Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 64
Found at i:4944980 original size:3 final size:3
Alignment explanation
Indices: 4944972--4945015 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4944962 TGAGGCAATG
4944972 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4945016 GCAAGAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4945526 original size:30 final size:31
Alignment explanation
Indices: 4945487--4945557 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
4945477 ATATAATTTA
*
4945487 TATCGCATAAACATATCA-TTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
*
4945517 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATATCATTTTCCATACCTT
4945548 TATCACATAA
1 TATCACATAA
4945558 TTCATATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 16 0.42
31 22 0.58
ACGTcount: A:0.35, C:0.25, G:0.01, T:0.38
Consensus pattern (31 bp):
TATCACATAAACATATCATTTTCCATACCTT
Found at i:4945913 original size:24 final size:22
Alignment explanation
Indices: 4945863--4945920 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 22
4945853 AATAAGGGTA
4945863 TGCATCGATGCACTCTACAGTG
1 TGCATCGATGCACTCTACAGTG
4945885 T--ATCGATGCACTCCTTA-ATGTG
1 TGCATCGATGCACT-C-TACA-GTG
*
4945907 TGCATCGATACACT
1 TGCATCGATGCACT
4945921 ACCTGTGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 11 0.37
21 2 0.07
22 7 0.23
24 10 0.33
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (22 bp):
TGCATCGATGCACTCTACAGTG
Found at i:4953307 original size:27 final size:27
Alignment explanation
Indices: 4953269--4953330 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
4953259 CTGAGTCAAC
* *
4953269 CCATTAACTTTGACCCGTTGACATTGA
1 CCATTGACTTTGACCCATTGACATTGA
* *
4953296 CCATTGACTTTGACCTATTGACTTTGA
1 CCATTGACTTTGACCCATTGACATTGA
4953323 CCATTGAC
1 CCATTGAC
4953331 CATCCGAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
CCATTGACTTTGACCCATTGACATTGA
Found at i:4953308 original size:13 final size:13
Alignment explanation
Indices: 4953269--4953330 Score: 79
Period size: 14 Copynumber: 4.6 Consensus size: 13
4953259 CTGAGTCAAC
*
4953269 CCATTAACTTTGA
1 CCATTGACTTTGA
* *
4953282 CCCGTTGACATTGA
1 -CCATTGACTTTGA
4953296 CCATTGACTTTGA
1 CCATTGACTTTGA
4953309 CCTATTGACTTTGA
1 CC-ATTGACTTTGA
4953323 CCATTGAC
1 CCATTGAC
4953331 CATCCGAGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
13 19 0.45
14 23 0.55
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (13 bp):
CCATTGACTTTGA
Found at i:4956770 original size:3 final size:3
Alignment explanation
Indices: 4956757--4957153 Score: 93
Period size: 3 Copynumber: 133.7 Consensus size: 3
4956747 GTTACAATAC
* * * * * * * *
4956757 TAT TA- TAT TAT TAT TAG TAT TAT CAC TAT TAA TAT TAT TAC TAG CAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4956804 TAT TAT TAA TAT TA- TAT TAG TAT TAT TAT TAT TA- TAC TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * ** * *
4956850 TAT CAC TAT TAA TAT TA- TGT TAT TA- TAT TGC TAT TAT TAA TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
4956896 ATAT TAA TAA TAT TAA TA- TAC TAT TAT GAT TAT TA- CAA CAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * ** * * * *
4956940 TAC TAC TAT TAA CGT GTAC TAT TAT TAT TAA TAT TAT TAA TA- TAC
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
4956985 TAT TAT TAT TAT TA- CAC TAC TAT TGT TAT TA- TAT TGT TAT TAC TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * * *
4957030 CAC TAC TAC TAC TAT TAT TAT TAAT AAT AACG TAG TAT TA- TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT
* * *
4957076 TAT TAA TAT TAC TAT TCAT TAAG TAT TAT TATT TAT TAT TAT TAGT TA-
1 TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TA-T TAT TAT TAT TA-T TAT
*
4957124 TAT GTAT TAT TA- TATT TAC TAT TAT TAT TA
1 TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TA
4957154 AACAAAACAC
Statistics
Matches: 285, Mismatches: 86, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
2 24 0.08
3 240 0.84
4 21 0.07
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (3 bp):
TAT
Found at i:4956830 original size:14 final size:13
Alignment explanation
Indices: 4956813--4956930 Score: 69
Period size: 14 Copynumber: 8.4 Consensus size: 13
4956803 CTATTATTAA
4956813 TATTATATTAGTAT
1 TATTATATTA-TAT
*
4956827 TATTATTATTATAC
1 TATTA-TATTATAT
*
4956841 TATTAGTATTATCAC
1 TATTA-TATTAT-AT
*
4956856 TATTAATATTATGT
1 TATT-ATATTATAT
*
4956870 TATTATATTGCTAT
1 TATTATATT-ATAT
*
4956884 TATTAATATAATA-
1 TATT-ATATTATAT
*
4956897 TATTA-ATAATAT
1 TATTATATTATAT
4956909 TAATATACTATTATGAT
1 T-AT-TA-TATTAT-AT
4956926 TATTA
1 TATTA
4956931 CAACATTATT
Statistics
Matches: 84, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
11 6 0.07
12 2 0.02
13 11 0.13
14 32 0.38
15 23 0.27
16 7 0.08
17 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:4956994 original size:20 final size:20
Alignment explanation
Indices: 4956965--4957016 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
4956955 GTACTATTAT
*
4956965 TATTAATATTATTA-ATATAC
1 TATTATTATTATTACA-ATAC
*
4956985 TATTATTATTATTACACTAC
1 TATTATTATTATTACAATAC
*
4957005 TATTGTTATTAT
1 TATTATTATTAT
4957017 ATTGTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTATTATTATTACAATAC
Found at i:4957003 original size:17 final size:17
Alignment explanation
Indices: 4956971--4957015 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4956961 TTATTATTAA
* * *
4956971 TATTATTAATATACTAT
1 TATTATTATTACACTAC
4956988 TATTATTATTACACTAC
1 TATTATTATTACACTAC
*
4957005 TATTGTTATTA
1 TATTATTATTA
4957016 TATTGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (17 bp):
TATTATTATTACACTAC
Found at i:4957046 original size:31 final size:31
Alignment explanation
Indices: 4956985--4957052 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
4956975 ATTAATATAC
* * **
4956985 TATTATTATTATTACACTACTATTGTTATTA
1 TATTATTATTACTACACTACTACTACTATTA
*
4957016 TATTGTTATTACTACACTACTACTACTATTA
1 TATTATTATTACTACACTACTACTACTATTA
4957047 TTATTA
1 -TATTA
4957053 ATAATAACGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.51
Consensus pattern (31 bp):
TATTATTATTACTACACTACTACTACTATTA
Found at i:4957102 original size:17 final size:16
Alignment explanation
Indices: 4957077--4957119 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
4957067 TTATATTGTT
4957077 ATTAATATTACTATTC
1 ATTAATATTACTATTC
* *
4957093 ATTAAGTATTATTATTT
1 ATTAA-TATTACTATTC
*
4957110 ATTATTATTA
1 ATTAATATTA
4957120 GTTATATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (16 bp):
ATTAATATTACTATTC
Found at i:4962474 original size:26 final size:27
Alignment explanation
Indices: 4962422--4962479 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
4962412 TAATTCTTTC
*
4962422 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
4962450 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
4962476 TTTT
1 TTTT
4962480 ATTTTCAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:4964102 original size:27 final size:26
Alignment explanation
Indices: 4964071--4964130 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
4964061 CATTCACATA
4964071 TTTACATTTGCATTAACATTTGCATTT
1 TTTACATTTGCATTAACATTTGCA-TT
* * * *
4964098 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGCATTAACATTTGCATT
4964124 TTTACAT
1 TTTACAT
4964131 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (26 bp):
TTTACATTTGCATTAACATTTGCATT
Found at i:4965725 original size:2 final size:2
Alignment explanation
Indices: 4965714--4965773 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
4965704 ATTCTTTTAA
4965714 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4965755 -T AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
