Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009042.1 Hibiscus syriacus cultivar Beakdansim tig00112452_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: 514287
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:140294 original size:21 final size:22
Alignment explanation
Indices: 140255--140296 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
140245 AATTCTCTCT
*
140255 TTCTTCTATCATTTTTCTCGAA
1 TTCTTCTATCATTTCTCTCGAA
*
140277 TTCTTCTCT-ATTTCTCTCGA
1 TTCTTCTATCATTTCTCTCGA
140297 GCTATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.55
Consensus pattern (22 bp):
TTCTTCTATCATTTCTCTCGAA
Found at i:140775 original size:19 final size:20
Alignment explanation
Indices: 140746--140798 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
140736 AATTGTTTCT
*
140746 TAATAAAATAAAATA-GATAA
1 TAATAAAATAAAA-AGGAAAA
140766 TAAT-AAATAAAAAGGAAAA
1 TAATAAAATAAAAAGGAAAA
140785 TAATAAAATAAAAA
1 TAATAAAATAAAAA
140799 ATGGGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 13 0.43
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (20 bp):
TAATAAAATAAAAAGGAAAA
Found at i:140860 original size:17 final size:18
Alignment explanation
Indices: 140824--140865 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
140814 ATTGTTTTTA
140824 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
140842 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
140859 AAATAAA
1 AAATAAA
140866 TAATTGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:141560 original size:62 final size:63
Alignment explanation
Indices: 141482--141602 Score: 201
Period size: 62 Copynumber: 1.9 Consensus size: 63
141472 CTAAAACATC
141482 TTAAATCCTAATTAAAACACTTAAA-ACTATTTAAACTAAAATACCTAAAACAAA-ATAATATT
1 TTAAATCCTAATTAAAACAC-TAAATACTATTTAAACTAAAATACCTAAAACAAAGATAATATT
* *
141544 TTAAATCCTAATTAAAATACTAAATCCTATTTAAACTAAAATACCTAAAACAAAGATAA
1 TTAAATCCTAATTAAAACACTAAATACTATTTAAACTAAAATACCTAAAACAAAGATAA
141603 AATATAAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
61 4 0.07
62 47 0.85
63 4 0.07
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (63 bp):
TTAAATCCTAATTAAAACACTAAATACTATTTAAACTAAAATACCTAAAACAAAGATAATATT
Found at i:141632 original size:76 final size:76
Alignment explanation
Indices: 141533--141682 Score: 255
Period size: 76 Copynumber: 2.0 Consensus size: 76
141523 TACCTAAAAC
** * *
141533 AAAATAATATTTTAAATCCTAATTAAAATACTAAATCCTATTTAAACTAAAATACCTAAAACAAA
1 AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAA
141598 GATAAAATATA
66 GATAAAATATA
*
141609 AAAATAATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAA
1 AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAA
141674 GATAAAATA
66 GATAAAATA
141683 CAATGTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (76 bp):
AAAATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAA
GATAAAATATA
Found at i:142662 original size:43 final size:42
Alignment explanation
Indices: 142572--142681 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
142562 GAAACGATCG
* *
142572 ATTTTTCCTTTTTCTTTTTTTTTTCTGTTCAAAACAATGGAC
1 ATTTTTTCTTTTTCTTTTTTTTTTCTGTTCAAAACAATGAAC
* * *
142614 ATTTTTTCTTTTTCTTTCTTTTTTTTTGTTCGAAACAGTGAA-
1 ATTTTTTCTTTTTCTTT-TTTTTTTCTGTTCAAAACAATGAAC
* *
142656 TTTTTTTCTCTATTT-TTTTATTTTTC
1 ATTTTTTCT-T-TTTCTTTTTTTTTTC
142682 GTGGAACAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
42 30 0.53
43 24 0.42
44 3 0.05
ACGTcount: A:0.15, C:0.14, G:0.06, T:0.65
Consensus pattern (42 bp):
ATTTTTTCTTTTTCTTTTTTTTTTCTGTTCAAAACAATGAAC
Found at i:144793 original size:64 final size:64
Alignment explanation
Indices: 144725--144844 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
144715 ACATAAATCC
* * *
144725 CATTCGATGTTTTCATTTT-AAGGGGATGCATCGATGCACTACTTGTGCATCGATACTATGATGG
1 CATTCGATGTTTTCATTTTAAAGGAG-TGCATCGATACACTACATGTGCATCGATACTATGATGG
* * *
144789 CATTCGATGTTTTTATTTTAAATGAGTGCATCGATACACTTCATGTGCATCGATAC
1 CATTCGATGTTTTCATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATAC
144845 ACCTTGAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
64 45 0.92
65 4 0.08
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (64 bp):
CATTCGATGTTTTCATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACTATGATGG
Found at i:154054 original size:13 final size:14
Alignment explanation
Indices: 154036--154067 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
154026 TTAGTGAGGC
154036 ATAATAATAATA-T
1 ATAATAATAATACT
154049 ATAATAATAATACT
1 ATAATAATAATACT
154063 ATAAT
1 ATAAT
154068 GAGATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATAATAATACT
Found at i:162201 original size:47 final size:45
Alignment explanation
Indices: 162127--162252 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 45
162117 TATAAAATCT
* *
162127 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
* * *
162172 TTTACCATTTAAATTCCATAAGCTAGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
* * *
162219 CTTGCCA-TTATT-AATAAGCTTGTAAGCTTATTTT
1 CTTACCATTTATTCCATAAGCTAGTAAGCTTATTTT
162253 CATACTTACC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
43 20 0.29
44 3 0.04
45 9 0.13
46 2 0.03
47 36 0.51
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
Found at i:162265 original size:38 final size:42
Alignment explanation
Indices: 162127--162271 Score: 118
Period size: 47 Copynumber: 3.4 Consensus size: 42
162117 TATAAAATCT
** * *
162127 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAT-TAATAAGCTAGTAAGCTTATTTTATC--AATA
* *
162172 TTTACCATTTAAATTCCATAAGCTAGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATT-AATAAGCTAGTAAGCTTATTTTATC-A-ATA
* *
162219 CTTGCCA-TTATTAATAAGCTTGTAAGCTTA-TTT-TC-ATA
1 CTTACCATTTATTAATAAGCTAGTAAGCTTATTTTATCAATA
162257 CTTACCATTTATTAA
1 CTTACCATTTATTAA
162272 CCAATAAACC
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
38 9 0.10
39 7 0.08
41 2 0.02
42 3 0.03
43 16 0.19
44 3 0.03
45 9 0.10
46 4 0.05
47 33 0.38
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (42 bp):
CTTACCATTTATTAATAAGCTAGTAAGCTTATTTTATCAATA
Found at i:169393 original size:47 final size:44
Alignment explanation
Indices: 169293--169418 Score: 128
Period size: 47 Copynumber: 2.8 Consensus size: 44
169283 TATAAAATCT
* * *
169293 CTTACCATTTATCCCATAAGCTCGTAAGCTAATTTTACCAAAATA
1 CTTACCA-TTATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
* * *
169338 TTTACCATTTAAATTCCATAAGCTAGTAAGCTTATTTTATCAATATA
1 CTTACCA-TT--ATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
* * *
169385 CTTGCCATTATT-AATAAGCTTGTAAGCTTATTTT
1 CTTACCATTATTCCATAAGCTAGTAAGCTTATTTT
169419 CATACTTACC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
43 20 0.29
44 3 0.04
45 9 0.13
46 2 0.03
47 35 0.51
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTAGTAAGCTTATTTTACCAAAATA
Found at i:169431 original size:38 final size:42
Alignment explanation
Indices: 169293--169437 Score: 109
Period size: 47 Copynumber: 3.4 Consensus size: 42
169283 TATAAAATCT
** * * *
169293 CTTACCATTTATCCCATAAGCTCGTAAGCTAATTTTACCAAAATA
1 CTTACCATTTAT-TAATAAGCTAGTAAGCTTATTTTATC--AATA
* *
169338 TTTACCATTTAAATTCCATAAGCTAGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATT-AATAAGCTAGTAAGCTTATTTTATC-A-ATA
* *
169385 CTTGCCA-TTATTAATAAGCTTGTAAGCTTA-TTT-TC-ATA
1 CTTACCATTTATTAATAAGCTAGTAAGCTTATTTTATCAATA
169423 CTTACCATTTATTAA
1 CTTACCATTTATTAA
169438 CCAATAAACC
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
38 9 0.11
39 7 0.08
41 2 0.02
42 3 0.04
43 16 0.19
44 3 0.04
45 9 0.11
46 4 0.05
47 32 0.38
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (42 bp):
CTTACCATTTATTAATAAGCTAGTAAGCTTATTTTATCAATA
Found at i:171811 original size:23 final size:22
Alignment explanation
Indices: 171785--171862 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
171775 CACCACAGCT
*
171785 CGTATAAATGCATCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
* *
171808 CGTAGAATTACACCGAAGTG-CA
1 CGTA-AAATGCACCGAAGTGCCA
171830 TCGTAAAAATGCACCGAAGTGCCA
1 -CGT-AAAATGCACCGAAGTGCCA
*
171854 TGTAAAATG
1 CGTAAAATG
171863 TCCATAAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
22 8 0.18
23 34 0.76
24 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:172612 original size:36 final size:36
Alignment explanation
Indices: 172565--172638 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
172555 ATTCCAAAAG
*
172565 TGGTATCGATACCT-GCCTTTCTGGTATCGATA-CTCA
1 TGGTATCGATA-CTACCCTTTC-GGTATCGATACCTCA
172601 TGGTATCGATACTACCCCTTTCGGTATCGATACCTCA
1 TGGTATCGATACTA-CCCTTTCGGTATCGATACCTCA
172638 T
1 T
172639 AAAGATATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
35 2 0.06
36 21 0.62
37 11 0.32
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (36 bp):
TGGTATCGATACTACCCTTTCGGTATCGATACCTCA
Found at i:173970 original size:17 final size:18
Alignment explanation
Indices: 173934--173975 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
173924 GTTGTTTTTA
173934 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
173952 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
173969 AAATAAA
1 AAATAAA
173976 TAATTGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:177577 original size:75 final size:76
Alignment explanation
Indices: 177473--177688 Score: 301
Period size: 76 Copynumber: 2.9 Consensus size: 76
177463 TAACACATCT
* * * *
177473 TAAAACCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAAATAATAT-TT
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATA
*
177536 AAAATAATATTC
65 AAAATAATATCC
* *
177548 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAATACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
177613 AAATAATATCC
66 AAATAATATCC
* * * * *
177624 TAAAACTTTATTAAAATACTAAAACATATTTCAACTAAAATACCTAGAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
177689 TGTTTAAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
74 5 0.04
75 50 0.40
76 70 0.56
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.28
Consensus pattern (76 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATATCC
Found at i:186797 original size:21 final size:21
Alignment explanation
Indices: 186781--186827 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
186771 AGAATTATTG
186781 ATTTTAG-TAGAAAAATTAAT
1 ATTTTAGATAGAAAAATTAAT
* * *
186801 ATTTTCGATAGAAAAAATAAC
1 ATTTTAGATAGAAAAATTAAT
186822 ATTTTA
1 ATTTTA
186828 ATTAGTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
ATTTTAGATAGAAAAATTAAT
Found at i:197421 original size:62 final size:61
Alignment explanation
Indices: 197315--197807 Score: 632
Period size: 62 Copynumber: 8.0 Consensus size: 61
197305 TCTTGTTTCC
* * *
197315 TAGAATCAATCATTGACTTCCTCATGAAGAGAAGTCAACCTTTGTTATTTCTAACTTCCCAG
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGAC-TCCCAG
* *
197377 TAGAGTCAATCATTGACTTCCTCGTAAAGAGAAGTCAACATTTGTTATTTCTGACTCCCCAG
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACT-CCCAG
* * * *
197439 TAGAGTCAATCATTGATTTCCTCGTGAAGAGAAGTCAACATTTATTATTTGTGACTCCCTAG
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCCC-AG
* * * * *
197501 TAGAATCAATCTTTGACTTCCTCTTAAAGAGAAGTGAACATTTGTTATTTCTGACTCCCTAG
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCCC-AG
* * *
197563 TAGAGTCAATCATTGACTTCCTCTTAAAGAGAAGTCAACCTTTGTTATTTCTGACTCCTCAG
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCC-CAG
* *
197625 TAGAGTCAATCTTTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCCTCAA
1 TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCC-CAG
* *
197687 TAGAGTCAAT-ATTTGACTCCCTCATGAAGAGAAGTCAACATTTGTTA-TTCTTGATTCCCCAG
1 TAGAGTCAATCA-TTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTC-TGACT-CCCAG
* ** * * *
197749 TAGAGTCAAAT-TTTGACTTCCTTGTGAAGAGAAGTCAACCTTTATTATTTCTGAATCCC
