAAAGAGTAGCGAAGTAAATAAATCCTGAGTCTGA-CTCCCCGGAAG
1 TTTAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGATCT-CCCGGAAG
* * * * *
1094275 AATAGTGGAACAAATTCTTTTTA
65 AGTAGAGGAGCAGATTCTTCTTA
** * * *
1094298 TTTCAGATTTGACCTTCACGAAAGAGTATCGAAGCAAATCAATCTTGAGTCTGATCTCCGTGGAA
1 TTT-AGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGATCTCC-CGGAA
1094363 GAGTAGAGGAGCAGATTCTTCTTA
64 GAGTAGAGGAGCAGATTCTTCTTA
* * *
1094387 TCATAGATTTGGTCTTCCCGAAAGAGTAGTGAAGCAAATCAATCTTGAGTCCGATCTCCCCGGAA
1 T-TTAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGATCT-CCCGGAA
* *
1094452 GAGTGGTGGAGCAGATTCTTCTTA
64 GAGTAGAGGAGCAGATTCTTCTTA
* * * *
1094476 TCCTAGATTTGGTCTTCCCGAAAGAGTAGCAAATCAAACCAATCTTGAGTCTGATCTTCCCGGAA
1 T-TTAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGATC-TCCCGGAA
1094541 GAGTAGAGGAGCAGATTCTTCTTA
64 GAGTAGAGGAGCAGATTCTTCTTA
*
1094565 TTTCAGATTTGGTCTTCCCGAAAGAGTAGGGAAGCAAATCAATCTCT-AGTCTGATCTCTCCGGA
1 TTT-AGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCT-TGAGTCTGATCTC-CCGGA
*
1094629 AGAGTAGAGTAGCAGAT
63 AGAGTAGAGGAGCAGAT
1094646 ATTTTTATTT
Statistics
Matches: 301, Mismatches: 38, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
87 3 0.01
88 47 0.16
89 246 0.82
90 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (87 bp):
TTTAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGATCTCCCGGAAGA
GTAGAGGAGCAGATTCTTCTTA
Found at i:1095049 original size:3 final size:3
Alignment explanation
Indices: 1095041--1095067 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1095031 GTCATACATA
1095041 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1095068 ATAATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1098059 original size:21 final size:20
Alignment explanation
Indices: 1098033--1098089 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
1098023 TCCTCTATAT
1098033 ATTATTATTTTTAATTAAATC
1 ATTATTATTTTTAATTAAA-C
*
1098054 ATTATT-TTTATTAAATAAAC
1 ATTATTATTT-TTAATTAAAC
* *
1098074 A-TAATATTTTTTATTA
1 ATTATTATTTTTAATTA
1098090 TTTCGGGTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 14 0.47
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATTATTTTTAATTAAAC
Found at i:1098066 original size:17 final size:18
Alignment explanation
Indices: 1098036--1098069 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1098026 TCTATATATT
1098036 ATTATTTTTAATTAAATC
1 ATTATTTTTAATTAAATC
1098054 ATTATTTTT-ATTAAAT
1 ATTATTTTTAATTAAAT
1098070 AAACATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATTTTTAATTAAATC
Found at i:1104786 original size:85 final size:85
Alignment explanation
Indices: 1104654--1104992 Score: 477
Period size: 85 Copynumber: 4.0 Consensus size: 85
1104644 TACAATATAG
*
1104654 CTCAAGGCGAGAAGGGTTATCTGTCAACCAAA-ACCTTCGATTTCGATTACATTCAGCTC-AAGT
1 CTCAAGGCGAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAG-
* *
1104717 ACATATCAAATTTACATCATAA
64 GCATATCAAATTTACAGCATAA
* *
1104739 CTCAAGGCGAGAAGGGTTATCTATCAAAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* * *
1104804 ATATCAAAGTTATAGCATAT
66 ATATCAAATTTACAGCATAA
**
1104824 CTCGTGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
*
1104889 ATATCAAATTTACAACA-ATA
66 ATATCAAATTTACAGCATA-A
* * * * *
1104909 CTTAAGGCAAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCAAGGGC
1 CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
*
1104974 ATGTCAAATTTACAGCATA
66 ATATCAAATTTACAGCATA
1104993 GCTTTAATCG
Statistics
Matches: 225, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
84 4 0.02
85 217 0.96
86 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
ATATCAAATTTACAGCATAA
Found at i:1105052 original size:85 final size:85
Alignment explanation
Indices: 1104669--1105052 Score: 267
Period size: 85 Copynumber: 4.5 Consensus size: 85
1104659 GGCGAGAAGG
* *** * * *
1104669 GTTATCTGTCAACCAAAACCTTCGATTTCGATTACATTCAGCTC-AAGTACATATCAAATTTACA
1 GTTATCTGTCAACAAAAACAACCGAGTTCGATTCCATTCAGCTCAAAG-GCATATCAAATTTACA
* * * **
1104733 TC-ATAACTCAAGGCGAGAAGG
65 ACAAT-ACTTAAGGCAAGAAAA
* *** * * *
1104754 GTTATCTATCAA-AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAAGTTATA
1 GTTATCTGTCAACAAAA-ACAACCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACA
* *** * **
1104818 GC-ATATCTCGTGGCGAGAAGG
65 ACAATA-CTTAAGGCAAGAAAA
* *** *
1104839 GTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAA
1 GTTATCTGTCAACAAAAACAACCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAA
**
1104904 CAATACTTAAGGCAAGAAGG
66 CAATACTTAAGGCAAGAAAA
* *** * * *
1104924 GTTATCTGTCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTTACAG
1 GTTATCTGTCAACAAAAACAACCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAA
* *
1104989 C-ATAGCTTTAA-TCGAGAAAA
66 CAATA-C-TTAAGGCAAGAAAA
* * *
1105009 GTTATTTGTCAACAAAAACAACCGAGTTTGATTCCATTAAGCTC
1 GTTATCTGTCAACAAAAACAACCGAGTTCGATTCCATTCAGCTC
1105053 GATGACACAT
Statistics
Matches: 258, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
84 7 0.03
85 238 0.92
86 13 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (85 bp):
GTTATCTGTCAACAAAAACAACCGAGTTCGATTCCATTCAGCTCAAAGGCATATCAAATTTACAA
CAATACTTAAGGCAAGAAAA
Found at i:1107995 original size:18 final size:19
Alignment explanation
Indices: 1107958--1108016 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 19
1107948 TCGAGAGATT
**
1107958 ATCAGTGGTCCTTCTAGAC
1 ATCAGTGGTCCTTCGGGAC
1107977 AT-AGTGGTCCTTCGGGAC
1 ATCAGTGGTCCTTCGGGAC
*
1107995 ATATCAATGGTCCTTCGGGAC
1 --ATCAGTGGTCCTTCGGGAC
1108016 A
1 A
1108017 AATATTCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 14 0.41
19 3 0.09
20 2 0.06
21 15 0.44
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (19 bp):
ATCAGTGGTCCTTCGGGAC
Found at i:1114860 original size:39 final size:39
Alignment explanation
Indices: 1114817--1114894 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1114807 GTCGAGGGAT
* *
1114817 TATCAGTGGTCCTTCTGGACATAGTGGTCCTTCGGGACA
1 TATCAGCGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1114856 TATCAGCGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1 TATCAGCGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
1114895 AATATTCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCAGCGGTCCTTCGGGACATAGTGGTCCTTCGGGACA
Found at i:1114868 original size:21 final size:18
Alignment explanation
Indices: 1114821--1114894 Score: 103
Period size: 18 Copynumber: 3.9 Consensus size: 18
1114811 AGGGATTATC
*
1114821 AGTGGTCCTTCTGGACAT
1 AGTGGTCCTTCGGGACAT
1114839 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
*
1114859 CAGCGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