4965774 ATCCTTGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.05
2 52 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4967394 original size:203 final size:204
Alignment explanation
Indices: 4967045--4967453 Score: 811
Period size: 203 Copynumber: 2.0 Consensus size: 204
4967035 CAATTGTTGC
4967045 TTATTCTACCTCTGTTGTAGAAAAAGAATGAACGAGGCTAGAATAATGAAGCACTTCACATTTTT
1 TTATTCTACCTCTGTTGTAGAAAAAGAATGAACGAGGCTAGAATAATGAAGCACTTCACATTTTT
4967110 GAAGGCAAGTGGTCCAAGAAGCCAGAAAGTCTGGAGAATTGAACTTGTGACACTCTCCTATGACA
66 GAAGGCAAGTGGTCCAAGAAGCCAGAAAGTCTGGAGAATTGAACTTGTGACACTCTCCTATGACA
4967175 TTATTAGCAGTTTATCAAGAAAGATTATCG-TTATCTCATGCTGAGGTCGATAAGCATCACCAGA
131 TTATTAGCAGTTTATCAAGAAAGATTATCGTTTATCTCATGCTGAGGTCGATAAGCATCACCAGA
4967239 AAAATTATT
196 AAAATTATT
4967248 TTATTCTACCTCTGTTGTAGAAAAAGAATGAACGAGGCTAGAATAATGAAGCACTTCACATTTTT
1 TTATTCTACCTCTGTTGTAGAAAAAGAATGAACGAGGCTAGAATAATGAAGCACTTCACATTTTT
4967313 GAAGGCAAGTGGTCCAAGAAGCCAGAAAGTCTGGAGAATTGAACTTGTGACACTCTCCTATGACA
66 GAAGGCAAGTGGTCCAAGAAGCCAGAAAGTCTGGAGAATTGAACTTGTGACACTCTCCTATGACA
4967378 TTATTAGCAGTTTATCAAGAAAGATTATCGTTTATCTCATGCTGAGGTCGATAAGCATCACCAGA
131 TTATTAGCAGTTTATCAAGAAAGATTATCGTTTATCTCATGCTGAGGTCGATAAGCATCACCAGA
4967443 AAAATTATT
196 AAAATTATT
4967452 TT
1 TT
4967454 CCCCATCCAT
Statistics
Matches: 205, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
203 160 0.78
204 45 0.22
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (204 bp):
TTATTCTACCTCTGTTGTAGAAAAAGAATGAACGAGGCTAGAATAATGAAGCACTTCACATTTTT
GAAGGCAAGTGGTCCAAGAAGCCAGAAAGTCTGGAGAATTGAACTTGTGACACTCTCCTATGACA
TTATTAGCAGTTTATCAAGAAAGATTATCGTTTATCTCATGCTGAGGTCGATAAGCATCACCAGA
AAAATTATT
Found at i:4970874 original size:22 final size:22
Alignment explanation
Indices: 4970849--4970922 Score: 134
Period size: 21 Copynumber: 3.5 Consensus size: 22
4970839 ATCTACACTC
4970849 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
4970871 TCAAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
4970893 T-AAAGATGATAGATTCTCTTT
1 TCAAAGATGATAGATTCTCTTT
4970914 TC-AAGATGA
1 TCAAAGATGA
4970923 AATATTTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
21 28 0.55
22 23 0.45
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (22 bp):
TCAAAGATGATAGATTCTCTTT
Found at i:4971926 original size:148 final size:151
Alignment explanation
Indices: 4971578--4972423 Score: 1352
Period size: 148 Copynumber: 5.7 Consensus size: 151
4971568 CTATTTCCCA
* *
4971578 CATCTGTAAGTCCTAGAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCGTTTGATGTTTTC-AA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
* * *
4971642 GCCTTAGGGTCATCTGTAAGTCCTACAATGCATAATGTTTCCAAAAAG-C-TC-GGAG-ATTTTG
66 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
4971703 ATGTTTTCAAAGCCTTAGGGT
131 ATGTTTTCAAAGCCTTAGGGT
* *
4971724 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
4971789 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
4971854 GATG-TTTCCAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
* * *
4971875 CATCTGTAAGTCCTGCAGTGCATGATG-TTCC-AAAAGCCTTCGAGAGCTTTTGATGTTTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4971938 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGC-TTTT
66 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTT
4972002 GATGTTTTCAAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
4972024 CATCTGTAAGTCCTACAGTGCATGATG-TTCCAAAATA-CCTTCGGGAGCTTTTGA-GTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA-AGCCTTCGGGAGCTTTTGATGTTTTCAA
4972086 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGA-GTTTCCAAAAAGCCTTCGGGAGCTTTTT
65 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
4972150 GATGTTTTCAAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
*
4972172 CATCTGT-AGTCCTATAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4972235 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCC-TCGGGAG-TGTTTT
66 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT-TTTT
*
4972298 G-T-ATTTCAAAGCCTTAGGGT
130 GATGTTTTCAAAGCCTTAGGGT
* *
4972318 CATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAAGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
* * *
4972383 AGCCTTAAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
65 AGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
4972424 TCAACATTTC
Statistics
Matches: 658, Mismatches: 23, Indels: 35
0.92 0.03 0.05
Matches are distributed among these distances:
146 70 0.11
147 92 0.14
148 228 0.35
149 187 0.28
150 25 0.04
151 48 0.07
152 8 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (151 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG
ATGTTTTCAAAGCCTTAGGGT
Found at i:4971952 original size:73 final size:75
Alignment explanation
Indices: 4971578--4972423 Score: 1348
Period size: 73 Copynumber: 11.4 Consensus size: 75
4971568 CTATTTCCCA
* *
4971578 CATCTGTAAGTCCTAGAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCGTTTGATGTTTTC-AA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4971642 GCCTTAGGGT
66 GCCTTAGGGT
* * *
4971652 CATCTGTAAGTCCTACAATGCATAATGTTTCCAAAAAG-C-TC-GGAGATTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4971714 GCCTTAGGGT
66 GCCTTAGGGT
* *
4971724 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
4971789 AGCCTTAGGGT
65 AGCCTTAGGGT
*
4971800 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
4971864 AGCCTTAGGGT
65 AGCCTTAGGGT
* * *
4971875 CATCTGTAAGTCCTGCAGTGCATGATG-TTCC-AAAAGCCTTCGAGAGCTTTTGATGTTTTTAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4971938 GCCTTAGGGT
66 GCCTTAGGGT
4971948 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTGATGTTTTCAA
4972013 AGCCTTAGGGT
65 AGCCTTAGGGT
4972024 CATCTGTAAGTCCTACAGTGCATGATG-TTCCAAAATA-CCTTCGGGAGCTTTTGA-GTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA-AGCCTTCGGGAGCTTTTGATGTTTTCAA
4972086 AGCCTTAGGGT
65 AGCCTTAGGGT
4972097 CATCTGTAAGTCCTACAGTGCATGA-GTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
4972161 AGCCTTAGGGT
65 AGCCTTAGGGT
*
4972172 CATCTGT-AGTCCTATAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
4972235 GCCTTAGGGT
66 GCCTTAGGGT
4972245 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCC-TCGGGAG-TGTTT--TGTATTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCT-TTTGATGT-TTTCA
4972306 AAGCCTTAGGGT
64 AAGCCTTAGGGT
* *
4972318 CATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAAGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
*
4972383 AGCCTTAAGGT
65 AGCCTTAGGGT
* *
4972394 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
4972424 TCAACATTTC
Statistics
Matches: 721, Mismatches: 27, Indels: 46
0.91 0.03 0.06
Matches are distributed among these distances:
71 16 0.02
72 62 0.09
73 211 0.29
74 144 0.20
75 93 0.13
76 193 0.27
77 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (75 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAA
GCCTTAGGGT
Found at i:4972112 original size:297 final size:297
Alignment explanation
Indices: 4971578--4972423 Score: 1365
Period size: 297 Copynumber: 2.8 Consensus size: 297
4971568 CTATTTCCCA
* *
4971578 CATCTGTAAGTCCTAGAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCGTTTGATG-TTTTCAA
1 CATCTGTAAGTCCT-GAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTGATGTTTTTAAA
* *
4971642 GCCTTAGGGTCATCTGTAAGTCCTACAATGCATAATGTTTCCAAAAAG-CTC-GGAGATTTTGAT
64 GCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTCGGGAG-TTTTGAT
* *
4971705 GTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGTCTTCGGG
128 GTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
4971770 AGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
193 AGCTTTTTGA-GTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
*
4971835 AAGCCTTCGGGAGCTTTTTGATG-TTTCCAAGCCTTAGGGT