1 TAGAGTC-AATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCCC
197808 TAGAGGAACT
Statistics
Matches: 386, Mismatches: 37, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
61 10 0.03
62 367 0.95
63 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (61 bp):
TAGAGTCAATCATTGACTTCCTCATGAAGAGAAGTCAACATTTGTTATTTCTGACTCCCAG
Found at i:197632 original size:33 final size:33
Alignment explanation
Indices: 197595--197695 Score: 88
Period size: 33 Copynumber: 3.2 Consensus size: 33
197585 CTTAAAGAGA
197595 AGTCAACCTTTGTTATTTCTGACTCCTCAGTAG
1 AGTCAACCTTTGTTATTTCTGACTCCTCAGTAG
* * * *
197628 AGTCAATCTTTG--ACTTC---CTCATGAAG-AG
1 AGTCAACCTTTGTTATTTCTGACTCCT-CAGTAG
* *
197656 AAGTCAACATTTGTTATTTCTGACTCCTCAATAG
1 -AGTCAACCTTTGTTATTTCTGACTCCTCAGTAG
197690 AGTCAA
1 AGTCAA
197696 TATTTGACTC
Statistics
Matches: 50, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
28 6 0.12
29 12 0.24
31 8 0.16
33 18 0.36
34 6 0.12
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (33 bp):
AGTCAACCTTTGTTATTTCTGACTCCTCAGTAG
Found at i:197668 original size:29 final size:29
Alignment explanation
Indices: 197628--197730 Score: 84
Period size: 29 Copynumber: 3.4 Consensus size: 29
197618 TCCTCAGTAG
197628 AGTCAATC-TTTGACTTCCTCATGAAGAGA
1 AGTCAA-CATTTGACTTCCTCATGAAGAGA
* * * *
197657 AGTCAACATTTGTTATTTCTGACTCCTCAATAG-
1 AGTCAACATTTG--ACTTC---CTCATGAAGAGA
* *
197690 AGTCAATATTTGACTCCCTCATGAAGAGA
1 AGTCAACATTTGACTTCCTCATGAAGAGA
197719 AGTCAACATTTG
1 AGTCAACATTTG
197731 TTATTCTTGA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
28 9 0.16
29 21 0.38
31 7 0.12
33 11 0.20
34 8 0.14
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (29 bp):
AGTCAACATTTGACTTCCTCATGAAGAGA
Found at i:198030 original size:36 final size:36
Alignment explanation
Indices: 197990--198834 Score: 1111
Period size: 36 Copynumber: 23.8 Consensus size: 36
197980 AATTCAAACC
*
197990 TAGCCTCCATGGAAGAGTAGTGAAGCAAAGCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
**
198026 TAGCCTCCACAAAAGAGTAGTGAAGCAAAGCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198062 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198098 TAGCCTCCACGGAAGACTAGTGAAGCAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
**
198134 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGTTATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* * *
198170 TAGCCTCCACGGAAGAGTAGTGAAGCAAAACAATAT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198206 TAGCCTCCACAGAAGAGTAGTGAAGCAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198242 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198278 TAGCCTCTACGGAAGAGTAGTGAAGCAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198314 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
** *
198350 TAGCCTCCACAAAAAAGTAGTGAAGCAAAGCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* **
198386 TAGCCTCCATGGAAGAGTAGTGAAGCAAAGTAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
** * * *
198422 TAGCCTCCATAGAAGAGTAATGAAGAAAACCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198458 TAGCCTCCACGGAAGAATAGTGAAGCAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* * * * *
198494 TAACCTCCATGGAAGAGTAGTAAAGCAATGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* * * *
198530 TAGCCTCCATGGAAGAATAGTGAAGCAAATCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* ** *
198566 TAGCCTCCATGGAAGAGTAGTGAATTAAAGTCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198602 TAGCCTCCATGGAAGAGTAGTGAAGCAAAGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198638 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATC-
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198673 T----T-------AGAGTAGTGAAGCAAAGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198698 TAGCCTCCACGGAAGAGTAGTGAAGCATAGCAATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* * *
198734 TACCCTTCAAGGAAGAGTAGTGAAGCAAAGCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
*
198770 TAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCT
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
* *
198806 TAGCCTTCATGGAAGAGTAGTGAAGCAAA
1 TAGCCTCCACGGAAGAGTAGTGAAGCAAA
198835 AATAGATCAA
Statistics
Matches: 707, Mismatches: 90, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
24 20 0.03
25 1 0.00
29 1 0.00
31 1 0.00
35 1 0.00
36 683 0.97
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (36 bp):
TAGCCTCCACGGAAGAGTAGTGAAGCAAAGCCATCT
Found at i:198683 original size:24 final size:24
Alignment explanation
Indices: 198651--198700 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
198641 CCTCCACGGA
198651 AGAGTAGTGAAGCAAAGTC-ATCTT
1 AGAGTAGTGAAGCAAAG-CAATCTT
198675 AGAGTAGTGAAGCAAAGCAATCTT
1 AGAGTAGTGAAGCAAAGCAATCTT
198699 AG
1 AG
198701 CCTCCACGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (24 bp):
AGAGTAGTGAAGCAAAGCAATCTT
Found at i:198708 original size:60 final size:60
Alignment explanation
Indices: 198615--198808 Score: 235
Period size: 60 Copynumber: 3.0 Consensus size: 60
198605 CCTCCATGGA
198615 AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
1 AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
* *
198675 AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCATAGCAATCTTACCCT
1 AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCA-A--AGTC--A-TCT
198740 T
60 T
* * *
198741 CAAGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCT
1 ------AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCT
198806 T
60 T
198807 AG
1 AG
198809 CCTTCATGGA
Statistics
Matches: 115, Mismatches: 7, Indels: 24
0.79 0.05 0.16
Matches are distributed among these distances:
60 52 0.45
61 1 0.01
63 3 0.03
65 1 0.01
66 6 0.05
67 1 0.01
69 2 0.02
71 1 0.01
72 48 0.42
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.19
Consensus pattern (60 bp):
AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
Found at i:198748 original size:96 final size:96
Alignment explanation
Indices: 198579--198772 Score: 300
Period size: 96 Copynumber: 2.0 Consensus size: 96
198569 CCTCCATGGA
** * *
198579 AGAGTAGTGAATTAAAGTCATCTTAGCCTCCATGGAAGAGTAGTGAAGCAAAGCAATCTTAGCCT
1 AGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGCAATCTTACCCT
* *
198644 CCACGGAAGAGTAGTGAAGCAAAGTCATCTT
66 CCAAGGAAGAGTAGTGAAGCAAAGCCATCTT
*
198675 AGAGTAGTGAAGCAAAG-CAATCTTAGCCTCCACGGAAGAGTAGTGAAGCATAGCAATCTTACCC
1 AGAGTAGTGAAGCAAAGTC-ATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGCAATCTTACCC
*
198739 TTCAAGGAAGAGTAGTGAAGCAAAGCCATCTT
65 TCCAAGGAAGAGTAGTGAAGCAAAGCCATCTT
198771 AG
1 AG
198773 CCTCCACGGA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 88 0.99
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (96 bp):
AGAGTAGTGAAGCAAAGTCATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGCAATCTTACCCT
CCAAGGAAGAGTAGTGAAGCAAAGCCATCTT
Found at i:198784 original size:132 final size:132
Alignment explanation
Indices: 198547--198808 Score: 409
Period size: 132 Copynumber: 2.0 Consensus size: 132
198537 CATGGAAGAA
* * ** * *
198547 TAGTGAAGCAAATCAATCTTAGCCTCCATGGAAGAGTAGTGAATTAAAGTCATCTTAGCCTCCAT
1 TAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTTACCCTCCAA
* *
198612 GGAAGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTTAG
66 GGAAGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCTTAG
198677 AG
131 AG
* *
198679 TAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCATAG-CAATCTTACCCTTCA
1 TAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTC-ATCTTACCCTCCA
*
198743 AGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCTTA
65 AGGAAGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCTTA
198808 G
130 G
198809 CCTTCATGGA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.01
132 117 0.99
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (132 bp):
TAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTTACCCTCCAA
GGAAGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATCTTAG
AG
Found at i:198786 original size:168 final size:168
Alignment explanation
Indices: 198507--198834 Score: 503
Period size: 168 Copynumber: 2.0 Consensus size: 168
198497 CCTCCATGGA
* * * *
198507 AGAGTAGTAAAGCAATGCAATCTTAGCCTCCATGGAAGAATAGTGAAGCAAATCAATCTTAGCCT
1 AGAGTAGTAAAGCAAAGCAATCTTAGCCTCCACGGAAGAATAGTGAAGCAAAGCAATCTTACCCT
* ** * * *
198572 CCATGGAAGAGTAGTGAATTAAAGTCATCTTAGCCTCCATGGAAGAGTAGTGAAGCAAAGCAATC
66 CCAAGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCAATC
198637 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
131 TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
* * *
198675 AGAGTAGTGAAGCAAAGCAATCTTAGCCTCCACGGAAGAGTAGTGAAGCATAGCAATCTTACCCT
1 AGAGTAGTAAAGCAAAGCAATCTTAGCCTCCACGGAAGAATAGTGAAGCAAAGCAATCTTACCCT
* *
198740 TCAAGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCCATC
66 CCAAGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCAATC
* *
198805 TTAGCCTTCATGGAAGAGTAGTGAAGCAAA
131 TTAGCCTCCACGGAAGAGTAGTGAAGCAAA
198835 AATAGATCAA
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
168 143 1.00
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (168 bp):
AGAGTAGTAAAGCAAAGCAATCTTAGCCTCCACGGAAGAATAGTGAAGCAAAGCAATCTTACCCT
CCAAGGAAGAGTAGTGAAGCAAAGCCATCTTAGCCTCCACGGAAGAGTAGTGAAGAAAAGCAATC
TTAGCCTCCACGGAAGAGTAGTGAAGCAAAGTCATCTT
Found at i:199050 original size:20 final size:20
Alignment explanation
Indices: 199009--199047 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
198999 TTTTATATAC
*
199009 TATTATTATTATAATAATTA
1 TATTATTATTAAAATAATTA
199029 TATTATTATTACAAATAAT
1 TATTATTATTA-AAATAAT
199048 ATAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATTATTAAAATAATTA
Found at i:199689 original size:20 final size:18
Alignment explanation
Indices: 199653--199692 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 18
199643 CTTAGAGAAA
199653 GAAGAAAAAGAGGAAAAT
1 GAAGAAAAAGAGGAAAAT
199671 GAAGAAAAATGAGGGAAAAT
1 GAAGAAAAA-GA-GGAAAAT
199691 GA
1 GA
199693 CCATTTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.07
Consensus pattern (18 bp):
GAAGAAAAAGAGGAAAAT
Found at i:209269 original size:55 final size:55
Alignment explanation
Indices: 209199--209409 Score: 307
Period size: 55 Copynumber: 3.8 Consensus size: 55
209189 CTAAGTGTAC
* *
209199 TACATGCACTATGTGTGCAAATCCACGAAATTTATCACGAGTTGATGAATAGTCG
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAGTCG
* *
209254 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGTCG
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAGTCG
* * *
209309 TACATGCACTAT-TCGTGCAAATCCACGGAATTCACCATGAGTTGATGAATAGTCT
1 TACATGCACTATGT-GTGCAAATCCACGAAATTCATCATGAGTTGATGAATAGTCG
* * * *
209364 TACAAGCACTAGGTGTGCAAAACCACGAAATTTATCATGAGTTGAT
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGAT
209410 AAATTACCGT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
54 1 0.01
55 139 0.99
56 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (55 bp):
TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAGTCG
Found at i:215385 original size:55 final size:55
Alignment explanation
Indices: 215053--215401 Score: 407
Period size: 55 Copynumber: 6.3 Consensus size: 55
215043 CTAAGTGTAC
* ** * **
215053 TATAGGCACTATATGTGCAAATCCACATAATTTATCATGAGTTGATGAATAGTTG
1 TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGCCG
* * *
215108 TACAGGCACTATGTGTGCAAATCCACAGAATTAATCATGAGTTGATGAATAGCCG
1 TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGCCG
* * * *
215163 TATAGGAACTATGTGTGCAAATCCATC-AAATTCATCATCAGTTGATGAATAACCG
1 TATAGGCACTATGTGTGCAAATCCA-CGGAATTCATCATGAGTTGATGAATAGCCG
* * * * *
215218 TACATGCATTATGTGTGCAAATCCACGGAATTCGTCATAAGTTGATGAATAGCCG
1 TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGCCG
* * * *
215273 TACATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTCATGAATAGTCG
1 TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGCCG
* * * *
215328 TATAGGCACTAGGTGTGCAAAACCACGGAATTTATCATGAGTTGATAAATTA-CCG
1 TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAA-TAGCCG
*
215383 TATATGCACTACT-TGTGCA
1 TATAGGCACTA-TGTGTGCA
215402 TTCTAATAAA
Statistics
Matches: 255, Mismatches: 35, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
54 1 0.00
55 251 0.98
56 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (55 bp):
TATAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAGCCG
Found at i:220135 original size:75 final size:75
Alignment explanation
Indices: 220046--220209 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 75
220036 TAAACTCAAG
*
220046 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTT-GTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATATTATTTT-AACATTATATCTTTAT-TTTAGTATTTTAGTTTAAATAGGTTTTAGTA
*
220109 TTTTAATTAAGT
64 TTTTAATTAAGA
* * *
220121 TTTAGGATATTATTTTTATATTTTATCTTTATTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTATTTTAACATTATATCTTTATTTTA-GTATTTTAGTTTAAATAGGTTTTAGTAT
*
220186 TTTAATTAGGA
65 TTTAATTAAGA
*
220197 TTTAGAATATTAT
1 TTTAGGATATTAT
220210 ATTTTTTAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
74 10 0.13
75 20 0.25
76 49 0.62
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (75 bp):
TTTAGGATATTATTTTAACATTATATCTTTATTTTAGTATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGA
Found at i:224706 original size:23 final size:23
Alignment explanation
Indices: 224671--224739 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
224661 ACATCTTATA
*
224671 TGGCACTTCGGTGCATTTCTAC-
1 TGGCACTTAGGTGCATTTCTACG
*
224693 TCGGCACTTAGGTGCAATTCTACG
1 T-GGCACTTAGGTGCATTTCTACG
* *
224717 TGGCACTTAGATGCATTTATACG
1 TGGCACTTAGGTGCATTTCTACG
224740 AGTTGTGGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
TGGCACTTAGGTGCATTTCTACG
Found at i:229497 original size:5 final size:5
Alignment explanation
Indices: 229489--229584 Score: 63
Period size: 5 Copynumber: 18.8 Consensus size: 5
229479 ATATTTTTGT
* * **
229489 TTTTA TTTTCA TTTTA TTTTTG TTTTA TTTTCA TTTTA TTTTTA GTGAA
1 TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTTA
* * *
229538 CTTTA TTTCA TTCTA -TTTA -TTTA TTTTGA -TTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTT
229585 TTCTTTGAAC
Statistics
Matches: 71, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
4 8 0.11
5 43 0.61
6 20 0.28
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:229503 original size:11 final size:11
Alignment explanation
Indices: 229489--229530 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
229479 ATATTTTTGT
229489 TTTTATTTTCA
1 TTTTATTTTCA
**
229500 TTTTATTTTTG
1 TTTTATTTTCA
229511 TTTTATTTTCA
1 TTTTATTTTCA
229522 TTTTATTTT
1 TTTTATTTT
229531 TAGTGAACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:229508 original size:22 final size:22
Alignment explanation
Indices: 229480--229531 Score: 95
Period size: 22 Copynumber: 2.3 Consensus size: 22
229470 CATTTCGTTA
229480 TATTTTTGTTTTTATTTTCATTT
1 TATTTTTG-TTTTATTTTCATTT
229503 TATTTTTGTTTTATTTTCATTT
1 TATTTTTGTTTTATTTTCATTT
229525 TATTTTT
1 TATTTTT
229532 AGTGAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (22 bp):
TATTTTTGTTTTATTTTCATTT
Found at i:229558 original size:14 final size:14
Alignment explanation
Indices: 229539--229587 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
229529 TTTAGTGAAC
*
229539 TTTATTTCATTCTA
1 TTTATTTCATTTTA
229553 TTTATTT-ATTTTGA
1 TTTATTTCATTTT-A
*
229567 TTTATTTTATTTTA
1 TTTATTTCATTTTA
229581 TTT-TTTC
1 TTTATTTC
229588 TTTGAACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 7 0.23
14 19 0.61
15 5 0.16
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTATTTCATTTTA
Found at i:231487 original size:74 final size:74
Alignment explanation
Indices: 231358--231526 Score: 218
Period size: 74 Copynumber: 2.3 Consensus size: 74
231348 GATTAAACTC
*
231358 AAGTTTAGGATAATA-TTTTAAACATTATATTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGT
1 AAGTTTAGGATATTATTTTTAAACATTATATTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGT
231422 A-TTTAATT
66 ATTTTAATT
* ** *
231430 AAGTTTAGGATATTATTTTTATATTTTATCTTTAT-TTTAGGTATTTTAGTTTAAATAGGTTTTA
1 AAGTTTAGGATATTATTTTTAAACATTATATTTATCTTT--GTATTTTAGTTTAAATAGGTTTTA
231494 GTATTTTAATT
64 GTATTTTAATT
* *
231505 AGGATTTAGAATATTATATTTT
1 AAG-TTTAGGATATTAT-TTTT
231527 TTTAGGTATT
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
72 17 0.20
73 15 0.18
74 27 0.32
75 9 0.11
76 12 0.14
77 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (74 bp):
AAGTTTAGGATATTATTTTTAAACATTATATTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGT
ATTTTAATT
Found at i:232051 original size:28 final size:28
Alignment explanation
Indices: 232019--232074 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
232009 GAAGAATTGT
232019 TCTTGCAGTAACCGACGTGAATCTTGAA
1 TCTTGCAGTAACCGACGTGAATCTTGAA
*
232047 TCTTGTAGTAACCGACGTGAATCTTGAA
1 TCTTGCAGTAACCGACGTGAATCTTGAA
232075 GTAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (28 bp):
TCTTGCAGTAACCGACGTGAATCTTGAA
Found at i:232220 original size:19 final size:18
Alignment explanation
Indices: 232169--232217 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
232159 AATCTCTTTA
232169 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
232188 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
232207 ATTTTTTATTT
1 ATTTTTTATTT
232218 TAAAAACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:239061 original size:2 final size:2
Alignment explanation
Indices: 239054--239134 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
239044 TAATTAGTGT
239054 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
239096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
239135 TATGAATGGG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:239978 original size:20 final size:22
Alignment explanation
Indices: 239953--240001 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
239943 TTAATTCTAA
*
239953 ATTTTACAT-TAAATT-TAATT
1 ATTTTAAATATAAATTATAATT
239973 ATTTTAAAATATAAATTATAATT
1 ATTTT-AAATATAAATTATAATT
239996 -TTTTAA
1 ATTTTAA
240002 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 5 0.20
22 10 0.40
23 5 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTAAATATAAATTATAATT
Found at i:240004 original size:28 final size:28
Alignment explanation
Indices: 239936--240005 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
239926 AAATAGAAAT
* * * *
239936 TAATTTTTTAATTCTAAATTTTACATTA
1 TAATTTTTTAATTTTAAAATATAAATTA
*
239964 -AATTTAATT-ATTTTAAAATATAAATTA
1 TAATTT-TTTAATTTTAAAATATAAATTA
239991 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
240006 TTAAAAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATTTTTTAATTTTAAAATATAAATTA
Found at i:241299 original size:26 final size:26
Alignment explanation
Indices: 241270--241327 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
241260 CCGCTTAATT
241270 TAAAATTAATA-AAATTT-TAGATAAAA
1 TAAAATTAA-AGAAATTTATAGA-AAAA
* *
241296 TAAACTTAAAGAATTTTATAGAAAAA
1 TAAAATTAAAGAAATTTATAGAAAAA
241322 TAAAAT
1 TAAAAT
241328 AAATTACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.04
26 22 0.81
27 4 0.15
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
TAAAATTAAAGAAATTTATAGAAAAA
Found at i:243276 original size:20 final size:20
Alignment explanation
Indices: 243240--243286 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
243230 TATTCCCTGG
**
243240 TAATCTTTTATGCCCACTGA
1 TAATCTTTTATGCCCACCAA
**
243260 TAATCTTTTATTTCCACCAA
1 TAATCTTTTATGCCCACCAA
243280 TAATCTT
1 TAATCTT
243287 ACATTCCGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (20 bp):
TAATCTTTTATGCCCACCAA
Found at i:244290 original size:2 final size:2
Alignment explanation
Indices: 244247--244278 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
244237 TGATTGAAAG
244247 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
244279 ATTTTCCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:247893 original size:17 final size:17
Alignment explanation
Indices: 247871--247910 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
247861 TAATATTCGA
*
247871 AAAATTGGATCGAATAT
1 AAAATTGAATCGAATAT
247888 AAAATTTGAATCGAATAT
1 AAAA-TTGAATCGAATAT
247906 AAAAT
1 AAAAT
247911 CTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (17 bp):
AAAATTGAATCGAATAT
Found at i:249585 original size:2 final size:2
Alignment explanation
Indices: 249578--249612 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
249568 ATAAGCTATG
249578 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
249613 TCCTCCAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:260659 original size:2 final size:2
Alignment explanation
Indices: 260652--260679 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
260642 TGGTGATAAG
260652 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
260680 TGTTCATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:262489 original size:87 final size:87
Alignment explanation
Indices: 262343--262592 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
262333 TATGTTATAT
* *
262343 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATTTAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
262408 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
262430 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
262495 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
262517 TATTTAACGGGAAATATTTTCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
262582 AGCGCTTATAT
66 AGCGCTTATAT
262593 TGACCTATTT
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (87 bp):
TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:266322 original size:120 final size:120
Alignment explanation
Indices: 266109--266347 Score: 399
Period size: 120 Copynumber: 2.0 Consensus size: 120
266099 TCTTCCATTC
*
266109 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
1 TGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
*
266174 AAACCGGTATACTTATACAGGTTATATTACAAAATTGTCTAGTACATTATAATTA
66 AAACCGGTATACTTATACAGGTTATATTACAAAATTATCTAGTACATTATAATTA
* * *
266229 TGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
* *
266294 AAACCGGTATATTTATACCA-GTTATATTACAAAATTATCTATTACATTATAATT
66 AAACCGGTATACTTATA-CAGGTTATATTACAAAATTATCTAGTACATTATAATT
266348 CTGGGTTCCG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
120 109 0.98
121 2 0.02
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (120 bp):
TGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
AAACCGGTATACTTATACAGGTTATATTACAAAATTATCTAGTACATTATAATTA
Found at i:266487 original size:303 final size:302
Alignment explanation
Indices: 265941--266530 Score: 1081
Period size: 303 Copynumber: 2.0 Consensus size: 302
265931 TTAAAATTAG
*
265941 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
266006 ATACCGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGAC
66 ATACCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
*
266071 ACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
131 ACTTTTTGACAAGGTATAGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
266136 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACAGGTTATAT
196 AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACAGGTTATAT
*
266201 TACAAAATTGTCTAGTACATTATAATTATGGACATAAAGTAC
261 TACAAAATTATCTAGTACATTATAATTATGGACATAAAGTAC
*
266243 CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
266308 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACC-GTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
266373 CACTTTTTGACAAGGTATAGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
130 CACTTTTTGACAAGGTATAGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * * *
266438 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
195 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACAGGTTATA
*
266503 TTACAAAATTATCTATTACATTATAATT
260 TTACAAAATTATCTAGTACATTATAATT
266531 CTGGGTTCCG
Statistics
Matches: 277, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
302 68 0.25
303 209 0.75
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (302 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGAC
ACTTTTTGACAAGGTATAGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACAGGTTATAT
TACAAAATTATCTAGTACATTATAATTATGGACATAAAGTAC
Found at i:266537 original size:183 final size:183
Alignment explanation
Indices: 266229--266717 Score: 890
Period size: 183 Copynumber: 2.7 Consensus size: 183
266219 ATTATAATTA
* *
266229 TGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
*
266294 AAACCGGTATATTTATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA
66 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA
266359 TGTGTAAATGTCGACACTTTTTGACAAGGTAT-AGACACATTTTTCTTCCATTC
131 TGTGTAAATGTCGACACTTTTTGACAAGGTATCA-ACACATTTTTCTTCCATTC
266412 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
266477 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA
66 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA
*
266542 TGTGTAAATGTCGACACTTTTTGACAATGTATCAACACATTTTTCTTCCATTC
131 TGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTC
* *
266595 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATA
1 TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
* *
266660 AAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATAATTCTGG
66 AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGG
266718 ACATAAAGTA
Statistics
Matches: 297, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 296 1.00
184 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
TGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATA
AAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGA
TGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTC
Found at i:266717 original size:303 final size:303
Alignment explanation
Indices: 266408--267016 Score: 1110
Period size: 303 Copynumber: 2.0 Consensus size: 303
266398 TTTTTCTTCC
* *
266408 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
266473 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
266538 CCGATGTGTAAATGTCGACACTTTTTGACAATGTATCAACACATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
266603 AAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
266668 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
261 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
266711 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
*
266776 CATAAAACCGGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
*
266841 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
* * *
266906 AAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCGCTCATAAAACCGGT
196 AAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
* * * *
266971 ATATTTATGCCGGTTATATTATAAAATTATCTATTACATTATA
261 ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
267014 ATT
1 ATT
267017 ATGGGTTCCG
Statistics
Matches: 294, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 294 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (303 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACATA
AAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGT
ATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:266804 original size:120 final size:120
Alignment explanation
Indices: 266591--266837 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
266581 TTTTTCTTCC
* *
266591 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCACT
266656 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
266711 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCACT
* * * *
266776 CATAAAACCGGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
266831 ATTCTGG
1 ATTCTGG
266838 GTTCCGATGT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCACT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:266851 original size:486 final size:486
Alignment explanation
Indices: 265941--267203 Score: 2303
Period size: 486 Copynumber: 2.6 Consensus size: 486
265931 TTAAAATTAG
265941 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
266006 ATACC-GTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
266070 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
*
266135 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACAGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
* *
266200 TTACAAAATTGTCTAGTACATTATAATTATGGACATAAAGTACCGACACAAAATTAAAAAGTGTT
261 TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTACCGACACAAAATTAAAAAGTGTC
*
266265 GATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCAGTTATATTACAAAATT
326 GATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTATACCAGTTATATTACAAAATT
266330 ATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATAGAC
391 ATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATAGAC
266395 ACATTTTTCTTCCATTCTGGACATAAAGTAC
456 ACATTTTTCTTCCATTCTGGACATAAAGTAC
266426 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
266491 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
* *
266556 CACTTTTTGACAATGTATCAACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
266621 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
266686 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTC
261 TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTACCGACACAAAATTAAAAAGTGTC
**
266751 GATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTATACTGGTTATATTACAAAATT
326 GATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTATACCAGTTATATTACAAAATT
*
266816 ATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGAC
391 ATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATAGAC
266881 ACATTTTTCTTCCATTCTGGACATAAAGTAC
456 ACATTTTTCTTCCATTCTGGACATAAAGTAC
*
266912 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
266977 ATGCCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
* * *
267042 CACTTTTTGACAAGGTATCGACATATTTTTCTTCCATTCTGCACATAAAGTACCAACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * * * *
267107 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGATTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
267172 TTACAAAATTATCTATTACATTATAATTATGG
261 TTACAAAATTATCTAGTACATTATAATTATGG
267204 GTTCTGATGT
Statistics
Matches: 750, Mismatches: 27, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
485 70 0.09
486 680 0.91
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (486 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTATGGACATAAAGTACCGACACAAAATTAAAAAGTGTC
GATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTTATACCAGTTATATTACAAAATT
ATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACAAGGTATAGAC
ACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:267024 original size:183 final size:183
Alignment explanation
Indices: 266711--267299 Score: 975
Period size: 183 Copynumber: 3.2 Consensus size: 183
266701 GTACATTATA
* *
266711 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
266776 CATAAAACCGGTATATTTATACTGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
*
266841 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
*
266894 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACTTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
266959 CATAAAACCGGTATATTTATGCCGGTTATATTATAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
267024 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
* *
267077 ATTCTGCACATAAAGTACCAACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
267142 CATAAAATCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* * * * *
267207 CTGATGTTTTTTCAA--TCGACACTTATTGAAAAGGTATCGACATATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
*
267261 ATTCTAGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
267300 GAAAACTTTG
Statistics
Matches: 380, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
183 303 0.80
184 73 0.19
186 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACATATTTTTCTTCC
Found at i:268517 original size:3 final size:3
Alignment explanation
Indices: 268509--268565 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
268499 ACTTGTTTGG
* * *
268509 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
268557 ATC TTC ATC
1 ATC ATC ATC
268566 GTCAGCTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:268566 original size:12 final size:12
Alignment explanation
Indices: 268513--268582 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
268503 GTTTGGATCA
* *
268513 TCATCATCATCA
1 TCATCGTCATCT
* *
268525 TCATCATCATCA
1 TCATCGTCATCT
268537 TCATCGTCATCT
1 TCATCGTCATCT
268549 TCATCGTCATCT
1 TCATCGTCATCT
*
268561 TCATCGTCAGCT
1 TCATCGTCATCT
*
268573 TCATCTTCAT
1 TCATCGTCAT
268583 TGACCGCTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 53 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:269757 original size:200 final size:200
Alignment explanation
Indices: 269435--270196 Score: 1301
Period size: 200 Copynumber: 3.8 Consensus size: 200
269425 CATTAAACAA
* * * *
269435 TGTCGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGATTAGATTGAA
1 TGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAA
* * * *
269499 AAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGATATTTTTTATATATGG
65 AAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGG
269564 ATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
130 ATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTA
269629 CAAAAG
195 CAAAAG
* * *
269635 TGTCGACACATTATTTAGACCTATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
* *
269700 AATTACCTATTACATTGTACTTATGGGTTTCGATGTTTATGGGATTGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
* *
269765 TCGACACTTTATTGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
131 TCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
269830 AAAAG
196 AAAAG
*
269835 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
* *
269900 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGAAACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
*
269965 TCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
131 TCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
270030 AAAAG
196 AAAAG
*
270035 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACCGATTAGATTGAAA
1 TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
* * *
270100 AATTACGTATTACATTATACTTTTGGGTTTCGATATTTATGGGATCGACACTTTTTATATATGGA
66 AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
270165 TCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 TCGACACTTTATGGTTGCACCCTGTTTGCCAT
270197 ATTGTAAATT
Statistics
Matches: 531, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
200 527 0.99
201 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGAAA
AATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATGGA
TCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAC
AAAAG
Found at i:270441 original size:18 final size:18
Alignment explanation
Indices: 270418--270478 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
270408 TCTCATTCAT
*
270418 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
270436 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
270455 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
270474 AATTA
1 AATTA
270479 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:270454 original size:19 final size:19
Alignment explanation
Indices: 270430--270478 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
270420 TTATATTCAC
270430 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