1114878 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
1114895 AATATTCAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 31 0.62
19 2 0.04
20 2 0.04
21 15 0.30
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1116076 original size:9 final size:9
Alignment explanation
Indices: 1116048--1116127 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
1116038 TTCCTTTATT
1116048 TTTATTTTA
1 TTTATTTTA
* *
1116057 TTTGGTTTTG
1 TTT-ATTTTA
*
1116067 TTTATTTTG
1 TTTATTTTA
*
1116076 TTTATTCTA
1 TTTATTTTA
*
1116085 TTT-GTTTA
1 TTTATTTTA
*
1116093 TTTATTTTT
1 TTTATTTTA
1116102 TTTATTTTTA
1 TTTA-TTTTA
*
1116112 GTTTGTTTTA
1 -TTTATTTTA
1116122 TTTATT
1 TTTATT
1116128 ATTTTGCTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.11
9 30 0.55
10 16 0.29
11 3 0.05
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:1116090 original size:13 final size:12
Alignment explanation
Indices: 1116048--1116127 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 12
1116038 TTCCTTTATT
1116048 TTTATTTTATTTGG
1 TTTA-TTTATTT-G
*
1116062 TTTTGTTTATTTTG
1 -TTTATTTA-TTTG
1116076 TTTATTCTATTTG
1 TTTATT-TATTTG
*
1116089 TTTATTTATTTTT
1 TTTATTTA-TTTG
1116102 TTTATTTTTAGTTTG
1 TTTA--TTTA-TTTG
1116117 TTTTATTTATT
1 -TTTATTTATT
1116128 ATTTTGCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
12 2 0.04
13 24 0.44
14 11 0.20
15 13 0.24
16 4 0.07
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTATTTATTTG
Found at i:1116122 original size:16 final size:17
Alignment explanation
Indices: 1116101--1116139 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1116091 TATTTATTTT
1116101 TTTTATTT-TTAGTTTG
1 TTTTATTTATTAGTTTG
*
1116117 TTTTATTTATTATTTTG
1 TTTTATTTATTAGTTTG
*
1116134 CTTTAT
1 TTTTAT
1116140 GGAGATTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTAGTTTG
Found at i:1116715 original size:31 final size:32
Alignment explanation
Indices: 1116680--1116744 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1116670 CCTTAAAAAA
1116680 TTTAAATT-TTATAAATTTTAAATATATATTT
1 TTTAAATTCTTATAAATTTTAAATATATATTT
1116711 TTTAAATTCTTATAAATTTTAAATATATATTT
1 TTTAAATTCTTATAAATTTTAAATATATATTT
1116743 TT
1 TT
1116745 ATATTTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
TTTAAATTCTTATAAATTTTAAATATATATTT
Found at i:1116730 original size:17 final size:16
Alignment explanation
Indices: 1116680--1116734 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
1116670 CCTTAAAAAA
1116680 TTTAAATTTTATAAAT
1 TTTAAATTTTATAAAT
* **
1116696 TTTAAA-TATATATTT
1 TTTAAATTTTATAAAT
1116711 TTTAAATTCTTATAAAT
1 TTTAAATT-TTATAAAT
1116728 TTTAAAT
1 TTTAAAT
1116735 ATATATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 12 0.39
16 7 0.23
17 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATTTTATAAAT
Found at i:1124916 original size:21 final size:21
Alignment explanation
Indices: 1124898--1124941 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1124888 AACTATTACC
1124898 TTTGGATTAGAAGCTATTAAA
1 TTTGGATTAGAAGCTATTAAA
1124919 TTTGGATTAGAAGCTATTAAA
1 TTTGGATTAGAAGCTATTAAA
1124940 TT
1 TT
1124942 ATTAAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTGGATTAGAAGCTATTAAA
Found at i:1129315 original size:2 final size:2
Alignment explanation