257 AAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
4971875 CATCTGTAAGTCCTGCAGTGCATGATG-TTCCAAAAGCCTTCGAGAGCTTTTGATGTTTTTAAAG
1 CATCTGTAAGTCCTG-AGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTGATGTTTTTAAAG
4971939 CCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTGA
65 CCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAAGCC-TCGGGAG-TTTTGA
4972004 TGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATG-TTCCAAAATA-CCTTCG
127 TGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAA-AGCCTTCG
4972067 GGAGC-TTTTGAGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGA-GTTTCCAA
191 GGAGCTTTTTGAGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAA
4972130 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
256 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
4972172 CATCTGT-AGTCCTATAGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTGATGTTTTCAAAG
1 CATCTGTAAGTCCT-GAGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTGATGTTTTTAAAG
4972236 CCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTCGGGAGTGTTT--TG
65 CCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTCGGGAGT-TTTGATG
*
4972299 TATTTCAAAGCCTTAGGGTCATATGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
129 T-TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGG
* * *
4972364 AGCTTTTTGAAGTTTTCAAAGCCTTAAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
193 AGCTTTTTG-AGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTT
4972424 TCAACATTTC
Statistics
Matches: 516, Mismatches: 16, Indels: 33
0.91 0.03 0.06
Matches are distributed among these distances:
293 3 0.01
294 45 0.09
295 51 0.10
296 113 0.22
297 216 0.42
298 11 0.02
299 20 0.04
300 57 0.11
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (297 bp):
CATCTGTAAGTCCTGAGTGCATGATGTTTCCAAAAGCCTTCGGGAGCTTTTGATGTTTTTAAAGC
CTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTCGGGAGTTTTGATGTT
TTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC
TTTTTGAGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGC
CTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:4972557 original size:3 final size:3
Alignment explanation
Indices: 4972551--4972606 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
4972541 TTTTGTTTTT
** *
4972551 TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA GTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
4972596 TTA TTA TTA TT
1 TTA TTA TTA TT
4972607 TAATAAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4973998 original size:15 final size:15
Alignment explanation
Indices: 4973978--4974007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4973968 GGAGCTTTTA
4973978 ATTTTAATAATTGAT
1 ATTTTAATAATTGAT
*
4973993 ATTTTAATCATTGAT
1 ATTTTAATAATTGAT
4974008 TAATAATTAA
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:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAATAATTGAT
Found at i:4974139 original size:4 final size:4
Alignment explanation
Indices: 4974130--4974170 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
4974120 AAATTAGTAT
*
4974130 TTTA TTTA TTTA TTCA TTTA TTTA -TTA TTTA TATT- TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TT
4974171 CACTAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.16
4 25 0.78
5 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:4974334 original size:2 final size:2
Alignment explanation
Indices: 4974327--4974357 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4974317 TTTTATAAAT
4974327 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 T
4974358 TAAATGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4974526 original size:146 final size:146
Alignment explanation
Indices: 4974230--4974600 Score: 418
Period size: 144 Copynumber: 2.6 Consensus size: 146
4974220 ATAACAATGT
* * *
4974230 TTATTTATTTTTAAATATTAAGAAAGGGCAGTGTTAAAGCAACTGGATGTCCATTTTCTGATATT
1 TTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTCTGATATT
* * * **
4974295 TTTAATTAAATAAACATCTTATTTTTATAAATTATATATATATATATATATATATATATATATTA
66 TTTAAATAAATAAATATCCTATTTTTATAAATTATATATATATATATATATATATATATATAAAA
*
4974360 AATGGTTTATTAATAT
131 AATGGTTTATTAATAA
*
4974376 TTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAACAACTGGATGTTCA-TTTCTGATATT
1 TTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTCTGATATT
* * *
4974440 TTTAAATAAATAAATATCCTATTTTTA-AAATTATATAT-TA-ATCTAT-TAATATTATTTTTAG
66 TTTAAATAAATAAATATCCTATTTTTATAAATTATATATATATATATATAT-ATA-TATATATA-
4974501 AAAAAT-G-TT-TTAATTAA
128 AAAAATGGTTTATTAA-TAA
* * * * * * * * *
4974518 TTAATTATTTTTTTATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAG-TCATTTTCTGATA
1 TTATTTATTTTTTAATAT-TAAG-AAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTCTGATA
*
4974582 TTTCTAAATAAATAAATAT
64 TTTTTAAATAAATAAATAT
4974601 TTTATTTATA
Statistics
Matches: 194, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
141 5 0.03
142 28 0.14
143 15 0.08
144 62 0.32
145 35 0.18
146 49 0.25
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (146 bp):
TTATTTATTTTTTAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTCTGATATT
TTTAAATAAATAAATATCCTATTTTTATAAATTATATATATATATATATATATATATATATAAAA
AATGGTTTATTAATAA
Found at i:4974632 original size:18 final size:17
Alignment explanation
Indices: 4974607--4974645 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
4974597 ATATTTTATT
4974607 TATATTTTATATATAAA
1 TATATTTTATATATAAA
* *
4974624 TATATTTTTTTATATAAT
1 TATA-TTTTATATATAAA
4974642 TATA
1 TATA
4974646 ACTTTGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTTATATATAAA
Found at i:4974645 original size:26 final size:26
Alignment explanation
Indices: 4974593--4974645 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
4974583 TTCTAAATAA
**
4974593 ATAAATATTTTATTTATATTTTATAT
1 ATAAATATTTTATTTATATAATATAT
*
4974619 ATAAATATATTTTTTTATATAAT-TAT
1 ATAAATAT-TTTATTTATATAATATAT
4974645 A
1 A
4974646 ACTTTGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATAAATATTTTATTTATATAATATAT
Found at i:4976660 original size:17 final size:18
Alignment explanation
Indices: 4976618--4976661 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
4976608 TTTTGTTAGT
4976618 TGATTGCATGTTAAATAA
1 TGATTGCATGTTAAATAA
*
4976636 TAATTGCATAG-TAAAT-A
1 TGATTGCAT-GTTAAATAA
4976653 TGATTGCAT
1 TGATTGCAT
4976662 TGCATGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.39
18 13 0.57
19 1 0.04
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (18 bp):
TGATTGCATGTTAAATAA
Found at i:4977783 original size:30 final size:30
Alignment explanation
Indices: 4977744--4977817 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
4977734 AGTGTTGCAC
*
4977744 GTGTCCTTACACACAACAATGTTATACTAA
1 GTGTCCTTACACACAACAATATTATACTAA
* * * * *
4977774 GTTTCCTTACACACTATAGTATTGTACTAA
1 GTGTCCTTACACACAACAATATTATACTAA
4977804 GTGTCCTTACACAC
1 GTGTCCTTACACAC
4977818 CATAGTACCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (30 bp):
GTGTCCTTACACACAACAATATTATACTAA
Found at i:4977823 original size:30 final size:30
Alignment explanation
Indices: 4977711--4977890 Score: 132
Period size: 34 Copynumber: 5.8 Consensus size: 30
4977701 TTACCATATA
* * *
4977711 CACTGAGTGTCCTTACACACCACAGTGTTG
1 CACTAAGTGTCCTTACACACCATAGTATTG
* * * * *
4977741 CAC---GTGTCCTTACACACAACAATGTTA
1 CACTAAGTGTCCTTACACACCATAGTATTG
* * *
4977768 TACTAAGTTTCCTTACACACTATAGTATTG
1 CACTAAGTGTCCTTACACACCATAGTATTG
*
4977798 TACTAAGTGTCCTTACACACCATAGTACCATATG
1 CACTAAGTGTCCTTACACACCATAGT---AT-TG
*
4977832 CATTAAGTGTCCTTACACACCATAGTACCATATG
1 CACTAAGTGTCCTTACACACCATAGT---AT-TG
* *
4977866 CATTAAGTGTCCTTACACACTATAG
1 CACTAAGTGTCCTTACACACCATAG
4977891 AGCTAATCCA