270449 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
270468 ATACAAAATTA
1 ATACAAAATTA
270479 ACCCTACATT
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:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:272306 original size:33 final size:33
Alignment explanation
Indices: 272269--272334 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
272259 CATCTTAATA
*
272269 TCACCCCTTAACACC-CCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCC-ACTTCTTTCACCACT
272302 TCACCCCTCAACACCTCCACTTCTTTCACCACT
1 TCACCCCTCAACACCTCCACTTCTTTCACCACT
272335 CCATCTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (33 bp):
TCACCCCTCAACACCTCCACTTCTTTCACCACT
Found at i:272393 original size:21 final size:21
Alignment explanation
Indices: 272368--272432 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
272358 CCCCTTATGC
* *
272368 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
272389 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
272410 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
272431 CT
1 CT
272433 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:274703 original size:20 final size:19
Alignment explanation
Indices: 274648--274694 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
274638 TCCGGTATCG
274648 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
274667 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
274688 TTTTACC
1 TTTTACC
274695 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:274875 original size:20 final size:19
Alignment explanation
Indices: 274829--274875 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
274819 TCCGGCAACG
274829 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
274848 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
274869 TTTTACC
1 TTTTACC
274876 TGGTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:274938 original size:181 final size:182
Alignment explanation
Indices: 274615--275086 Score: 707
Period size: 181 Copynumber: 2.6 Consensus size: 182
274605 CGTACTTACG
*
274615 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
274680 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
*
274745 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
274796 AAAGTATCGACACTTTCAATATATCCGGCAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
274861 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTT-AAAGTATCGACACATTA
** * **
274926 TA-GATTTAAAACTGTTTCTCTTTTAAATTCATGAAGTGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * **
274978 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACAGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
275043 TGTCATAGTTTTA-CTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
275087 AATTTGGATC
Statistics
Matches: 264, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
181 178 0.67
182 86 0.33
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:275256 original size:11 final size:11
Alignment explanation
Indices: 275240--275266 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
275230 ATTCGATAAT
275240 ACCGTATATTA
1 ACCGTATATTA
275251 ACCGTATATTA
1 ACCGTATATTA
275262 ACCGT
1 ACCGT
275267 CTTTCCTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:278938 original size:33 final size:34
Alignment explanation
Indices: 278896--278985 Score: 139
Period size: 33 Copynumber: 2.7 Consensus size: 34
278886 CTAATGCTCA
*
278896 TCATATTGGTTGGTGGCCAACTTATT-GAAAATT
1 TCATCTTGGTTGGTGGCCAACTTATTGGAAAATT
278929 TCATCTTGGTTGGTGGCCAACTTATTGGAAAATT
1 TCATCTTGGTTGGTGGCCAACTTATTGGAAAATT
*
278963 T-ATCTTTGGTAGGTGGCCAACTT
1 TCATC-TTGGTTGGTGGCCAACTT
278986 TGCACATGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
33 28 0.53
34 25 0.47
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (34 bp):
TCATCTTGGTTGGTGGCCAACTTATTGGAAAATT
Found at i:291441 original size:18 final size:18
Alignment explanation
Indices: 291418--291454 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
291408 CAACAGGTTC
291418 AGAGGGCACAGGAACATT
1 AGAGGGCACAGGAACATT
* *
291436 AGAGGGCTCAGGAATATT
1 AGAGGGCACAGGAACATT
291454 A
1 A
291455 AGAACTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.32, T:0.16
Consensus pattern (18 bp):
AGAGGGCACAGGAACATT
Found at i:302694 original size:15 final size:15
Alignment explanation
Indices: 302674--302703 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
302664 TGTATTACAT
*
302674 GTTATGTGGTATGAG
1 GTTATGTGATATGAG
302689 GTTATGTGATATGAG
1 GTTATGTGATATGAG
302704 TTACATGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
GTTATGTGATATGAG
Found at i:302911 original size:44 final size:44
Alignment explanation
Indices: 302819--302915 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
302809 AGAACAAGAT
* *
302819 ATAAGATATGTGACATGATCTACGCGATTACATGAACATGAGAT
1 ATAAGATATGTGACATAATCTACGCGATTACATGAACATGAGAA
* * ** *
302863 ATAAGCTATGTGACATAATCTACGTGATTAC-TGGTCTATGTGAA
1 ATAAGATATGTGACATAATCTACGCGATTACATGAAC-ATGAGAA
302907 ATAAGATAT
1 ATAAGATAT
302916 AATAAATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 3 0.07
44 41 0.93
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (44 bp):
ATAAGATATGTGACATAATCTACGCGATTACATGAACATGAGAA
Found at i:303031 original size:21 final size:21
Alignment explanation
Indices: 303007--303081 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
302997 TACGCGATCT
*
303007 TTCGAGACATATATGTGGTCC
1 TTCGGGACATATATGTGGTCC
* * * *
303028 TTCGGGACAATTCTACGAGGTCT
1 TTCGGGAC-A-TATATGTGGTCC
*
303051 TTCGGGATATATATGTGGTCC
1 TTCGGGACATATATGTGGTCC
*
303072 TTCAGGACAT
1 TTCGGGACAT
303082 TCTATATGAC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
21 23 0.57
22 2 0.05
23 15 0.38
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGGGACATATATGTGGTCC
Found at i:303063 original size:44 final size:43
Alignment explanation
Indices: 302994--303085 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 43
302984 GAGTCGAGGG
* *
302994 TTCTACGCGATCTTTCGAGACATATATGTGGTCCTTCGGGACAA
1 TTCTACGAGATCTTTCGAGACATATATGTGGTCCTTCAGGAC-A
* * *
303038 TTCTACGAGGTCTTTCGGGATATATATGTGGTCCTTCAGGACA
1 TTCTACGAGATCTTTCGAGACATATATGTGGTCCTTCAGGACA
303081 TTCTA
1 TTCTA
303086 TATGACACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 6 0.14
44 37 0.86
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (43 bp):
TTCTACGAGATCTTTCGAGACATATATGTGGTCCTTCAGGACA
Found at i:304305 original size:14 final size:14
Alignment explanation
Indices: 304283--304343 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
304273 AATGATAAAT
*
304283 GAACATAAATGAAC
1 GAACATAAACGAAC
*
304297 GAACGTAAACGAAC
1 GAACATAAACGAAC
304311 --AC--AAAC-AAC
1 GAACATAAACGAAC
304320 TGAACATAAACGAAC
1 -GAACATAAACGAAC
*
304335 AAACATAAA
1 GAACATAAA
304344 ATTAATTGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
9 3 0.08
10 4 0.11
12 4 0.11
14 24 0.63
15 3 0.08
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.10
Consensus pattern (14 bp):
GAACATAAACGAAC
Found at i:305700 original size:179 final size:179
Alignment explanation
Indices: 305400--305762 Score: 690
Period size: 179 Copynumber: 2.0 Consensus size: 179
305390 AAAAAAAGAA
*
305400 TCTTAACAAGTACATAGGTTGTTCATTGGTTGTCAAACATGGTCGTGAGAAATTACAAGGACAGT
1 TCTTAACAAGTACATAGGTTGTTCATTGGTTGTCAAACATGGTCGTAAGAAATTACAAGGACAGT
* *
305465 TGTTAGGACAATTACAGGCTTTGATTTGTTCTGAGAATGCAATATCATGACGACTCCACAACATT
66 TGTTAGGACAATTACAGGCTTTGATTTGTTATGAGAAGGCAATATCATGACGACTCCACAACATT
305530 AAGCCTAAAAAAGTATTCATCTCTGAACAAATAACTTCTAAATTTATTT
131 AAGCCTAAAAAAGTATTCATCTCTGAACAAATAACTTCTAAATTTATTT
305579 TCTTAACAAGTACATAGGTTGTTCATTGGTTGTCAAACATGGTCGTAAGAAATTACAAGGACAGT
1 TCTTAACAAGTACATAGGTTGTTCATTGGTTGTCAAACATGGTCGTAAGAAATTACAAGGACAGT
*
305644 TGTTAGGACAATTACAGGCTTTGATTTGTTATGGGAAGGCAATATCATGACGACTCCACAACATT
66 TGTTAGGACAATTACAGGCTTTGATTTGTTATGAGAAGGCAATATCATGACGACTCCACAACATT
305709 AAGCCTAAAAAAGTATTCATCTCTGAACAAATAACTTCTAAATTTATTT
131 AAGCCTAAAAAAGTATTCATCTCTGAACAAATAACTTCTAAATTTATTT
305758 TCTTA
1 TCTTA
305763 GAATTGGCGA
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
179 180 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (179 bp):
TCTTAACAAGTACATAGGTTGTTCATTGGTTGTCAAACATGGTCGTAAGAAATTACAAGGACAGT
TGTTAGGACAATTACAGGCTTTGATTTGTTATGAGAAGGCAATATCATGACGACTCCACAACATT
AAGCCTAAAAAAGTATTCATCTCTGAACAAATAACTTCTAAATTTATTT
Found at i:311833 original size:15 final size:15
Alignment explanation
Indices: 311815--311860 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
311805 TATTATAATT
311815 AATTAATTAATAAAA
1 AATTAATTAATAAAA
311830 AATT-ATTAACTAAAA
1 AATTAATTAA-TAAAA
*
311845 AA-TAAGT-ATAAAA
1 AATTAATTAATAAAA
311858 AAT
1 AAT
311861 ATTTATACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 7 0.26
14 7 0.26
15 13 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AATTAATTAATAAAA
Found at i:312791 original size:20 final size:16
Alignment explanation
Indices: 312749--312782 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
312739 GGGGGTATCA
312749 ATACCAAAGTGAAGGC
1 ATACCAAAGTGAAGGC
312765 ATACCAAAGTGAAGGC
1 ATACCAAAGTGAAGGC
312781 AT
1 AT
312783 CGATACCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (16 bp):
ATACCAAAGTGAAGGC
Found at i:312837 original size:19 final size:20
Alignment explanation
Indices: 312813--312867 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 20
312803 ATGCAAAAAT
312813 GGTATCGATACCATAGTA-G
1 GGTATCGATACCATAGTATG
312832 GGTATC-AGTACCATAGTATG
1 GGTATCGA-TACCATAGTATG
312852 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
312868 GAAAGGGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.03
19 16 0.52
20 2 0.06
22 11 0.35
23 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATAGTATG
Found at i:313422 original size:58 final size:58
Alignment explanation
Indices: 313215--313598 Score: 482
Period size: 58 Copynumber: 6.7 Consensus size: 58
313205 ATGGCACTAA
* * * *
313215 GTGTGTAAAAATGTTAATAAATTCATATTAAGTGTATGAATTTCCGTATTGGGCACTTC
1 GTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
*
313274 GTGTGC-AAAAGTTAAGAAATTCATACTAAGTATATGAA-TTTCTGTATTGGGCACTTC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTC
* *
313331 GTGTGC-AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCATATTAGGCACTTC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* *
313388 GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTTCGTACTGGGCACTTC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * * * *
313446 GTGTGCAAAAAGTCAAGAAATTCGTACTAAGTGTAGGAA-ATTCTATATTGGGCACTTC
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTC
* *
313504 GTGTGC--AAA---AAGAAATTCATACTAAGTGTATGAATTTTCGTATTGTGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
* * * *
313557 GTGTGCAAACCA-TTGAGAGATTCATACTAAGTGTATAAATTT
1 GTGTGCAAA-AAGTTAAGAAATTCATACTAAGTGTATGAATTT
313599 CCATATGGGA
Statistics
Matches: 288, Mismatches: 27, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
53 40 0.14
54 3 0.01
55 1 0.00
56 7 0.02
57 97 0.34
58 135 0.47
59 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTC
Found at i:313582 original size:169 final size:170
Alignment explanation
Indices: 313215--313600 Score: 519
Period size: 169 Copynumber: 2.3 Consensus size: 170
313205 ATGGCACTAA
* * * * *
313215 GTGTGTAAAAATGTTAATAAATTCATATTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTGC
1 GTGTGCAAAAA-GTCAAGAAATTCATACTAAGTGTATGAATTTCCGTACTGGGCACTTCGTGTGC
* * * *
313280 AAAAGTTAAGAAATTCATACTAAGTATATGAATTTCTGTATTGGGCACTTCGTGTGCAAAAGTTA
65 AAAAGTCAAGAAATTCATACTAAGTATAGGAAATTCTATATTGGGCACTTCGTGTGCAAAA--TA
313345 AGAAATTCATACTAAGTGTATGAATTTTCATATTAGGCACTTC
128 AGAAATTCATACTAAGTGTATGAATTTTCATATTAGGCACTTC
*
313388 GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTTCGTACTGGGCACTTCGTGTGCA