Indices: 1129310--1129361 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1129300 ACATGCACAA
1129310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1129352 AT AT AT AT AT
1 AT AT AT AT AT
1129362 GTATGTATGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1140292 original size:208 final size:210
Alignment explanation
Indices: 1139934--1140352 Score: 824
Period size: 208 Copynumber: 2.0 Consensus size: 210
1139924 CCAACATCAT
1139934 GCGAGTGGATGCGTTGACTCTTTTATAAAACATGTCGACTTGATTCCAATCATGGAATTCGTGGT
1 GCGAGTGGATGCGTTGACTCTTTTATAAAACATGTCGACTTGATTCCAATCATGGAATTCGTGGT
1139999 TAGTGCACTTGCAAAGCAAACTTTTATATTTGTCCCAGCAATCGTACATAGATTCATCATCGCCT
66 TAGTGCACTTGCAAAGCAAACTTTTATATTTGTCCCAGCAATCGTACATAGATTCATCATCGCCT
1140064 TGGCGAAAACTTGCAATGTCATTGCGGAGCTGGGTGTTC-TATTGGGCGGGTTATATCGAAG-AG
131 TGGCGAAAACTTGCAATGTCATTGCGGAGCTGGGTGTTCATATTGGGCGGGTTATATCGAAGAAG
1140127 AAAACTTTTTTATAA
196 AAAACTTTTTTATAA
1140142 GCGAGTGGATGCGTTGACTCTTTTATAAAACATGTCGACTTGATTCCAATCATGGAATTCGTGGT
1 GCGAGTGGATGCGTTGACTCTTTTATAAAACATGTCGACTTGATTCCAATCATGGAATTCGTGGT
1140207 TAGTGCACTTGCAAAGCAAACTTTTATATTTGTCCCAGCAATCGTACATAGATTCATCATCGCCT
66 TAGTGCACTTGCAAAGCAAACTTTTATATTTGTCCCAGCAATCGTACATAGATTCATCATCGCCT
1140272 TGGCGAAAACTTGCAATGTCATTGCGGAGCTGGGTGTTCATATTGGGCGGGTTATATCGAAGAAG
131 TGGCGAAAACTTGCAATGTCATTGCGGAGCTGGGTGTTCATATTGGGCGGGTTATATCGAAGAAG
1140337 AAAACTTTTTTATAA
196 AAAACTTTTTTATAA
1140352 G
1 G
1140353 TCAGTCCAAG
Statistics
Matches: 209, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
208 169 0.81
209 22 0.11
210 18 0.09
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (210 bp):
GCGAGTGGATGCGTTGACTCTTTTATAAAACATGTCGACTTGATTCCAATCATGGAATTCGTGGT
TAGTGCACTTGCAAAGCAAACTTTTATATTTGTCCCAGCAATCGTACATAGATTCATCATCGCCT
TGGCGAAAACTTGCAATGTCATTGCGGAGCTGGGTGTTCATATTGGGCGGGTTATATCGAAGAAG
AAAACTTTTTTATAA
Found at i:1141059 original size:19 final size:20
Alignment explanation
Indices: 1141027--1141064 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1141017 GTGTTGTGGC
*
1141027 ACACAAATCTATGCAAGTAT
1 ACACAAATCGATGCAAGTAT
1141047 ACAC-AATCGATGCAAGTA
1 ACACAAATCGATGCAAGTA
1141065 ATATAGTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (20 bp):
ACACAAATCGATGCAAGTAT
Found at i:1143149 original size:170 final size:170
Alignment explanation
Indices: 1142854--1143192 Score: 437
Period size: 170 Copynumber: 2.0 Consensus size: 170
1142844 TGGCTGTGTA
* * *
1142854 GGCATGTGATAGACCAAACAGACACGATCTGAACCATTGGGGCACCTTTAATCCGACGGTTGACT
1 GGCATGTGATAGACCAAACAGACACGATCTAAACCATTGGGGCACCTTCAATCCGACGGTTGACA
* * *
1142919 TTATTTGGCGGCGGAGGCGATAGTTCTTTAGGTTAAAACCATGGTTATTATTGCATGTAGGTCGT
66 TTATTTGGCGGCGGAGACGATAGTTCTTTAGGGTAAAACCATGGTTATTATTGCATGTAGGTCAT
* * *
1142984 TGGATCTTACCATATCCAACGGTGGACCCACGGTTGCGTG
131 TGGATATTACCAGATCCAACAGTGGACCCACGGTTGCGTG
* * ** * *
1143024 GGCATGTGATAGACCAAACAGGA-TCGATCTAAACCTTTGGTTCCCCTTCAATCTGACGGTTGAC
1 GGCATGTGATAGACCAAACA-GACACGATCTAAACCATTGGGGCACCTTCAATCCGACGGTTGAC
* * * * * *
1143088 ATTCTTTGGCGGTGGTGACGATAGTTCTTTAGGGTAAAACCCTGGTTCTTATTGTATGTAGGTCA
65 ATTATTTGGCGGCGGAGACGATAGTTCTTTAGGGTAAAACCATGGTTATTATTGCATGTAGGTCA
* * * *
1143153 TTGGGTATTACCAGATCTAACAGTGGACTCGCGGTTGCGT
130 TTGGATATTACCAGATCCAACAGTGGACCCACGGTTGCGT
1143193 ATGCTTCTTT
Statistics
Matches: 143, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