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
27 23 0.18
30 45 0.35
33 2 0.02
34 58 0.45
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (30 bp):
CACTAAGTGTCCTTACACACCATAGTATTG
Found at i:4977844 original size:34 final size:34
Alignment explanation
Indices: 4977801--4977890 Score: 171
Period size: 34 Copynumber: 2.6 Consensus size: 34
4977791 AGTATTGTAC
4977801 TAAGTGTCCTTACACACCATAGTACCATATGCAT
1 TAAGTGTCCTTACACACCATAGTACCATATGCAT
4977835 TAAGTGTCCTTACACACCATAGTACCATATGCAT
1 TAAGTGTCCTTACACACCATAGTACCATATGCAT
*
4977869 TAAGTGTCCTTACACACTATAG
1 TAAGTGTCCTTACACACCATAG
4977891 AGCTAATCCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (34 bp):
TAAGTGTCCTTACACACCATAGTACCATATGCAT
Found at i:4977965 original size:34 final size:34
Alignment explanation
Indices: 4977927--4977994 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
4977917 ATTCTATGGC
4977927 ATGCCAATTACACCCTGTCCTTCAATGACTTACT
1 ATGCCAATTACACCCTGTCCTTCAATGACTTACT
4977961 ATGCCAATTACACCCTGTCCTTCAATGACTTACT
1 ATGCCAATTACACCCTGTCCTTCAATGACTTACT
4977995 TGGACATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.32
Consensus pattern (34 bp):
ATGCCAATTACACCCTGTCCTTCAATGACTTACT
Found at i:4978438 original size:19 final size:19
Alignment explanation
Indices: 4978397--4978439 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
4978387 AGATTAGAGA
*
4978397 TCAGAATAGAAACCAGAGG
1 TCAGAATAGAAACCAAAGG
* * *
4978416 TCAGAATAGATATCAAAGT
1 TCAGAATAGAAACCAAAGG
4978435 TCAGA
1 TCAGA
4978440 GCAAAAATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (19 bp):
TCAGAATAGAAACCAAAGG
Found at i:4982320 original size:15 final size:16
Alignment explanation
Indices: 4982280--4982320 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
4982270 TATCTCTTTA
4982280 TTTTC-TTTTTCTTAT
1 TTTTCTTTTTTCTTAT
*
4982295 TTTTCTATTTTC-TAT
1 TTTTCTTTTTTCTTAT
4982310 TTTTCTTTTTT
1 TTTTCTTTTTT
4982321 TCTTTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTTCTTAT
Found at i:4982325 original size:8 final size:8
Alignment explanation
Indices: 4982239--4982325 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 8
4982229 CTTAAACCCC
*
4982239 TTTCTTTA
1 TTTCTTTT
*
4982247 TTTATTCTT
1 TTTCTT-TT
*
4982256 TTTCTCTT
1 TTTCTTTT
* *
4982264 TCTCTTTA
1 TTTCTTTT
*
4982272 TCTCTTTAT
1 TTTCTTT-T
4982281 TTTC--TT
1 TTTCTTTT
4982287 TTTCTTATT
1 TTTCTT-TT
*
4982296 TTTC-TAT
1 TTTCTTTT
*
4982303 TTTCTATT
1 TTTCTTTT
4982311 TTTCTTTT
1 TTTCTTTT
4982319 TTTCTTT
1 TTTCTTT
4982326 AATATTTTAT
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
6 5 0.08
7 6 0.10
8 35 0.58
9 14 0.23
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTCTTTT
Found at i:4983622 original size:14 final size:14
Alignment explanation
Indices: 4983603--4983631 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4983593 TATTATCAAA
4983603 TTCTATACGTGCCC
1 TTCTATACGTGCCC
4983617 TTCTATACGTGCCC
1 TTCTATACGTGCCC
4983631 T
1 T
4983632 CCTCCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.34, G:0.14, T:0.38
Consensus pattern (14 bp):
TTCTATACGTGCCC
Found at i:4986221 original size:37 final size:37
Alignment explanation
Indices: 4986180--4986266 Score: 156
Period size: 37 Copynumber: 2.4 Consensus size: 37
4986170 TTGTTATTCA
4986180 GTATGTAACTCTATTTTATTAATAGAATTTTCACTCC
1 GTATGTAACTCTATTTTATTAATAGAATTTTCACTCC
* *
4986217 GTATGTAACTCTATTTTATTAATAGAATTTTCATTCT
1 GTATGTAACTCTATTTTATTAATAGAATTTTCACTCC
4986254 GTATGTAACTCTA
1 GTATGTAACTCTA
4986267 AACCATGAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (37 bp):
GTATGTAACTCTATTTTATTAATAGAATTTTCACTCC
Found at i:4986366 original size:13 final size:12
Alignment explanation
Indices: 4986352--4986397 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
4986342 ACTTGAATCT
*
4986352 CAAACCCCAACC
1 CAAACCCAAACC
4986364 TCAAACCTCAAACC
1 -CAAACC-CAAACC
4986378 CAAACCCAAACC
1 CAAACCCAAACC
4986390 CTAAACCC
1 C-AAACCC
4986398 CAAATCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 7 0.23
13 18 0.60
14 5 0.17
ACGTcount: A:0.43, C:0.50, G:0.00, T:0.07
Consensus pattern (12 bp):
CAAACCCAAACC
Found at i:4986375 original size:20 final size:19
Alignment explanation
Indices: 4986350--4986400 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
4986340 AAACTTGAAT
4986350 CTCAAACCCCAACCTCAAAC
1 CTCAAACCCCAACC-CAAAC
*
4986370 CTCAAACCCAAACCCAAAC
1 CTCAAACCCCAACCCAAAC
4986389 C-CTAAACCCCAA
1 CTC-AAACCCCAA
4986401 ATCCATAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.50
20 13 0.46
ACGTcount: A:0.43, C:0.49, G:0.00, T:0.08
Consensus pattern (19 bp):
CTCAAACCCCAACCCAAAC
Found at i:4986381 original size:6 final size:6
Alignment explanation
Indices: 4986352--4986397 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
4986342 ACTTGAATCT
*
4986352 CAAACC CCAACC TCAAACC TCAAACC CAAACC CAAACC CTAAACC C
1 CAAACC CAAACC -CAAACC -CAAACC CAAACC CAAACC C-AAACC C
4986398 CAAATCCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 18 0.50
7 18 0.50
ACGTcount: A:0.43, C:0.50, G:0.00, T:0.07
Consensus pattern (6 bp):
CAAACC
Found at i:4986401 original size:20 final size:19
Alignment explanation
Indices: 4986353--4986414 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
4986343 CTTGAATCTC
4986353 AAACCCC-AACCTCAAACCT
1 AAACCCCAAACC-CAAACCT
4986372 CAAA-CCCAAACCCAAACCCT
1 -AAACCCCAAACCCAAA-CCT
*
4986392 AAACCCCAAATCCATAACCT
1 AAACCCCAAACCCA-AACCT
4986412 AAA
1 AAA
4986415 ACTTGAAATC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 10 0.27
20 25 0.68
21 2 0.05
ACGTcount: A:0.47, C:0.44, G:0.00, T:0.10
Consensus pattern (19 bp):
AAACCCCAAACCCAAACCT
Found at i:4986462 original size:34 final size:35
Alignment explanation
Indices: 4986385--4986462 Score: 99
Period size: 34 Copynumber: 2.3 Consensus size: 35
4986375 ACCCAAACCC
*
4986385 AAACCCTAAACCCCAAATCCATAACCTAAAACTTG
1 AAACCCTAAACCCCAAATCCATAACATAAAACTTG
* *
4986420 AAA-TCTAAACCCCAAATCCA-AA-ATAAGAACTTT
1 AAACCCTAAACCCCAAATCCATAACATAA-AACTTG
4986453 AAACCCTAAA
1 AAACCCTAAA
4986463 ACCTAAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 10 0.27
34 21 0.57
35 3 0.08
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.18
Consensus pattern (35 bp):
AAACCCTAAACCCCAAATCCATAACATAAAACTTG
Found at i:4987082 original size:25 final size:25
Alignment explanation
Indices: 4987048--4987145 Score: 142
Period size: 25 Copynumber: 3.9 Consensus size: 25
4987038 AGGCACTTTC
4987048 ATCTCAAATTAATCAAAAAATAATA
1 ATCTCAAATTAATCAAAAAATAATA
*
4987073 ATCTCAAATTAACCAAAAAATAATA
1 ATCTCAAATTAATCAAAAAATAATA
* *
4987098 ATCTCAAAATAAACAAAAAATAATA
1 ATCTCAAATTAATCAAAAAATAATA
* * *
4987123 ATTTCAATTTAATAAAAAAATAA
1 ATCTCAAATTAATCAAAAAATAA
4987146 ATTTTTATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (25 bp):
ATCTCAAATTAATCAAAAAATAATA
Found at i:4988236 original size:14 final size:14
Alignment explanation
Indices: 4988197--4988245 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
4988187 CAATTTATTA
*
4988197 TTTATTATTTAATG
1 TTTATTATTTAGTG
*
4988211 ATTA-TAGTTTAGTG
1 TTTATTA-TTTAGTG
*
4988225 TTTATTATTTAGAG
1 TTTATTATTTAGTG
4988239 TTTATTA
1 TTTATTA
4988246 GTTGAGTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (14 bp):
TTTATTATTTAGTG
Found at i:4988547 original size:3 final size:3
Alignment explanation
Indices: 4988539--4988586 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
4988529 TTTTTACAAA
* * *
4988539 TAT TAT TAT TATT TATT TAT TAT TAT TAT TAT TGT TGT TAT TGT TAT
1 TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4988586 T
1 T
4988587 GTTGTTGATG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 33 0.82
4 7 0.17
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:4988598 original size:15 final size:15