1 GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTCCGTACTGGGCACTTCGTGTGC-
* *
313453 AAAAGTCAAGAAATTCGTACTAAGTGTAGGAAATTCTATATTGGGCACTTCGTGTGC-AAA-AAG
65 AAAAGTCAAGAAATTCATACTAAGTATAGGAAATTCTATATTGGGCACTTCGTGTGCAAAATAAG
* *
313516 AAATTCATACTAAGTGTATGAATTTTCGTATT-GTGCACTTT
130 AAATTCATACTAAGTGTATGAATTTTCATATTAG-GCACTTC
* ** * *
313557 GTGTGCAAACCA-TTGAGAGATTCATACTAAGTGTATAAATTTCC
1 GTGTGCAAA-AAGTCAAGAAATTCATACTAAGTGTATGAATTTCC
313601 ATATGGGAAA
Statistics
Matches: 190, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
168 1 0.01
169 76 0.40
170 1 0.01
172 51 0.27
173 61 0.32
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (170 bp):
GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTCCGTACTGGGCACTTCGTGTGCA
AAAGTCAAGAAATTCATACTAAGTATAGGAAATTCTATATTGGGCACTTCGTGTGCAAAATAAGA
AATTCATACTAAGTGTATGAATTTTCATATTAGGCACTTC
Found at i:319590 original size:20 final size:20
Alignment explanation
Indices: 319565--319657 Score: 186
Period size: 20 Copynumber: 4.7 Consensus size: 20
319555 GATACTGAGG
319565 GGTATCGATACCAAAGTGAA
1 GGTATCGATACCAAAGTGAA
319585 GGTATCGATACCAAAGTGAA
1 GGTATCGATACCAAAGTGAA
319605 GGTATCGATACCAAAGTGAA
1 GGTATCGATACCAAAGTGAA
319625 GGTATCGATACCAAAGTGAA
1 GGTATCGATACCAAAGTGAA
319645 GGTATCGATACCA
1 GGTATCGATACCA
319658 TTTCAAAACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (20 bp):
GGTATCGATACCAAAGTGAA
Found at i:319721 original size:19 final size:19
Alignment explanation
Indices: 319678--319721 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
319668 AAATACAAAA
319678 ATGGTATCGATACCATAGC
1 ATGGTATCGATACCATAGC
* *
319697 ACGGTAT-GAGTACCATAGT
1 ATGGTATCGA-TACCATAGC
319716 ATGGTA
1 ATGGTA
319722 GTATCAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (19 bp):
ATGGTATCGATACCATAGC
Found at i:320350 original size:58 final size:58
Alignment explanation
Indices: 320087--320540 Score: 684
Period size: 58 Copynumber: 7.9 Consensus size: 58
320077 ACTAAATGTA
* *
320087 CAAAAATGTTAAGAAATTCATATTAAGTGTATGAATTT-TGTATTGGGCACTTCGTGTG
1 CAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* * *
320145 -AAAAAGTTAAGAAATTCATACTAAGTGAATGAATTTCCATATTGGGCACTTCTTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* *
320202 C-AAAAGTTAATAAATTCAAACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* *
320259 C-AAAAGTTAAGAAATTCATACAAAGTGTATGAATTTTCGTATTGGGCACTTCGTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* * *
320316 CAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGACACTTAGTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
**
320374 CAAAAAGCCAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* * * *
320432 CAAAAAGTCAAGAAATTCATACTAAGTGTATGAAATTCTGTATTGGTCACTTCGTGTG
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
* *
320490 GAAGAAGTTAAGAAATTCATACTAAGTGTATG-ATTTCCGTATTGGGCACTT
1 CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT
320541 TGTATATAAA
Statistics
Matches: 361, Mismatches: 32, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
56 29 0.08
57 143 0.40
58 189 0.52
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (58 bp):
CAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTGTG
Found at i:326000 original size:55 final size:55
Alignment explanation
Indices: 325908--326320 Score: 506
Period size: 55 Copynumber: 7.3 Consensus size: 55
325898 TTCTTTGAGG
* *
325908 TGCACACGTAGTGCCGATACGGTCGTTCATAAACATATTAAGAATTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
* * ** * *
325963 TGTACACTTAGTGCCGATTCGGTTTTTCATAAACATATTATAAATTCTGCGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTG-TGGTTT
* * * * * *
326019 TGCACACTTAGTGCCGATATGATTGTTCATAAAGATATTATGAATTTTAAATTTTATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATG-------AATTCTGTGGTTT
* ** *
326081 TACACACTTAGTGCCGATACATTTGTTCATAAACATATTATGAATTCTGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
326136 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATT-TCGTGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCT-GTGGTTT
** * *
326191 TGCACACTTAGTATCGATACGATCGTTCATAAACATATTATGAATT-TCATGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCT-GTGGTTT
*
326246 TACACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGT-GGTTT
326302 TGCACACTTAGTGCCGATA
1 TGCACACTTAGTGCCGATA
326321 GTACACATAG
Statistics
Matches: 308, Mismatches: 39, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
54 1 0.00
55 196 0.64
56 64 0.21
62 42 0.14
63 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (55 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGTTT
Found at i:329257 original size:82 final size:82
Alignment explanation
Indices: 329068--329498 Score: 488
Period size: 82 Copynumber: 5.3 Consensus size: 82
329058 TATTACGATG
* *
329068 TTTGTATAAAAACGCCGCTAATGTACAACTCTGTTGCAACGTTTGTTGAAAAATG-CACTATAGA
1 TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGACACTATAGA
**
329132 TGAACCCTATTACGATA
66 TGAACCCTATTACGGCA
* * *
329149 TTTGTATAAAAATGCCGCTAATGTACAACTATGTTGCAACGTTTGTTGAAAAATGTCACTATAGA
1 TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGACACTATAGA
* * *
329214 TGAACTCTATTATGGCG
66 TGAACCCTATTACGGCA
* * * * *
329231 TTTGTATAAAAATGCCACTAAAGTACAACTATATTACAACGTTTGTTGAAAAA-CACTACTATAG
1 TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGAC-ACTATAG
** *
329295 ATGAACCCTATTATAGTA
65 ATGAACCCTATTACGGCA
* * * * *
329313 TTTGTATAAAAACACCGCTAAAGTACTACTATGTTGCAGCGTTTATTAAAAAATGACACTATAGA
1 TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGACACTATAGA
*
329378 TAAACCCTATTACGGCA
66 TGAACCCTATTACGGCA
* * * * * *** *
329395 TTTGTATAAAAACACTGCTAAAGTACTACTTTCTTGCGGTGTTTGTTGAAAAATGCCACTATAGA
1 TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGACACTATAGA
* * *
329460 TTAATCCTATTACGGTA
66 TGAACCCTATTACGGCA
* * *
329477 TTTATATAAAAACACCGATAAA
1 TTTGTATAAAAACGCCGCTAAA
329499 ATTACTATTT
Statistics
Matches: 302, Mismatches: 45, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
81 54 0.18
82 246 0.81
83 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (82 bp):
TTTGTATAAAAACGCCGCTAAAGTACAACTATGTTGCAACGTTTGTTGAAAAATGACACTATAGA
TGAACCCTATTACGGCA
Found at i:329283 original size:41 final size:41
Alignment explanation
Indices: 329057--329276 Score: 144
Period size: 41 Copynumber: 5.4 Consensus size: 41
329047 TCATTGAGCC
* * * * *
329057 CTATTACGATGTTTGTATAAAAACGCCGCTAATGTACAACT
1 CTATTACAACGTTTGTATAAAAATGCCACTAAAGTACAACT
* * * * *
329098 CTGTTGCAACGTTTGT-TGAAAAATG-CACTATAG-ATGAACC
1 CTATTACAACGTTTGTAT-AAAAATGCCACTAAAGTA-CAACT
* ** * *
329138 CTATTACGATATTTGTATAAAAATGCCGCTAATGTACAACT
1 CTATTACAACGTTTGTATAAAAATGCCACTAAAGTACAACT
* * * * * *
329179 ATGTTGCAACGTTTGT-TGAAAAATGTCACTATAG-ATGAACT
1 CTATTACAACGTTTGTAT-AAAAATGCCACTAAAGTA-CAACT
***
329220 CTATTATGGCGTTTGTATAAAAATGCCACTAAAGTACAACT
1 CTATTACAACGTTTGTATAAAAATGCCACTAAAGTACAACT
*
329261 ATATTACAACGTTTGT
1 CTATTACAACGTTTGT
329277 TGAAAAACAC
Statistics
Matches: 126, Mismatches: 44, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
39 1 0.01
40 29 0.23
41 93 0.74
42 3 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (41 bp):
CTATTACAACGTTTGTATAAAAATGCCACTAAAGTACAACT
Found at i:329913 original size:55 final size:55
Alignment explanation
Indices: 329815--329998 Score: 201
Period size: 56 Copynumber: 3.3 Consensus size: 55
329805 CCCTATTTTC
* * * * * *
329815 TAGATATATTCGATTCCGAAGCTCCTATTTTTATGCTTCTTAATGGTAATAATTGA
1 TAGATATATTCGATTTCG-GGCCCCTATTTTTATGTTTATTAATGGCAATAATTGA
* *
329871 TAGATATATTCGATTTCGGGCCCCTATTTTTATGTTTTTTAATGGCAACAACTT-A
1 TAGATATATTCGATTTCGGGCCCCTATTTTTATGTTTATTAATGGCAATAA-TTGA
* * * *
329926 TA-AGTATACTCGATTTCGGGACCCCTATTTTTATATTTATTAATGACAATAACTGA
1 TAGA-TATATTCGATTTCGGG-CCCCTATTTTTATGTTTATTAATGGCAATAATTGA
*
329982 TAAATATATTCGATTTC
1 TAGATATATTCGATTTC
329999 AAAACCCCTA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
54 1 0.01
55 46 0.42
56 61 0.56
57 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (55 bp):
TAGATATATTCGATTTCGGGCCCCTATTTTTATGTTTATTAATGGCAATAATTGA
Found at i:329969 original size:56 final size:56
Alignment explanation
Indices: 329868--330013 Score: 186
Period size: 56 Copynumber: 2.6 Consensus size: 56
329858 TGGTAATAAT
* * * *
329868 TGATAGATATATTCGATTTCGGG-CCCCTATTTTTATGTTTTTTAATGGCAACAAC
1 TGATAAATATATTCGATTTCGGGACCCCTATTTTTATATTTATTAATGACAACAAC
* * * *
329923 TTATAAGTATACTCGATTTCGGGACCCCTATTTTTATATTTATTAATGACAATAAC
1 TGATAAATATATTCGATTTCGGGACCCCTATTTTTATATTTATTAATGACAACAAC
***
329979 TGATAAATATATTCGATTTCAAAACCCCTATTTTT
1 TGATAAATATATTCGATTTCGGGACCCCTATTTTT
330014 TGTGACCCTG
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
55 19 0.25
56 57 0.75
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (56 bp):
TGATAAATATATTCGATTTCGGGACCCCTATTTTTATATTTATTAATGACAACAAC
Found at i:330442 original size:2 final size:2
Alignment explanation
Indices: 330426--330477 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
330416 TAAATATTAA
*
330426 AT AT -T AT AC 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
330467 AT AT AT AT AT A
1 AT AT AT AT AT A
330478 CCGTCTATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:331597 original size:68 final size:67
Alignment explanation
Indices: 331391--331604 Score: 243
Period size: 68 Copynumber: 3.1 Consensus size: 67
331381 GGCATTCCCA
* * *
331391 TGCGAGTCACTCTAATCCTTCGGGACTCTCGTGCGAGTCACCTGGAATAATATGATTAGATGCTC
1 TGCGAGTCACTCTAATCCTTAGGG-TTCTCGTGCGAGTCACCTGGAATAATATGATTAGGTGCTC
*
331456 CCG
65 ACG
* * * * * *
331459 TACGAATCACTCTAATCCTTTGGGGTTATTGTGCGAATCACCTGGAATAATA-GTATTAGGTGCT
1 TGCGAGTCACTCTAATCC-TTAGGGTTCTCGTGCGAGTCACCTGGAATAATATG-ATTAGGTGCT
331523 CACG
64 CACG
* *
331527 TGCGAGTCACTCTAATCCTTAAGGGTTCCCGTGCGAGTCACAC-GAAATAATATGATTAGGTGCT
1 TGCGAGTCACTCTAATCCTT-AGGGTTCTCGTGCGAGTCAC-CTGGAATAATATGATTAGGTGCT
**
331591 TTCG
64 CACG
331595 TGCGAGTCAC
1 TGCGAGTCAC
331605 CCGGTACAAT
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
67 3 0.02
68 112 0.92
69 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (67 bp):
TGCGAGTCACTCTAATCCTTAGGGTTCTCGTGCGAGTCACCTGGAATAATATGATTAGGTGCTCA
CG
Found at i:331798 original size:19 final size:19
Alignment explanation
Indices: 331776--331813 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
331766 AGGGTTTTAG
331776 CCTAAAACCTATTTCCCAA
1 CCTAAAACCTATTTCCCAA
* *
331795 CCTAAATCCTATTTTCCAA
1 CCTAAAACCTATTTCCCAA
331814 ACAAAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (19 bp):
CCTAAAACCTATTTCCCAA
Found at i:340573 original size:22 final size:22
Alignment explanation
Indices: 340548--340621 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
340538 TTCTTCTTCA
340548 GTATCGATACTTATGGTCTATT
1 GTATCGATACTTATGGTCTATT
*
340570 GTATCGATACTT-T--CCTGA--
1 GTATCGATACTTATGGTCT-ATT
340588 GTATCGATACTTATGGTCTATT
1 GTATCGATACTTATGGTCTATT
340610 GTATCGATACTT
1 GTATCGATACTT
340622 TCCTGAGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
18 12 0.27
19 3 0.07
20 2 0.05
21 3 0.07
22 24 0.55
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (22 bp):
GTATCGATACTTATGGTCTATT
Found at i:340593 original size:18 final size:18
Alignment explanation
Indices: 340570--340635 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 18
340560 ATGGTCTATT
340570 GTATCGATACTTTCCTGA
1 GTATCGATACTTTCCTGA
*
340588 GTATCGATACTTATGGTCT-A
1 GTATCGATACTT-T--CCTGA
340608 TTGTATCGATACTTTCCTGA
1 --GTATCGATACTTTCCTGA
340628 GTATCGAT
1 GTATCGAT
340636 GCCAAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
18 20 0.50
19 3 0.08
20 2 0.05
21 3 0.08
22 12 0.30
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (18 bp):
GTATCGATACTTTCCTGA
Found at i:340602 original size:40 final size:40
Alignment explanation
Indices: 340547--340635 Score: 178