170 141 0.99
171 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (170 bp):
GGCATGTGATAGACCAAACAGACACGATCTAAACCATTGGGGCACCTTCAATCCGACGGTTGACA
TTATTTGGCGGCGGAGACGATAGTTCTTTAGGGTAAAACCATGGTTATTATTGCATGTAGGTCAT
TGGATATTACCAGATCCAACAGTGGACCCACGGTTGCGTG
Found at i:1145648 original size:17 final size:19
Alignment explanation
Indices: 1145622--1145668 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
1145612 CGTTTTTTCG
1145622 TTTTTT-CTTTT-CATT-T
1 TTTTTTCCTTTTCCATTCT
1145638 TTTTTTCCTTTTTCCATTCT
1 TTTTTTCC-TTTTCCATTCT
*
1145658 TTTCTTCCTTT
1 TTTTTTCCTTT
1145669 AGGCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 1 0.04
18 4 0.15
19 7 0.27
20 8 0.31
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTCCTTTTCCATTCT
Found at i:1145650 original size:18 final size:20
Alignment explanation
Indices: 1145629--1145668 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1145619 TCGTTTTTTC
*
1145629 TTTT-CATT-TTTTTTTCCT
1 TTTTCCATTCTTTTCTTCCT
1145647 TTTTCCATTCTTTTCTTCCT
1 TTTTCCATTCTTTTCTTCCT
1145667 TT
1 TT
1145669 AGGCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 4 0.21
20 11 0.58
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCCATTCTTTTCTTCCT
Found at i:1151125 original size:21 final size:20
Alignment explanation
Indices: 1151099--1151139 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1151089 ATATGAAATT
*
1151099 TGTCCCGAATGACCTCATGTA
1 TGTCCCGAAGGACCT-ATGTA
1151120 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
1151140 ACCCTCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (20 bp):
TGTCCCGAAGGACCTATGTA
Found at i:1153101 original size:31 final size:31
Alignment explanation
Indices: 1153063--1153185 Score: 176
Period size: 31 Copynumber: 4.0 Consensus size: 31
1153053 GAGTCGAGGG
* *
1153063 TTACCTATATTCTTCAGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
1153094 TTACCTATGTTCTTCGGGATATATGGAATGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
1153125 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
1153156 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
1153186 GTCCTTCGGG
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 82 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:1153160 original size:62 final size:62
Alignment explanation
Indices: 1153063--1153182 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
1153053 GAGTCGAGGG
* *
1153063 TTACCTATATTCTTCAGGACATATGGACTGTTTACCTATGTTCTTCGGGATATATGGAATGT
1 TTACCTATATTCTTCAGGACATATGGACTGTTTACCTAGGTTCTTCGGAATATATGGAATGT
* * *
1153125 TTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGGTTCTTCGGAATCTATGGA
1 TTACCTATATTCTTCAGGACATATGGACTGTTTACCTAGGTTCTTCGGAATATATGGA
1153183 CTGGTCCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (62 bp):
TTACCTATATTCTTCAGGACATATGGACTGTTTACCTAGGTTCTTCGGAATATATGGAATGT
Found at i:1153395 original size:31 final size:31
Alignment explanation
Indices: 1153360--1153460 Score: 157
Period size: 31 Copynumber: 3.3 Consensus size: 31
1153350 TATATATGTT
1153360 ACAGATTACCTATGTTCTTCGGGACATATGG
1 ACAGATTACCTATGTTCTTCGGGACATATGG
*
1153391 ACAGATTACCTATGTTCTTTGGGACATATGG
1 ACAGATTACCTATGTTCTTCGGGACATATGG
* * **
1153422 ACGGGTTACCTATGTTCTTCATGACATATGG
1 ACAGATTACCTATGTTCTTCGGGACATATGG
1153453 ACAGATTA