Alignment explanation
Indices: 4988561--4988592 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4988551 TTATTTATTA
*
4988561 TTATTATTATTGTTG
1 TTATTGTTATTGTTG
4988576 TTATTGTTATTGTTG
1 TTATTGTTATTGTTG
4988591 TT
1 TT
4988593 GATGTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.69
Consensus pattern (15 bp):
TTATTGTTATTGTTG
Found at i:4989450 original size:18 final size:18
Alignment explanation
Indices: 4989427--4989466 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4989417 CAGACCCTCA
4989427 TCGGCCCTCCGTCGCAAG
1 TCGGCCCTCCGTCGCAAG
4989445 TCGGCCCTCCGTCGCAAG
1 TCGGCCCTCCGTCGCAAG
4989463 -CGGC
1 TCGGC
4989467 TTAAAGGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.10, C:0.45, G:0.30, T:0.15
Consensus pattern (18 bp):
TCGGCCCTCCGTCGCAAG
Found at i:4997662 original size:45 final size:45
Alignment explanation
Indices: 4997598--4997689 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
4997588 TGTGAGACTG
4997598 AATTAAGGAGTAATACTTTACAAAAAAATTTGTTCTTTGATTTTT
1 AATTAAGGAGTAATACTTTACAAAAAAATTTGTTCTTTGATTTTT
4997643 AATTAAGGAGTAATACTTTACAAAAAAATTTGTTCTTTGATTTTT
1 AATTAAGGAGTAATACTTTACAAAAAAATTTGTTCTTTGATTTTT
4997688 AA
1 AA
4997690 AATAAAAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (45 bp):
AATTAAGGAGTAATACTTTACAAAAAAATTTGTTCTTTGATTTTT
Found at i:4999181 original size:233 final size:233
Alignment explanation
Indices: 4998747--4999269 Score: 665
Period size: 233 Copynumber: 2.2 Consensus size: 233
4998737 ACTTAGTAAA
* * ** *
4998747 TCCTTC-GGTCCATCAATAAGTTTTTATAGCATGATGCTTAAATCCTTTGGGTCATCTGTAAGTC
1 TCCTTCAGG-CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTC
* ** **
4998811 ATTTGAGCAAGATGATTAGCCCTTTAGACCATTCATAAGACCTTTGGGCAGGATGATTTCACATA
65 ATTTGAGCAAGATGATAAGCCCTCCAGACCATTCATAAGACCTTCAGGCAGGATGATTTCACATA
* * * *
4998876 TCTCTCAAAAAATGAGAAAAAATTCTTATTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGGA
130 TCTCTCAAAAAATGAGAAAAAATTCTCATTTAAATCTAAAAATTGAAATATTTGAAAAATAAGAA
* * *
4998941 AAGTTTCTTACCTAGTAAATTATTTCCAAAATTGGTAAG
195 AAGTTTCTTACCTAGTAAACTATTTACAAAATTGATAAG
* * *
4998980 TTCTTCAGGCCATTAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGTTCATCTGTAAGT-A
1 TCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCA
* * * *
4999044 TTTTGAGCAAGATGATAAGTCCTCCAGGCCA-TCTATAATACCTTCAGGCAGGATGTTTTCACAT
66 -TTTGAGCAAGATGATAAGCCCTCCAGACCATTC-ATAAGACCTTCAGGCAGGATGATTTCACAT
* ** * *** *
4999108 ATCTCTCGAGCAATTAGAAACGTTTCTCATTTAAATCTGAAAATTGAAATATTTGAAAAATAAGA
129 ATCTCTCAAAAAATGAGAAAAAATTCTCATTTAAATCTAAAAATTGAAATATTTGAAAAATAAGA
4999173 AAAGTTTCTTACCTAGTAAACTATTTACAAAATTGATAAG
194 AAAGTTTCTTACCTAGTAAACTATTTACAAAATTGATAAG
** * * *
4999213 TCCTTTGGGCCATCAGTAAGTTTTTCGAGCATGATGATTAAACCCTTCGGGTCATCT
1 TCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCT
4999270 TTCAGTCTCA
Statistics
Matches: 247, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
232 3 0.01
233 242 0.98
234 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (233 bp):
TCCTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCA
TTTGAGCAAGATGATAAGCCCTCCAGACCATTCATAAGACCTTCAGGCAGGATGATTTCACATAT
CTCTCAAAAAATGAGAAAAAATTCTCATTTAAATCTAAAAATTGAAATATTTGAAAAATAAGAAA
AGTTTCTTACCTAGTAAACTATTTACAAAATTGATAAG
Found at i:4999777 original size:42 final size:40
Alignment explanation
Indices: 4999730--4999826 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 40
4999720 AATTTGTAAG
* * *
4999730 TCCTTCAAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTCAGGCCATC-GTAAGTCTTTCGAGCAAGATG-ATAAA
* *
4999772 TCCTTCAGGTCATTCGTAAGTCTTTCGAGCAAGATGATAAG
1 TCCTTCAGGCCA-TCGTAAGTCTTTCGAGCAAGATGATAAA
4999813 TCCTTCAGGCCATC
1 TCCTTCAGGCCATC
4999827 CATAAGACCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.04
41 14 0.29
42 30 0.62
43 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (40 bp):
TCCTTCAGGCCATCGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:4999899 original size:232 final size:233
Alignment explanation
Indices: 4999493--5000704 Score: 1577
Period size: 232 Copynumber: 5.2 Consensus size: 233
4999483 TTCTTACTTA
* * * * *
4999493 GTAAGTCATTCGGTCCATCAGTAAGTTTTTCTAGCATGATGCTTAAATCCTTTAGGTCATCTCTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTGTA
* * *
4999558 AGTCATTT-GAGCAAGATGATAAGTCCTTC-GGACCATTCATAAGACCTAT-GGGCATGATGTTT
66 AGTC-TTTCGAGCAAGATGATAAGTCCTTCAGG-CCATCCATAAGACCT-TCGGGTAGGATGTTT
* ** *
4999620 TCACATATCTCTCAAAAAATGAGAAAA-CATCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
128 TCACATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAA
* *
4999684 GTAAGAAAAGTCTCTTACCTAGTAAACTATTTCCAAAATTT
193 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
** *
4999725 GTAAGTCCTTCAAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCAT-TCGT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCT-GT
*
4999789 AAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGCAGGA-GTTTTC
65 AAGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTTC
* * * *
4999853 ATATCTCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTTATATTTTTGAAAAGT
130 ACATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGT
*
4999918 AAGAAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTG
195 AAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * * *
4999957 GTAAGTCCTTCAGGACATCAGTAAGTCTTTTGAGCATGATGCTTAATTCCTTTAAGTCATCTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTGTA
* * * * *
5000022 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTTGGGTAAGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCA
* *
5000087 CAAATCTCTCGAAAAATGAGAAAAGTTTCACATTTAAATCTGAAAATTAAAATTTTTGAAAAGTA
131 CATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTA
* *
5000152 AGAAACGTTTCTTACGTAGTAAACTATTTCCAAAATTG
196 AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * *
5000190 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATGC-ATCGGCTCATCTGT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGG-TCATCTGT
* * *
5000254 AGGT-TTTTGAGCAAGATGATAAGTCCTT-ATGGACATCCATAAGACCTTCGGGTAGGATGTTTT
65 AAGTCTTTCGAGCAAGATGATAAGTCCTTCA-GGCCATCCATAAGACCTTCGGGTAGGATGTTTT
* * * * * * * *
5000317 CATATGTCTCTCGAAAAATTAGAAAAGCTTCTCATATAAATCT--AAATTGAAATTTTTGATACG
129 CACATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAG
* * * *
5000380 TGAGAAAAGTTTATTGCCTGGTAAACTATTTCCAAAATTG
194 TAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * * *
5000420 GTAAGTCCTTCGGGCAATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTGTA
* * * *
5000485 AGCCTTTCGAACAAGATTG-TAAGTCCATT-GGGCCATCCATAAGACCTTCAGGTAGGATGTTTT
66 AGTCTTTCGAGCAAGA-TGATAAGTCC-TTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTT
** * ** * *
5000548 TGCATGTCTCGGGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAATTTAAAATTTTTGAAAAG
129 CACATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAG
* *
5000613 TAAGAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTT
194 TAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * *
5000653 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGGTGATTAAATCCTT
1 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
5000705 GGGGTCATTT
Statistics
Matches: 855, Mismatches: 110, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
230 106 0.12
231 118 0.14
232 373 0.44
233 258 0.30
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (233 bp):
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTGTA
AGTCTTTCGAGCAAGATGATAAGTCCTTCAGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCA
CATATCTCTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTA
AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:5000602 original size:463 final size:464
Alignment explanation