Period size: 40 Copynumber: 2.2 Consensus size: 40
340537 ATTCTTCTTC
340547 AGTATCGATACTTATGGTCTATTGTATCGATACTTTCCTG
1 AGTATCGATACTTATGGTCTATTGTATCGATACTTTCCTG
340587 AGTATCGATACTTATGGTCTATTGTATCGATACTTTCCTG
1 AGTATCGATACTTATGGTCTATTGTATCGATACTTTCCTG
340627 AGTATCGAT
1 AGTATCGAT
340636 GCCAAATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (40 bp):
AGTATCGATACTTATGGTCTATTGTATCGATACTTTCCTG
Found at i:346188 original size:20 final size:21
Alignment explanation
Indices: 346163--346202 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
346153 TGTCAGATCT
346163 GCAAGATAAATTT-TTCCTCG
1 GCAAGATAAATTTGTTCCTCG
346183 GCAAGATAAATTTGTTCCTC
1 GCAAGATAAATTTGTTCCTC
346203 ACTGTAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (21 bp):
GCAAGATAAATTTGTTCCTCG
Found at i:346493 original size:22 final size:22
Alignment explanation
Indices: 346465--346511 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
346455 TATTTTTACG
346465 AAGTTATCACACCCCCAAACTT
1 AAGTTATCACACCCCCAAACTT
346487 AAGTTATCACACCCCCAAACTT
1 AAGTTATCACACCCCCAAACTT
346509 AAG
1 AAG
346512 CTATTGCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.34, G:0.06, T:0.21
Consensus pattern (22 bp):
AAGTTATCACACCCCCAAACTT
Found at i:348130 original size:18 final size:19
Alignment explanation
Indices: 348107--348154 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
348097 GATGCAATTA
* *
348107 GTATCGATAC-TGATGTAG
1 GTATCGATACATGAGGAAG
348125 GTATCGATACTATGAGGAAG
1 GTATCGATAC-ATGAGGAAG
348145 GTATCGATAC
1 GTATCGATAC
348155 CATGGACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 10 0.38
20 16 0.62
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (19 bp):
GTATCGATACATGAGGAAG
Found at i:348686 original size:54 final size:54
Alignment explanation
Indices: 348574--348805 Score: 247
Period size: 54 Copynumber: 4.4 Consensus size: 54
348564 CTATGTGTAC
* * *
348574 TATAGGCACTATGTGTGCAA-CC-C-GAATTCATCATATGTTGATGAACGACCT
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTGATGAACGACCA
* * * *
348625 TATAGGCACTAAGTGTACAACCCACGGAATTCATAATGTGTTTATGAATGACCA
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTGATGAACGACCA
* * * * * *
348679 TAAAGGCACTAAGTGTGCAACCTACGAAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTGATGAACGACCA
* * * * * *
348733 TATAGGCACTAAGTGTGTAACCCACAGAATTCATAATATGTTTATAAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTGATGAACGACCA
*
348787 TATCGGCACTACA-TGTGCA
1 TATAGGCACTA-AGTGTGCA
348806 TCTCAAAGAA
Statistics
Matches: 148, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
51 18 0.12
52 2 0.01
53 1 0.01
54 126 0.85
55 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACGGAATTCATAATATGTTGATGAACGACCA
Found at i:348725 original size:108 final size:105
Alignment explanation
Indices: 348577--348777 Score: 312
Period size: 108 Copynumber: 1.9 Consensus size: 105
348567 TGTGTACTAT
* *
348577 AGGCACTATGTGTGCAACCCGAATTCATCATATGTTGATGAACGACCTTATAGGCACTAAGTGTA
1 AGGCACTAAGTGTGCAACCCGAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTA
* *
348642 CAACCCACGGAATTCATAATGTGTTTATGAATGACCATAA
66 CAACCCACAGAATTCATAATATGTTTATGAATGACCATAA
*
348682 AGGCACTAAGTGTGCAACCTACGAAATTCATCATATGTTGATGAACGATCGTATAGGCACTAAGT
1 AGGCACTAAGTGTGCAACC--CG-AATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGT
**
348747 GTGTAACCCACAGAATTCATAATATGTTTAT
63 GTACAACCCACAGAATTCATAATATGTTTAT
348778 AAACAACCGT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 18 0.21
107 2 0.02
108 66 0.77
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (105 bp):
AGGCACTAAGTGTGCAACCCGAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTA
CAACCCACAGAATTCATAATATGTTTATGAATGACCATAA
Found at i:348804 original size:108 final size:104
Alignment explanation
Indices: 348577--348805 Score: 287
Period size: 108 Copynumber: 2.1 Consensus size: 104
348567 TGTGTACTAT
* *
348577 AGGCACTATGTGTGCAACCCGAATTCATCATATGTTGATGAACGACCTTATAGGCACTAAGTGTA
1 AGGCACTA-ATGTGCAACCCGAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTA
* * * **
348642 CAACCCACGGAATTCATAATGTGTTTATGAATGACCATAA
65 CAACCCACAGAATTCATAATATGTTTATAAACAACCATAA
*
348682 AGGCACTAAGTGTGCAACCTACGAAATTCATCATATGTTGATGAACGATCGTATAGGCACTAAGT
1 AGGCACTAA-TGTGCAACC--CG-AATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGT
** * *
348747 GTGTAACCCACAGAATTCATAATATGTTTATAAACAACCGTAT
62 GTACAACCCACAGAATTCATAATATGTTTATAAACAACCATAA
*
348790 CGGCACTACATGTGCA
1 AGGCACTA-ATGTGCA
348806 TCTCAAAGAA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
105 17 0.16
107 2 0.02
108 86 0.81
109 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (104 bp):
AGGCACTAATGTGCAACCCGAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTAC
AACCCACAGAATTCATAATATGTTTATAAACAACCATAA
Found at i:352869 original size:37 final size:37
Alignment explanation
Indices: 352819--352944 Score: 166
Period size: 37 Copynumber: 3.5 Consensus size: 37
352809 ATCCTTCGTA
*
352819 GCTCCCATGCGAGTCATCCAGAATAATATAATTAGGT
1 GCTCCCGTGCGAGTCATCCAGAATAATATAATTAGGT
* *
352856 GCTCCTGTGCGAGTCATCCAAAAT-A-ATAATTAGGT
1 GCTCCCGTGCGAGTCATCCAGAATAATATAATTAGGT
* * * *
352891 GTTCCCGTGCGAGTCACCCAGAATAATATGATTATGT
1 GCTCCCGTGCGAGTCATCCAGAATAATATAATTAGGT
*
352928 GCTCCCGTGTGAGTCAT
1 GCTCCCGTGCGAGTCAT
352945 TTTAATTTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
35 30 0.40
36 2 0.03
37 43 0.57
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (37 bp):
GCTCCCGTGCGAGTCATCCAGAATAATATAATTAGGT
Found at i:352969 original size:66 final size:66
Alignment explanation
Indices: 352895--353083 Score: 177
Period size: 66 Copynumber: 2.9 Consensus size: 66
352885 TTAGGTGTTC
* * * *
352895 CCGTGCGAGTCACCCAGAATAATATGATTATGTGCTCCCGTGTGAGTCATTTTAAT-TTCG-GGC
1 CCGTGCGAGTCACACAGAATAATATGATTAAGTGCTCCCGTGTGAGTCACTCTAATCTTCGAGG-
352958 CT
65 CT
* * *** * * *
352960 CTTGTGCGAGTCTCTTGGAATAATATGAATAGGTG-TTCCGTGTGAGTCACTCTAATCCTTCGAG
1 C-CGTGCGAGTCACACAGAATAATATGATTAAGTGCTCCCGTGTGAGTCACTCTAAT-CTTCGAG
353024 GCT
64 GCT
* * * * *
353027 CCCTGCGAGTCACACAGAACAATATGATCAAGTGCTCCTGTGCGAGTCACTCTAATC
1 CCGTGCGAGTCACACAGAATAATATGATTAAGTGCTCCCGTGTGAGTCACTCTAATC
353084 CTTCTAAAAC
Statistics
Matches: 96, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
65 19 0.20
66 50 0.52
67 25 0.26
68 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (66 bp):
CCGTGCGAGTCACACAGAATAATATGATTAAGTGCTCCCGTGTGAGTCACTCTAATCTTCGAGGC
T
Found at i:353111 original size:19 final size:19
Alignment explanation
Indices: 353087--353291 Score: 123
Period size: 19 Copynumber: 10.8 Consensus size: 19
353077 TCTAATCCTT
353087 CTAAAACCTAGTTTCCAAC
1 CTAAAACCTAGTTTCCAAC
* * *
353106 CTAAAACCTATTTTCTAAA
1 CTAAAACCTAGTTTCCAAC
** *
353125 C-AAAAATTAGGTTTTGCAAC
1 CTAAAACCTA-G-TTTCCAAC
* *
353145 CTAAAATCTGGTTTCCAAC
1 CTAAAACCTAGTTTCCAAC
* * *
353164 CTAAAATCAATTTTCCAAC
1 CTAAAACCTAGTTTCCAAC
*
353183 CTAAAACCTA-TGTTCCAAA
1 CTAAAACCTAGT-TTCCAAC
* *
353202 CTAAAATC-AGTTTTTCAAC
1 CTAAAACCTAG-TTTCCAAC
* * *
353221 CTAAAATCAAGTTT-TAAC
1 CTAAAACCTAGTTTCCAAC
* * *
353239 CTAAAACCTATTTTTCAAT
1 CTAAAACCTAGTTTCCAAC
* *
353258 CTAAAATC-GGTTTTCCAAC
1 CTAAAACCTAG-TTTCCAAC
*
353277 CTAAAACCTATTTTC
1 CTAAAACCTAGTTTC
353292 TAAAAAAATC
Statistics
Matches: 140, Mismatches: 36, Indels: 20
0.71 0.18 0.10
Matches are distributed among these distances:
18 22 0.16
19 103 0.74
20 10 0.07
21 5 0.04
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.33
Consensus pattern (19 bp):
CTAAAACCTAGTTTCCAAC
Found at i:353145 original size:39 final size:38
Alignment explanation
Indices: 353098--353226 Score: 150
Period size: 38 Copynumber: 3.4 Consensus size: 38
353088 TAAAACCTAG
* * *
353098 TTTCCAACCTAAAACCTATTTTCTAAACAAAAATTAGGT
1 TTTCCAACCTAAAACCTATTTTCCAAACTAAAATCA-GT
* * ** * *
353137 TTTGCAACCTAAAATCTGGTTTCCAACCTAAAATCAAT
1 TTTCCAACCTAAAACCTATTTTCCAAACTAAAATCAGT
*
353175 TTTCCAACCTAAAACCTATGTTCCAAACTAAAATCAGT
1 TTTCCAACCTAAAACCTATTTTCCAAACTAAAATCAGT
*
353213 TTTTCAACCTAAAA
1 TTTCCAACCTAAAA
353227 TCAAGTTTTA
Statistics
Matches: 73, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
38 45 0.62
39 28 0.38
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (38 bp):
TTTCCAACCTAAAACCTATTTTCCAAACTAAAATCAGT
Found at i:353265 original size:56 final size:56
Alignment explanation
Indices: 353136--353291 Score: 188
Period size: 56 Copynumber: 2.8 Consensus size: 56
353126 AAAAATTAGG
* * * *
353136 TTTTGCAACCTAAAATCTGGTTTCCAACCTAAAATCAATTTTCCAACCTAAAACCTA
1 TTTTCCAAACTAAAATCAGTTTTCCAACCTAAAATCAATTTT-CAACCTAAAACCTA
* *
353193 TGTTCCAAACTAAAATCAGTTTTTCAACCTAAAATCAAGTTTT-AACCTAAAACCTA
1 TTTTCCAAACTAAAATCAGTTTTCCAACCTAAAATCAA-TTTTCAACCTAAAACCTA
* * * * *
353249 TTTTTCAATCTAAAATCGGTTTTCCAACCTAAAACCTATTTTC
1 TTTTCCAAACTAAAATCAGTTTTCCAACCTAAAATCAATTTTC
353292 TAAAAAAATC
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
55 4 0.05
56 44 0.52
57 32 0.38
58 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (56 bp):
TTTTCCAAACTAAAATCAGTTTTCCAACCTAAAATCAATTTTCAACCTAAAACCTA
Found at i:353287 original size:38 final size:39
Alignment explanation
Indices: 353136--353290 Score: 144
Period size: 38 Copynumber: 4.1 Consensus size: 39
353126 AAAAATTAGG
* * * *
353136 TTTTGCAACCTAAAATCTGG-TTTCCAACCTAAAATCAA
1 TTTTTCAACCTAAAATCAGGTTTTCCAACCTAAAACCTA
* * * * *
353174 TTTTCCAACCTAAAACCTA--TGTTCCAAACTAAAATC-A
1 TTTTTCAACCTAAAATC-AGGTTTTCCAACCTAAAACCTA
*
353211 GTTTTTCAACCTAAAATCAAGTTTT--AACCTAAAACCTA
1 -TTTTTCAACCTAAAATCAGGTTTTCCAACCTAAAACCTA
*
353249 TTTTTCAATCTAAAATC-GGTTTTCCAACCTAAAACCTA
1 TTTTTCAACCTAAAATCAGGTTTTCCAACCTAAAACCTA
353287 TTTT
1 TTTT
353291 CTAAAAAAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
36 5 0.05
37 27 0.28
38 62 0.64
39 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (39 bp):
TTTTTCAACCTAAAATCAGGTTTTCCAACCTAAAACCTA
Found at i:354639 original size:19 final size:21
Alignment explanation
Indices: 354617--354656 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
354607 ATGATATCAA
354617 TACCATA-ATAG-AGTATCGG
1 TACCATAGATAGTAGTATCGG
354636 TACCATAGTATAGTAGTATCG
1 TACCATAG-ATAGTAGTATCG
354657 ATGCCATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (21 bp):
TACCATAGATAGTAGTATCGG
Found at i:355098 original size:55 final size:55
Alignment explanation
Indices: 355021--355625 Score: 898
Period size: 55 Copynumber: 11.3 Consensus size: 55
355011 GTGCAAAAAG
* * ** *
355021 TTAAGAAATTTATACTACGTGGATGAATTTTCGTATGAACACTTTATGTGTTAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
355076 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCAC-TTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
*
355130 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
*
355185 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355240 TTAAGAAATTCATACTAATTGGATGAA-TTTCCTATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
*
355294 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355349 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGAACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
355404 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTG-----
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* * *
355454 -T----AA--CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTGAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* * * * *
355502 TTAAGAAATTCATACTAAGTGGATGAATTTCCATATGGACACTTTGTGTGTGAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355557 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTGTGTGCAGAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTA-AAC
355613 -TAAGAAATTCATA
1 TTAAGAAATTCATA
355626 ATGAGTTTAT
Statistics
Matches: 511, Mismatches: 24, Indels: 30
0.90 0.04 0.05
Matches are distributed among these distances:
43 38 0.07
45 2 0.00
49 2 0.00
53 2 0.00
54 104 0.20
55 360 0.70
56 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (55 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
Found at i:355212 original size:109 final size:110
Alignment explanation
Indices: 355021--355625 Score: 898
Period size: 109 Copynumber: 5.6 Consensus size: 110
355011 GTGCAAAAAG
* * ** *
355021 TTAAGAAATTTATACTACGTGGATGAATTTTCGTATGAACACTTTATGTGTTAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
355086 CATACTAAGTGGATGAATTTTCGTATGGGCAC-TTATGTGTAAAC
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
*
355130 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
*
355195 CATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTAAAC
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355240 TTAAGAAATTCATACTAATTGGATGAA-TTTCCTATGGGCACTTTATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
*
355304 CATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355349 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGAACTTTATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
355414 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTG-----
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* * *
355454 -T----AA--CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTGAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
* * * * *
355512 CATACTAAGTGGATGAATTTCCATATGGACACTTTGTGTGTGAAC
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
* *
355557 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTGTGTGCAGAAC-TAAGAAAT
1 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTA-AACTTAAGAAAT
355621 TCATA
65 TCATA
355626 ATGAGTTTAT
Statistics
Matches: 452, Mismatches: 29, Indels: 29
0.89 0.06 0.06
Matches are distributed among these distances:
98 88 0.19
100 2 0.00
104 2 0.00
108 2 0.00
109 195 0.43
110 160 0.35
111 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (110 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTTAAGAAATT
CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC
Found at i:355292 original size:164 final size:164
Alignment explanation
Indices: 355021--355643 Score: 905
Period size: 164 Copynumber: 3.9 Consensus size: 164
355011 GTGCAAAAAG
* * * * *
355021 TTAAGAAATTTATACTACGTGGATGAATTTTCGTATGAACACTTTATGTGTTAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATT
355086 CATACTAAGTGGATGAATTTTCGTATGGGCAC-TTATGTGTAAACTTAAGAAATTCATACTAAGT
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC-TAAGAAATTCATACTAAGT
* *
355150 GGATGAATTTTCGTATGGGCACTATATGTGTAAAC
130 GGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * *
355185 TTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATT
* *
355250 CATACTAATTGGATGAA-TTTCCTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAAC-TAAGAAATTCATACTAAGT
355314 GGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
130 GGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
355349 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGA-ACTTTATGTGTAAACTTAAGAAAT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTAT-GGACACTTTATGTGTAAACTTAAGAAAT
355413 TCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTG-----T----AA--CATACTAAGT
65 TCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTAAGAAATTCATACTAAGT
* *
355467 GGATGAATTTCCGTATGGACACTTTATGTGTGAAC
130 GGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * *
355502 TTAAGAAATTCATACTAAGTGGATGAATTTCCATATGGACACTTTGTGTGTGAACTTAAGAAATT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATT
* * * *
355567 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTGTGTGCAGAACTAAGAAATTCATAATGAGT
66 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTA-AACTAAGAAATTCATACTAAGT
**
355632 TTATGAATTTCC
130 GGATGAATTTCC
355644 ATATTGGTAG
Statistics
Matches: 418, Mismatches: 25, Indels: 31
0.88 0.05 0.07
Matches are distributed among these distances:
152 3 0.01
153 140 0.33
155 2 0.00
159 2 0.00
163 15 0.04
164 215 0.51
165 41 0.10
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (164 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATT
CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAAACTAAGAAATTCATACTAAGTG
GATGAATTTCCGTATGGGCACTTTATGTGTAAAC
Found at i:355475 original size:43 final size:43
Alignment explanation
Indices: 355414--355497 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
355404 TTAAGAAATT
* *
355414 CATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGTAA
1 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAA
355457 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGT
1 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGT
355498 GAACTTAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (43 bp):
CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAA
Found at i:355528 original size:98 final size:98
Alignment explanation
Indices: 355359--355552 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
355349 TTAAGAAATT
355359 CATACTAAGTGGATGAATTTCCGTATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
1 CATACTAAGTGGATGAATTTCCGTATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
* * *
355424 GGATGAATTTTCGTATGGGCACTTTATGTGTAA
66 GGATGAATTTCCATATGGACACTTTATGTGTAA
*
355457 CATACTAAGTGGATGAATTTCCGTAT-GGACACTTTATGTGTGAACTTAAGAAATTCATACTAAG
1 CATACTAAGTGGATGAATTTCCGTATGGGA-ACTTTATGTGTAAACTTAAGAAATTCATACTAAG
*
355521 TGGATGAATTTCCATATGGACACTTTGTGTGT
65 TGGATGAATTTCCATATGGACACTTTATGTGT
355553 GAACTTAAGA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 3 0.03
98 87 0.97
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (98 bp):
CATACTAAGTGGATGAATTTCCGTATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
GGATGAATTTCCATATGGACACTTTATGTGTAA
Found at i:355532 original size:208 final size:207
Alignment explanation
Indices: 355250--355625 Score: 628
Period size: 208 Copynumber: 1.8 Consensus size: 207
355240 TTAAGAAATT
* *
355250 CATACTAATTGGATGAATTTCCTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTG
1 CATACTAAGTGGATGAATTTCCTATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTG
* *
355315 GATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTC
66 GATGAATTTCCATATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTC
*
355380 CGTATGGGAACTTTATGTGTA-AACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGC
131 CGTATGGGAACTTTATGTGCAGAAC-TAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGC
355444 ACTTTATGTGTAA
195 ACTTTATGTGTAA
*
355457 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTGAACTTAAGAAATTCATACTAAGT
1 CATACTAAGTGGATGAATTTCC-TATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
* *
355522 GGATGAATTTCCATATGGACACTTTGTGTGTGAACTTAAGAAATTCATACTAAGTGGATGAATTT
65 GGATGAATTTCCATATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTT
* * *
355587 TCGTATGGGCACTTTGTGTGCAGAACTAAGAAATTCATA
130 CCGTATGGGAACTTTATGTGCAGAACTAAGAAATTCATA
355626 ATGAGTTTAT
Statistics
Matches: 156, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
207 21 0.13
208 132 0.85
209 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (207 bp):
CATACTAAGTGGATGAATTTCCTATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTG
GATGAATTTCCATATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTC
CGTATGGGAACTTTATGTGCAGAACTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCA
CTTTATGTGTAA
Found at i:355582 original size:153 final size:153
Alignment explanation
Indices: 355304--355606 Score: 536
Period size: 153 Copynumber: 2.0 Consensus size: 153
355294 TTAAGAAATT
*
355304 CATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
1 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
*
355369 GGATGAATTTCCGTATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTT
66 GGATGAATTTCCATATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTT
355434 TCGTATGGGCACTTTATGTGTAA
131 TCGTATGGGCACTTTATGTGTAA
*
355457 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTGAACTTAAGAAATTCATACTAAGT
1 CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
* *
355522 GGATGAATTTCCATAT-GGACACTTTGTGTGTGAACTTAAGAAATTCATACTAAGTGGATGAATT
66 GGATGAATTTCCATATGGGA-ACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATT
*
355586 TTCGTATGGGCACTTTGTGTG
130 TTCGTATGGGCACTTTATGTG
355607 CAGAACTAAG
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
152 3 0.02
153 140 0.98
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (153 bp):
CATACTAAGTGGATGAATTTCCGTATGGACACTTTATGTGTAAACTTAAGAAATTCATACTAAGT
GGATGAATTTCCATATGGGAACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTT
TCGTATGGGCACTTTATGTGTAA
Found at i:355902 original size:81 final size:81
Alignment explanation
Indices: 355796--356132 Score: 471
Period size: 81 Copynumber: 4.2 Consensus size: 81
355786 ACATATCTAA
* *
355796 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
355861 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
355877 AGTAAAACATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTTAATTATTCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
355942 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
355958 AGTAAAAGATTAATGGCCTAGCGGTGCATTTGGCATAAAGGTGTCAATTATGCCATTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
356023 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * * * *
356039 AGTAAAATATTAATGGCCTAACTGTGCATTTGGCA-AGAAGGTTTCAATCATGCAAGATAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGA-AAGGTGTCAATTATGCCAGTTAGATGA
* *
356103 AAGGCTAAATGCCTTT-
65 AAGGTTAAATACCTTTG
356119 AGGTAAAAGATTAA
1 A-GTAAAAGATTAA
356133 ATGTTTAACA
Statistics
Matches: 231, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
80 2 0.01
81 229 0.99
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:357553 original size:24 final size:24
Alignment explanation
Indices: 357522--357574 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
357512 TCAACGGATC
357522 CATC-TGACGTGGCATGCACAAAT
1 CATCATGACGTGGCATGCACAAAT
*
357545 CATCATGACGTGGTATGCACAAAT
1 CATCATGACGTGGCATGCACAAAT
357569 CATCAT
1 CATCAT
357575 AGATGATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
CATCATGACGTGGCATGCACAAAT
Found at i:358215 original size:38 final size:37
Alignment explanation
Indices: 358153--358237 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 37
358143 TCTTATTGTC
* * *
358153 TGAAACAACAGCTTTGTACAGTCATAGCACAAGCCTGTA
1 TGAAACAA-AGCTTTGTACAGTCATAGAAC-ACCCGGTA
*
358192 TGAAACAAAGCTTT-TCACGGTCATAGAACACCCGGTA
1 TGAAACAAAGCTTTGT-ACAGTCATAGAACACCCGGTA
358229 TGAAACAAA
1 TGAAACAAA
358238 CTAAACTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.39
38 17 0.41
39 8 0.20
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (37 bp):
TGAAACAAAGCTTTGTACAGTCATAGAACACCCGGTA
Found at i:360162 original size:10 final size:11
Alignment explanation
Indices: 360137--360164 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
360127 TAATTATTTA
360137 AAAAATTAAAT
1 AAAAATTAAAT
360148 AAAAATTAAAT
1 AAAAATTAAAT
360159 AAAAAT
1 AAAAAT
360165 ACCAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:360180 original size:21 final size:20
Alignment explanation
Indices: 360148--360186 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
360138 AAAATTAAAT
360148 AAAAATTAAATAAAAATACC
1 AAAAATTAAATAAAAATACC
*
360168 AAAATATTTAATAAAAATA
1 AAAA-ATTAAATAAAAATA
360187 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATTAAATAAAAATACC
Found at i:360563 original size:22 final size:22
Alignment explanation
Indices: 360536--360579 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
360526 GATGGAGATA
360536 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
360558 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
360580 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Done.