1 ACAGATTA
1153461 TTAAATGAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (31 bp):
ACAGATTACCTATGTTCTTCGGGACATATGG
Found at i:1154185 original size:21 final size:21
Alignment explanation
Indices: 1154161--1154209 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1154151 CTGAAGTTAT
1154161 TGTAGCAGTGCATCGGTACAC
1 TGTAGCAGTGCATCGGTACAC
*
1154182 TGTAGTAGTGCATCGGTACAC
1 TGTAGCAGTGCATCGGTACAC
1154203 TGTAGCA
1 TGTAGCA
1154210 CTGTTTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
TGTAGCAGTGCATCGGTACAC
Found at i:1160012 original size:51 final size:51
Alignment explanation
Indices: 1159957--1160137 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
1159947 CTTGATGTGA
* * * *
1159957 TACTTTCAATTTATGCATTTTGGTCACTGTTTATTTCTGCTTTGGCTATTG
1 TACTTTCATTTTATGCATTTTAGTCACTGTTTATTTCTGATTTAGCTATTG
** * ** * * **
1160008 TACTTTTGTTTTAAGCATTCCAGTCAGTGTTTATTTCTGTTTTAGCTACAG
1 TACTTTCATTTTATGCATTTTAGTCACTGTTTATTTCTGATTTAGCTATTG
* * * *
1160059 TACTTTTATTTTATGCATTTTAGACATTATTTATTTCTGATTTAGCTATTG
1 TACTTTCATTTTATGCATTTTAGTCACTGTTTATTTCTGATTTAGCTATTG
* * *
1160110 TTCTTTCATTTTATACATTTTGGTCACT
1 TACTTTCATTTTATGCATTTTAGTCACT
1160138 TATTATGCTT
Statistics
Matches: 102, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.19, C:0.14, G:0.13, T:0.54
Consensus pattern (51 bp):
TACTTTCATTTTATGCATTTTAGTCACTGTTTATTTCTGATTTAGCTATTG
Found at i:1161947 original size:16 final size:17
Alignment explanation
Indices: 1161926--1161958 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1161916 TCTTGAAAAT
1161926 AAAGCATGTCT-GGTAG
1 AAAGCATGTCTAGGTAG
1161942 AAAGCATGTCTAGGTAG
1 AAAGCATGTCTAGGTAG
1161959 GATTGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (17 bp):
AAAGCATGTCTAGGTAG
Found at i:1164130 original size:23 final size:23
Alignment explanation
Indices: 1164104--1164147 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1164094 GCGAGAACAC
1164104 AAAGAGAAAAGAAGAAAAAGAGG
1 AAAGAGAAAAGAAGAAAAAGAGG
*
1164127 AAAGAGAAAAGAGGAAAAAGA
1 AAAGAGAAAAGAAGAAAAAGA
1164148 AAAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (23 bp):
AAAGAGAAAAGAAGAAAAAGAGG
Found at i:1164138 original size:14 final size:14
Alignment explanation
Indices: 1164104--1164150 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
1164094 GCGAGAACAC
*
1164104 AAAGAGAAAAGAAGAA
1 AAAGAGGAAAG-AG-A
1164120 AAAGAGGAAAGAGA
1 AAAGAGGAAAGAGA
*
1164134 AAAGAGGAAAAAGA
1 AAAGAGGAAAGAGA
1164148 AAA
1 AAA
1164151 AAAAAGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 17 0.59
15 2 0.07
16 10 0.34
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAGAGGAAAGAGA
Found at i:1164159 original size:16 final size:17
Alignment explanation
Indices: 1164104--1164161 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
1164094 GCGAGAACAC
*
1164104 AAAGAGAAAAG-AAGAA
1 AAAGAGAAAAGAAAAAA
* *
1164120 AAAGAGGAAAGAGAAAA
1 AAAGAGAAAAGAAAAAA
* *
1164137 GAGGA-AAAAGAAAAAA
1 AAAGAGAAAAGAAAAAA
1164153 AAAGA-AAAA
1 AAAGAGAAAA
1164162 AAATGGATCA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 26 0.81
17 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAGAAAAGAAAAAA
Found at i:1166523 original size:36 final size:35
Alignment explanation
Indices: 1166477--1166660 Score: 124
Period size: 30 Copynumber: 5.5 Consensus size: 35