Indices: 4999493--5000702 Score: 1656
Period size: 463 Copynumber: 2.6 Consensus size: 464
4999483 TTCTTACTTA
* * * * *
4999493 GTAAGTCATTCGGTCCATCAGTAAGTTTTTCTAGCATGATGCTTAAATCCTTTAGGTCATCTCTA
1 GTAAGTCCTTCGGGCAATCAGTAAGTTTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATA
* * * * *
4999558 AGTCATTT-GAGCAAGATGATAAGTCC-TTCGGACCATTCATAAGACCTATGGGCATGATGTTTT
66 AG-CCTTTCGAGCAAGATGATAAGTCCATTCGGGCCATCCATAAGACCT-TGGGTAAGATGTTTT
* *
4999621 CACATATCTCTCAAAAAATGAGAAAACA--TCTCATTTAAATCTGAAAATTGAAATTTTTGAAAA
129 CACATATCTCTCGAAAAATGAGAAAA-ATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAA
* **
4999684 GTAAGAAAAGTCTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCAAGCCATCAGTAA
193 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAA
*
4999749 GTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATTCGTAAGTCTTTCGAGCAAGATGATAAGT
258 GTCTTTCGAGCATGATGCTTAAATCCATCAGGTCATTCGTAAGTCTTTCGAGCAAGATGATAAGT
*
4999814 CCTTCAGGCCATCCATAAGACCTTCGGGCAGGAGTTTTCATATCTCTCTCGAAAAATGAGAAAAG
323 CCTTCAGGACATCCATAAGACCTTCGGGCAGGAGTTTTCATATCTCTCTCGAAAAATGAGAAAAG
* * * * * *
4999879 TTTCTCATTTAAATCTGAAAATTTATATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATT
388 CTTCTCATATAAATCT-AAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTATTACCTAGTAAACT
4999944 ATTTCCAAAATTG
452 ATTTCCAAAATTG
* * * *
4999957 GTAAGTCCTTCAGG-ACATCAGTAAGTCTTTT-GAGCATGATGCTTAATTCCTTTAAGTCATCTG
1 GTAAGTCCTTCGGGCA-ATCAGTAAGT-TTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTA
* *
5000020 TAAGTCTTTCGAGCAAGATGATAAGT-CATTCGGGCCATCTATAAGACCTTTGGGTAAGATGTTT
64 TAAGCCTTTCGAGCAAGATGATAAGTCCATTCGGGCCATCCATAAGACC-TTGGGTAAGATGTTT
* * *
5000084 TCACAAATCTCTCGAAAAATGAGAAAAGTTTCACATTTAAATCTGAAAATTAAAATTTTTGAAAA
128 TCACATATCTCTCGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAA
* * *
5000149 GTAAGAAACGTTTCTTACGTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAA
193 GTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAA
* * *
5000214 GTCTTTCGAGCATGATGCTTAAATGCATC-GGCTCA-TCTGTAGGT-TTTTGAGCAAGATGATAA
258 GTCTTTCGAGCATGATGCTTAAATCCATCAGG-TCATTC-GTAAGTCTTTCGAGCAAGATGATAA
* * *
5000276 GTCCTT-ATGGACATCCATAAGACCTTCGGGTAGGATGTTTTCATATGTCTCTCGAAAAATTAGA
321 GTCCTTCA-GGACATCCATAAGACCTTCGGGCAGGA-GTTTTCATATCTCTCTCGAAAAATGAGA
* * * * *
5000340 AAAGCTTCTCATATAAATCT-AAATTGAAATTTTTGATACGTGAGAAAAGTTTATTGCCTGGTAA
384 AAAGCTTCTCATATAAATCTAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTATTACCTAGTAA
5000404 ACTATTTCCAAAATTG
449 ACTATTTCCAAAATTG
* *
5000420 GTAAGTCCTTCGGGCAATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTTGGGTCATCTATA
1 GTAAGTCCTTCGGGCAATCAGTAAGTTTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATA
* * *
5000485 AGCCTTTCGAACAAGATTG-TAAGTCCATT-GGGCCATCCATAAGACCTTCAGGTAGGATGTTTT
66 AGCCTTTCGAGCAAGA-TGATAAGTCCATTCGGGCCATCCATAAGACCTT-GGGTAAGATGTTTT
** * ** *
5000548 TGCATGTCTCGGGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAATTTAAAATTTTTGAAAAG
129 CACATATCTCTCGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAG
* *
5000613 TAAGAAAAGTTTCTTACCTAGTAAACTATTTGCAAAATTTATAAGTCCTTCGGGCCATCAGTAAG
194 TAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAG
* *
5000678 TCTTTCGAGCATGGTGATTAAATCC
259 TCTTTCGAGCATGATGCTTAAATCC
5000703 TTGGGGTCAT
Statistics
Matches: 657, Mismatches: 73, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
462 6 0.01
463 293 0.45
464 182 0.28
465 176 0.27
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (464 bp):
GTAAGTCCTTCGGGCAATCAGTAAGTTTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATA
AGCCTTTCGAGCAAGATGATAAGTCCATTCGGGCCATCCATAAGACCTTGGGTAAGATGTTTTCA
CATATCTCTCGAAAAATGAGAAAAATTTCTCATTTAAATCTGAAAATTAAAATTTTTGAAAAGTA
AGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTTGTAAGTCCTTCGGGCCATCAGTAAGTC
TTTCGAGCATGATGCTTAAATCCATCAGGTCATTCGTAAGTCTTTCGAGCAAGATGATAAGTCCT
TCAGGACATCCATAAGACCTTCGGGCAGGAGTTTTCATATCTCTCTCGAAAAATGAGAAAAGCTT
CTCATATAAATCTAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTATTACCTAGTAAACTATTT
CCAAAATTG
Found at i:5002881 original size:132 final size:134
Alignment explanation
Indices: 5002728--5003103 Score: 391
Period size: 136 Copynumber: 2.8 Consensus size: 134
5002718 TTAATATTGA
* * * *
5002728 AAATAGTAATATCTTTCCATTTTGGTTGGAGTAATAAATGACTCCCTTAAGGCATGAGATGTCAT
1 AAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGATGTCAT
* * * *
5002793 TTATTCTCAATTAGAAATAATTAAATATTACCGTTTTTCTCTCCAATCAATATTG-A-TTTTT-A
66 TTATTCTCGATT-GAAATAATTAGATATTATCGTTTTTCTCTCCAACCAATATTGAATTTTTTAA
*
5002855 AGATG
130 AGACG
* * * * * * *
5002860 AAATAGTGATATTTTTTCATTTCGGTCGGAGTAATAAATGATTGCTTTAAGGCACGAGAGGTCAT
1 AAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGATGTCAT
* * * * * ** *
5002925 TTATTTTTGATTGGAAATCATTAGATATTATTG-TTTTCACTTGAACCGATATTGAATTTTTTTT
66 TTATTCTCGATT-GAAATAATTAGATATTATCGTTTTTCTCTCCAACCAATATTGAA--TTTTTT
5002989 AAAGACG
128 AAAGACG
* * * * * *
5002996 AAATAGTAATATCTCTTCATTTCGATTGGAGTAGTAAATGACTATTTTAAGACATGAAATGTCAT
1 AAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGATGTCAT
*
5003061 TTATTCTCGATTGAAAATTATTAGATATTATCGTTTTCTCTCT
66 TTATTCTCGATTG-AAATAATTAGATATTATCGTTTT-TCTCT
5003104 TAAAATTGTT
Statistics
Matches: 194, Mismatches: 42, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
131 16 0.08
132 81 0.42
135 6 0.03
136 84 0.43
137 3 0.02
138 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (134 bp):
AAATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGATGTCAT
TTATTCTCGATTGAAATAATTAGATATTATCGTTTTTCTCTCCAACCAATATTGAATTTTTTAAA
GACG
Found at i:5003807 original size:173 final size:177
Alignment explanation
Indices: 5003518--5003870 Score: 669
Period size: 173 Copynumber: 2.0 Consensus size: 177
5003508 TGATTCCTCG
5003518 AACTACTTTTTATCTTTAACCAATAATCAAAAATTATTTCAAAACAAAACCCTTTTTTTCCCTTT
1 AACTACTTTTTATCTTTAACCAATAATCAAAAATTATTTCAAAACAAAACCCTTTTTTTCCCTTT
5003583 CGGAAAAATTGTTTCGACAATGTCTTACATAATTATTATCTTATATATTAGAAAAATTGTCC-T-
66 CGGAAAAATTGTTTCGACAATGTCTTACATAATTATTATCTTATATATTAGAAAAATTGTCCTTG
5003646 TGATGTAAA-GAGG-TTTTATCTCAAACAATTAATCGCACTAGTGTA
131 TGATGTAAATGAGGATTTTATCTCAAACAATTAATCGCACTAGTGTA
5003691 AACTACTTTTTATCTTTAACCAATAATCAAAAATTATTTCAAAACAAAACCCTTTTTTTCCCTTT
1 AACTACTTTTTATCTTTAACCAATAATCAAAAATTATTTCAAAACAAAACCCTTTTTTTCCCTTT
5003756 CGGAAAAATTGTTTCGACAATGTCTTACATAATTATTATCTTATATATTAGAAAAATTGTCCTTG
66 CGGAAAAATTGTTTCGACAATGTCTTACATAATTATTATCTTATATATTAGAAAAATTGTCCTTG
5003821 TGATGTAAATGAGGTATTTTATCTCAAACAATTAATCGCACTAGTGTA
131 TGATGTAAATGAGG-ATTTTATCTCAAACAATTAATCGCACTAGTGTA
5003869 AA
1 AA
5003871 TATGTTATTT
Statistics
Matches: 175, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
173 127 0.73
174 1 0.01
175 9 0.05
176 4 0.02
178 34 0.19
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.39
Consensus pattern (177 bp):
AACTACTTTTTATCTTTAACCAATAATCAAAAATTATTTCAAAACAAAACCCTTTTTTTCCCTTT
CGGAAAAATTGTTTCGACAATGTCTTACATAATTATTATCTTATATATTAGAAAAATTGTCCTTG
TGATGTAAATGAGGATTTTATCTCAAACAATTAATCGCACTAGTGTA
Found at i:5007277 original size:21 final size:21
Alignment explanation
Indices: 5007238--5007316 Score: 86
Period size: 21 Copynumber: 3.8 Consensus size: 21
5007228 GAAAGGTTAA
*
5007238 GACCTTTCGATGAAAGGACTT
1 GACCTTTTGATGAAAGGACTT
5007259 GACCTTTTGATGAAAGGACTT
1 GACCTTTTGATGAAAGGACTT
* * * *
5007280 AATCTTTTGATTAAAAGACTT
1 GACCTTTTGATGAAAGGACTT
** *
5007301 CTCCTTTTTATGAAAG
1 GACCTTTTGATGAAAG
5007317 AGCTTAACAT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (21 bp):
GACCTTTTGATGAAAGGACTT
Found at i:5011273 original size:13 final size:13
Alignment explanation
Indices: 5011228--5011280 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
5011218 TTTACTTTAT
5011228 ATTTCTG-ATATG
1 ATTTCTGTATATG
5011240 ATTTCTAGTTATTAT-
1 ATTTCT-G-TA-TATG
5011255 ATTTCTGTATATG
1 ATTTCTGTATATG
*
5011268 ATTTCTGAATATG
1 ATTTCTGTATATG
5011281 GAATATTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 9 0.26
13 15 0.43
14 1 0.03
15 7 0.20
16 3 0.09
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (13 bp):
ATTTCTGTATATG
Found at i:5014264 original size:3 final size:3
Alignment explanation
Indices: 5014244--5014288 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
5014234 CCTGTAAAAT
* *
5014244 ATA ATA AGTA ACA TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5014289 GTATTAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5015680 original size:20 final size:20
Alignment explanation
Indices: 5015643--5015685 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5015633 TATAATAATA
* * *
5015643 AAAAATATAAACTTTTGTTT
1 AAAAATATAAAATATTGTGT
5015663 AAAAATATAAAATATTGTGT
1 AAAAATATAAAATATTGTGT
5015683 AAA
1 AAA
5015686 GCAAAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
AAAAATATAAAATATTGTGT
Found at i:5017962 original size:21 final size:21
Alignment explanation
Indices: 5017923--5017962 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5017913 TTATAATAAT
*
5017923 AAAAAATATATACATTTTTAA
1 AAAAAATATATAAATTTTTAA
5017944 AAAAAATATA-AAATATTTT
1 AAAAAATATATAAAT-TTTT
5017963 GTAAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAAATATATAAATTTTTAA
Found at i:5018722 original size:21 final size:21
Alignment explanation
Indices: 5018696--5019032 Score: 437
Period size: 21 Copynumber: 15.5 Consensus size: 21
5018686 GTTTCCAGAT
* *
5018696 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
5018717 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018738 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018759 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018780 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
5018801 TCGCATTGCGATTGCGAACTTCGACTA
1 TCGCA-----A-TGCGAACTTGGACTA
*
5018828 TCGCATTGCGATTGCGAACTTCGACTA
1 TCGCA-----A-TGCGAACTTGGACTA
5018855 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
5018876 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
5018896 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
5018917 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018938 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018959 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
5018980 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
5019001 TTGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
5019022 TTGCAATGCGA
1 TCGCAATGCGA
5019033 TAGTCGAAGT
Statistics
Matches: 293, Mismatches: 13, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
20 16 0.05
21 229 0.78
22 1 0.00
26 1 0.00
27 46 0.16
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:5018826 original size:27 final size:27
Alignment explanation
Indices: 5018786--5018865 Score: 142
Period size: 27 Copynumber: 3.0 Consensus size: 27
5018776 ACTATCGCAA
*
5018786 TGCGAACTTGGACTATCGCATTGCGAT
1 TGCGAACTTCGACTATCGCATTGCGAT
5018813 TGCGAACTTCGACTATCGCATTGCGAT
1 TGCGAACTTCGACTATCGCATTGCGAT
*
5018840 TGCGAACTTCGACTATCGCAATGCGA
1 TGCGAACTTCGACTATCGCATTGCGA
5018866 ACTTGGACTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (27 bp):
TGCGAACTTCGACTATCGCATTGCGAT
Found at i:5019052 original size:21 final size:21
Alignment explanation
Indices: 5019028--5019160 Score: 141
Period size: 21 Copynumber: 6.5 Consensus size: 21
5019018 ACTATTGCAA
5019028 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
** *
5019049 TGCGATAGTCGACTTTTGCAT
1 TGCGATAGTCGAAGTTCGCAT
*
5019070 TGCGAT-TTAC-ATA-TTCGCAT
1 TGCGATAGT-CGA-AGTTCGCAT
*
5019090 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
* *
5019111 TACGATAGTCCAAGTTCGCAT
1 TGCGATAGTCGAAGTTCGCAT
*
5019132 TGCGATAGTAGAAGTTCG--T
1 TGCGATAGTCGAAGTTCGCAT
5019151 TGCGATAGTC
1 TGCGATAGTC
5019161 CAAAATCGCA
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.11
20 16 0.17
21 69 0.73
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCAT
Found at i:5019068 original size:63 final size:63
Alignment explanation
Indices: 5018898--5019120 Score: 172
Period size: 63 Copynumber: 3.6 Consensus size: 63
5018888 TATGTAAATC
* * * * * *
5018898 GCAATGCGATAGTCG-ACTATCGCAATGCGA-ACTTGGACTATCGCAATGCGAACTTGGACTATC
1 GCAATGCGATAGTCGAAGT-TCGCATTGCGATA-GTCGACTATTGCAATGCGAACTTGGACTATT
* * * * * * *
5018961 GCAATGCGA-ACTTGGACTATCGCAATGCGA-ACTTGGACTATTGCAATGCGAACTTGGACTATT
1 GCAATGCGATAGTCGAAGT-TCGCATTGCGATA-GTCGACTATTGCAATGCGAACTTGGACTATT
* * *
5019024 GCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTTTTGCATTGCG-A-TT-TACATATT
1 GCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTATTGCAATGCGAACTTGGAC-TATT
* * *
5019085 CGCATTGCGATAGTCCAAGTTCGCATTACGATAGTC
1 -GCAATGCGATAGTCGAAGTTCGCATTGCGATAGTC
5019121 CAAGTTCGCA
Statistics
Matches: 138, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.01
61 6 0.04
62 36 0.26
63 88 0.64
64 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (63 bp):
GCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTATTGCAATGCGAACTTGGACTATT
Found at i:5019132 original size:62 final size:61
Alignment explanation
Indices: 5019020--5019137 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
5019010 GAACTTGGAC
* * * ** *
5019020 TATTGCAATGCGATAGTCGAAGTTCGCATTGCGATAGTCGACTTTTGCATTGCGATTTACA
1 TATTGCAATGCGATAGTCCAAGTTCGCATTACGATAGTCCAAGTTCGCATTGCGATTTACA
*
5019081 TATTCGCATTGCGATAGTCCAAGTTCGCATTACGATAGTCCAAGTTCGCATTGCGAT
1 TATT-GCAATGCGATAGTCCAAGTTCGCATTACGATAGTCCAAGTTCGCATTGCGAT
5019138 AGTAGAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 4 0.08
62 45 0.92
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (61 bp):
TATTGCAATGCGATAGTCCAAGTTCGCATTACGATAGTCCAAGTTCGCATTGCGATTTACA
Found at i:5019285 original size:11 final size:11
Alignment explanation
Indices: 5019257--5019303 Score: 78
Period size: 11 Copynumber: 4.3 Consensus size: 11
5019247 CGTATTACCA
5019257 CGACCACGACC
1 CGACCACGACC
5019268 ACGACCACGACC
1 -CGACCACGACC
5019280 CGACCACGACC
1 CGACCACGACC
5019291 CGACC-CGACC
1 CGACCACGACC
5019301 CGA
1 CGA
5019304 GACGAGACGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.23
11 16 0.46
12 11 0.31
ACGTcount: A:0.28, C:0.53, G:0.19, T:0.00
Consensus pattern (11 bp):
CGACCACGACC
Found at i:5019303 original size:5 final size:6
Alignment explanation
Indices: 5019253--5019300 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
5019243 GACACGTATT
5019253 ACCACG ACCACG ACCACG ACCACG ACC-CG ACCACG ACC-CG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
5019298 ACC
1 ACC
5019301 CGAGACGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 15 0.37
6 26 0.63
ACGTcount: A:0.29, C:0.54, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:5019815 original size:6 final size:6
Alignment explanation
Indices: 5019804--5019830 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5019794 CTCGTCTCGG
5019804 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
5019831 AATACATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:5019966 original size:42 final size:42
Alignment explanation
Indices: 5019913--5020210 Score: 472
Period size: 42 Copynumber: 7.1 Consensus size: 42
5019903 TTTTTGACTA
* *
5019913 AACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
* * * *
5019955 AACGAATTTGGAATAAATCACAATGCGAACTTTGACTATCGT
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
*
5019997 AACGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
* *
5020039 AACGAATTTGGAATAAATCACAACGCAAACTTCGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
*
5020081 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATAGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