1166467 GTCACCTTTT
*
1166477 AGATTGTTTCTCTTGAAACAAATTTTGTCTCGTTTG
1 AGATAGTTTCTCTTGAAACAAA-TTTGTCTCGTTTG
* *
1166513 AGATAGTTTCTATTGAAACATAA----AC-C-TTTG
1 AGATAGTTTCTCTTGAAACA-AATTTGTCTCGTTTG
* *
1166543 TGATTA-TTTCTCTTGAAACAAATTTTGTCTCGCTTG
1 AGA-TAGTTTCTCTTGAAACAAA-TTTGTCTCGTTTG
* * *
1166579 AGACAATTTCTCTTGAAACATAA----AC-C-TTTG
1 AGATAGTTTCTCTTGAAACA-AATTTGTCTCGTTTG
* * *
1166609 AGATTGTTTCTCTTGAAATAAATTTGTCTCGCTTG
1 AGATAGTTTCTCTTGAAACAAATTTGTCTCGTTTG
*
1166644 AGACAGTTTCTCTTGAA
1 AGATAGTTTCTCTTGAA
1166661 CATAAACCTT
Statistics
Matches: 112, Mismatches: 19, Indels: 35
0.67 0.11 0.21
Matches are distributed among these distances:
29 4 0.04
30 38 0.34
31 4 0.04
32 2 0.02
33 1 0.01
34 2 0.02
35 20 0.18
36 37 0.33
37 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (35 bp):
AGATAGTTTCTCTTGAAACAAATTTGTCTCGTTTG
Found at i:1166683 original size:29 final size:29
Alignment explanation
Indices: 1166585--1166691 Score: 99
Period size: 29 Copynumber: 3.4 Consensus size: 29
1166575 CTTGAGACAA
1166585 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTG-AACATAAACCTTTGAGATTG
* **
1166615 TTTCTCTTGAA-ATAAATTTGTCTCGCTTGAGACAG
1 TTTCTCTTGAACATAAA-----C-C-TTTGAGATTG
1166650 TTTCTCTTGAACATAAACCTTTGAGATTG
1 TTTCTCTTGAACATAAACCTTTGAGATTG
*
1166679 TTTCTCTCGAACA
1 TTTCTCTTGAACA
1166692 AAGTTTCGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
28 5 0.08
29 21 0.34
30 10 0.16
31 1 0.02
33 1 0.02
34 1 0.02
35 18 0.29
36 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (29 bp):
TTTCTCTTGAACATAAACCTTTGAGATTG
Found at i:1166708 original size:65 final size:66
Alignment explanation
Indices: 1166470--1166776 Score: 372
Period size: 66 Copynumber: 4.7 Consensus size: 66
1166460 ATTGTCTGTC
* * * *
1166470 ACCTTTTAGATTGTTTCTCTTGAAACAAATTTTGTCTCGTTTGAGATAGTTTCTATTGAAACATA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
1166535 A
66 A
* * *
1166536 ACCTTTGTGATTATTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
1166601 A
66 A
*
1166602 ACCTTTGAGATTGTTTCTCTTGAAATAAA-TTTGTCTCGCTTGAGACAGTTTCTCTTG-AACATA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
1166665 A
66 A
* * * * * * *
1166666 ACCTTTGAGATTGTTTCTCTCG-AACAAAGTTTCGTTTTGCTTGAGACATTTTCCCTTGAAACAC
1 ACCTTTGAGATTGTTTCTCTTGAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT
1166730 AA
65 AA
* * ** * *
1166732 A-TTTTGAAATTGTTTCAATTGAAACAAA-ATTGATCTCACTTGAGA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTTG-TCTCGCTTGAGA
1166777 ATGTTTTCCT
Statistics
Matches: 207, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
63 5 0.02
64 30 0.14
65 74 0.36
66 98 0.47
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (66 bp):
ACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATA
A
Found at i:1166712 original size:130 final size:131
Alignment explanation
Indices: 1166470--1166776 Score: 386
Period size: 130 Copynumber: 2.3 Consensus size: 131
1166460 ATTGTCTGTC
* * *
1166470 ACCTTTTAGATTGTTTCTCTTGAAACAAATTTTGTCTCGTTTGAGATAGTTTCTATTGAAACATA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAA-TTTGTCTCGCTTGAGACAGTTTCTATTGAAACATA
* * * * *
1166535 AACCTTTGTGATTATTTCTCTTGAAACAAATTTTGTCTCGCTTGAGACAATTTCTCTTGAAACAT
65 AACCTTTGAGATTATTTCTCTCGAAACAAATTTCGTCTCGCTTGAGACAATTTCCCTTGAAACAC
1166600 AA
130 AA
* *
1166602 ACCTTTGAGATTGTTTCTCTTGAAATAAATTTGTCTCGCTTGAGACAGTTTCTCTTG-AACATAA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTGTCTCGCTTGAGACAGTTTCTATTGAAACATAA
* * * *
1166666 ACCTTTGAGATTGTTTCTCTCG-AACAAAGTTTCGTTTTGCTTGAGACATTTTCCCTTGAAACAC
66 ACCTTTGAGATTATTTCTCTCGAAACAAA-TTTCGTCTCGCTTGAGACAATTTCCCTTGAAACAC
1166730 AA
130 AA
* * ** * *
1166732 A-TTTTGAAATTGTTTCAATTGAAACAAAATTGATCTCACTTGAGA
1 ACCTTTGAGATTGTTTCTCTTGAAACAAATTTG-TCTCGCTTGAGA
1166777 ATGTTTTCCT
Statistics
Matches: 152, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
129 31 0.20
130 69 0.45
131 25 0.16
132 27 0.18
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (131 bp):
ACCTTTGAGATTGTTTCTCTTGAAACAAATTTGTCTCGCTTGAGACAGTTTCTATTGAAACATAA
ACCTTTGAGATTATTTCTCTCGAAACAAATTTCGTCTCGCTTGAGACAATTTCCCTTGAAACACA
A
Found at i:1166827 original size:102 final size:103
Alignment explanation
Indices: 1166688--1166879 Score: 307
Period size: 102 Copynumber: 1.9 Consensus size: 103
1166678 GTTTCTCTCG
* * *
1166688 AACAAAGTTTCGTTTTGCTTGAGACATTTTCCCTTGAAACACAAATTTTGAAATTGTTTCAATTG
1 AACAAAGTTTCGTCTCGCTTGAGAAATTTTCCCTTGAAACACAAATTTTGAAATTGTTTCAATTG
1166753 AAACAAAA-TTGATCTCACTTGAGAATGTTTTCCTAAA
66 AAACAAAATTTGATCTCACTTGAGAATGTTTTCCTAAA
* *
1166790 AACAAA-TTTCGTCTCGCTTGAGATAATTTTCCCTTGAAACGCAAATTTTGAAATTGTTTCACTT
1 AACAAAGTTTCGTCTCGCTTGAGA-AATTTTCCCTTGAAACACAAATTTTGAAATTGTTTCAATT
*
1166854 GAAACAAAATTTTATCTCACTTGAGA
65 GAAACAAAATTTGATCTCACTTGAGA
1166880 TAGCATCTCT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
101 15 0.18
102 52 0.63
103 15 0.18
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (103 bp):
AACAAAGTTTCGTCTCGCTTGAGAAATTTTCCCTTGAAACACAAATTTTGAAATTGTTTCAATTG
AAACAAAATTTGATCTCACTTGAGAATGTTTTCCTAAA
Found at i:1167700 original size:31 final size:31
Alignment explanation
Indices: 1167665--1167788 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
1167655 ATCCTCGACA
* *
1167665 ACTGTCCATAGGTCCCGAAGAACCTAGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
* ** *
1167696 ACTGTCCATATGTTCCTTAGAACATTGGTAT
1 ACTGTCCATATGTCCCGAAGAACATAGGTAT
*
1167727 ACTATCCATATGTCCCGAA-AGACATAGGTAATT
1 ACTGTCCATATGTCCCGAAGA-ACATAGGT-A-T
* * *
1167760 A-TGTCCATATGTTCCGTAGAACCTAGGTA
1 ACTGTCCATATGTCCCGAAGAACATAGGTA
1167789 AACCCTCGAC
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
30 1 0.01
31 48 0.65
32 22 0.30
33 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGTCCATATGTCCCGAAGAACATAGGTAT
Found at i:1168673 original size:21 final size:21
Alignment explanation
Indices: 1168649--1168693 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1168639 CCATGTTCGT
* *
1168649 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1168670 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1168691 TTG
1 TTG
1168694 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1172223 original size:30 final size:30
Alignment explanation
Indices: 1172187--1172270 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 30
1172177 CCCGAAGGAC
* *
1172187 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
1172217 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* * * *
1172247 CTGTCCATAGGTCCCGAAGAACCT
1 CTATCCAGAGGTCACAAAGAACCT
1172271 AGGTATACTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Done.