*
5020123 AACGAACTTT-GAATAAATCGCAACGCGAACTTCGACTATCAC
1 AACGAA-TTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
*
5020165 AACGAATTTGGAATAAATCGCAACGTGAACTTCGACTATCGC
1 AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
5020207 AACG
1 AACG
5020211 CGAAATTCGA
Statistics
Matches: 236, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 3 0.01
42 230 0.97
43 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
AACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGC
Found at i:5021249 original size:29 final size:30
Alignment explanation
Indices: 5021217--5021279 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
5021207 CTTAAAATTT
* *
5021217 TTTGAGGACTAAATTG-AATTTTAATTAAA
1 TTTGAGGACCAAAATGAAATTTTAATTAAA
* * *
5021246 TTTGGGGACCAAAATGAAATTTTGATTAGA
1 TTTGAGGACCAAAATGAAATTTTAATTAAA
5021276 TTTG
1 TTTG
5021280 GATCCAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (30 bp):
TTTGAGGACCAAAATGAAATTTTAATTAAA
Found at i:5026334 original size:88 final size:89
Alignment explanation
Indices: 5026185--5026354 Score: 333
Period size: 88 Copynumber: 1.9 Consensus size: 89
5026175 GTAAATTGAG
5026185 CACAAGATTTATTGGGTCCTATCATATTTTGAAGACAGTCAAACTAGTTGCTTATGAGCCTAAGT
1 CACAAGATTTATTGGGTCCTATCATATTTTGAAGACAGTCAAACTAGTTGCTTATGAGCCTAAGT
5026250 TACCTTCGCAA-TCAGAAAGATAT
66 TACCTTCGCAACTCAGAAAGATAT
5026273 CACAAGATTTATTGGGTCCTATCATATTTTGAAGACAGTCAAACTAGTTGCTTATGAGCCTAAGT
1 CACAAGATTTATTGGGTCCTATCATATTTTGAAGACAGTCAAACTAGTTGCTTATGAGCCTAAGT
5026338 TACCTTCGCAACTCAGA
66 TACCTTCGCAACTCAGA
5026355 CGTATTCATG
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 76 0.94
89 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (89 bp):
CACAAGATTTATTGGGTCCTATCATATTTTGAAGACAGTCAAACTAGTTGCTTATGAGCCTAAGT
TACCTTCGCAACTCAGAAAGATAT
Found at i:5026730 original size:29 final size:31
Alignment explanation
Indices: 5026698--5026763 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
5026688 CTCAAAAAAA
* *
5026698 AAATTTGA-GGACTAAA-TTAAATTTTAATT
1 AAATTTGAGGGACCAAAGTGAAATTTTAATT
*
5026727 AAATTT-AGGGACCAAAGTGAAATTTTGATT
1 AAATTTGAGGGACCAAAGTGAAATTTTAATT
5026757 AAATTTG
1 AAATTTG
5026764 GATCCAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 13 0.42
30 17 0.55
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (31 bp):
AAATTTGAGGGACCAAAGTGAAATTTTAATT
Found at i:5028737 original size:39 final size:39
Alignment explanation
Indices: 5028684--5028779 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 39
5028674 GATTTTTGCT
* * * *
5028684 CAGGGTAAGTCCTTACTGCAGGGTCCTCTTCTCTGTGCA
1 CAGGATAAGACCTTACTGCAGGCTCCTCTGCTCTGTGCA
* * * *
5028723 CATGATAAGACCTTACAGTAGGCTCCTCTGCTTTGTGCA
1 CAGGATAAGACCTTACTGCAGGCTCCTCTGCTCTGTGCA
* *
5028762 CAGGGTAAGCCCTTACTG
1 CAGGATAAGACCTTACTG
5028780 GGTGTACAAG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (39 bp):
CAGGATAAGACCTTACTGCAGGCTCCTCTGCTCTGTGCA
Found at i:5031765 original size:20 final size:20
Alignment explanation
Indices: 5031745--5031783 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5031735 TATATGTAAC
5031745 TATGATATAAAAATATAAACT
1 TATG-TATAAAAATATAAACT
* *
5031766 TTTGTTTAAAAATATAAA
1 TATGTATAAAAATATAAA
5031784 ATATTGTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TATGTATAAAAATATAAACT
Found at i:5031790 original size:20 final size:20
Alignment explanation
Indices: 5031752--5031790 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5031742 AACTATGATA
* *
5031752 TAAAAATATAAACTTTTGTT
1 TAAAAATATAAAATATTGTT
5031772 TAAAAATATAAAATATTGT
1 TAAAAATATAAAATATTGT
5031791 GTAATGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAAAATATAAAATATTGTT
Found at i:5045483 original size:48 final size:48
Alignment explanation
Indices: 5045428--5045524 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
5045418 ATAATAATAA
* *
5045428 TAAATATAATAATGTTGTCATCACTATTTCTCACTCACAATTACAATT
1 TAAATATAATAATGTCGTCATCACTATTTCTCACCCACAATTACAATT
5045476 TAAATATAATAATGTCGTCATCACTATTTCTCACCCACAATTACAATT
1 TAAATATAATAATGTCGTCATCACTATTTCTCACCCACAATTACAATT
5045524 T
1 T
5045525 TCAATAGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (48 bp):
TAAATATAATAATGTCGTCATCACTATTTCTCACCCACAATTACAATT
Found at i:5048457 original size:32 final size:32
Alignment explanation
Indices: 5048404--5048526 Score: 86
Period size: 32 Copynumber: 3.8 Consensus size: 32
5048394 TAACCTAAGG
* *
5048404 GAGTATCTTGGGGTCTGAGAGCATACCAAAGA
1 GAGTATCTTGGGGCCTAAGAGCATACCAAAGA
* * * *
5048436 GAGTTTCTTGGGGCCTAAGAGCCTACCCAAGG
1 GAGTATCTTGGGGCCTAAGAGCATACCAAAGA
* * * * * *
5048468 GAGTACCATGGGGTCTTAGAGCCTACCCAAG-
1 GAGTATCTTGGGGCCTAAGAGCATACCAAAGA
* * * *
5048499 GAAATACCTTGGGGCCTCAGAGCCTACC
1 G-AGTATCTTGGGGCCTAAGAGCATACC
5048527 CAAGGGTCGC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
31 1 0.01
32 74 0.99
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (32 bp):
GAGTATCTTGGGGCCTAAGAGCATACCAAAGA
Found at i:5048527 original size:32 final size:32
Alignment explanation
Indices: 5048442--5048531 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 32
5048432 AAGAGAGTTT
* *
5048442 CTTGGGGCCTAAGAGCCTACCCAAGGGAGTAC
1 CTTGGGGCCTAAGAGCCTACCCAAGGAAATAC
* * *
5048474 CATGGGGTCTTAGAGCCTACCCAAGGAAATAC
1 CTTGGGGCCTAAGAGCCTACCCAAGGAAATAC
*
5048506 CTTGGGGCCTCAGAGCCTACCCAAGG
1 CTTGGGGCCTAAGAGCCTACCCAAGG
5048532 GTCGCCTTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (32 bp):
CTTGGGGCCTAAGAGCCTACCCAAGGAAATAC
Found at i:5057516 original size:7 final size:7
Alignment explanation
Indices: 5057506--5057531 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5057496 AAAAAAAAAC
5057506 AAAAATA
1 AAAAATA
5057513 AAAAATA
1 AAAAATA
5057520 AAAAATA
1 AAAAATA
5057527 AAAAA
1 AAAAA
5057532 ATGAAGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:5057517 original size:14 final size:13
Alignment explanation
Indices: 5057498--5057532 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
5057488 AACTTTATAA
5057498 AAAAAAACAAAAAT
1 AAAAAAA-AAAAAT
5057512 AAAAAATAAAAAAT
1 AAAAAA-AAAAAAT
5057526 AAAAAAA
1 AAAAAAA
5057533 TGAAGTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 18 0.90
15 1 0.05
ACGTcount: A:0.89, C:0.03, G:0.00, T:0.09
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:5059844 original size:27 final size:27
Alignment explanation
Indices: 5059804--5059861 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
5059794 GAGCGGACAA
* * *
5059804 GGGTATTTTGGTTATTTTGGGGTTTAG
1 GGGTATTTTAGTTATTCTGGAGTTTAG
*
5059831 GGGTATTTTAGTTATTCTGGATTTTAG
1 GGGTATTTTAGTTATTCTGGAGTTTAG
5059858 GGGT
1 GGGT
5059862 GATTAATTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.02, G:0.34, T:0.50
Consensus pattern (27 bp):
GGGTATTTTAGTTATTCTGGAGTTTAG
Found at i:5065146 original size:21 final size:21
Alignment explanation
Indices: 5065120--5065159 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5065110 CAGAACCCCA
*
5065120 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
5065141 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
5065160 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:5069055 original size:22 final size:21
Alignment explanation
Indices: 5069013--5069052 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5069003 GAGTTTGTTT
*
5069013 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
5069034 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5069053 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:5072836 original size:32 final size:32
Alignment explanation
Indices: 5072800--5072889 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
5072790 AGAGAGTTTT
5072800 TTGGGGCC-TATGAGCCTACCCAAGGGAATACC
1 TTGGGGCCTTA-GAGCCTACCCAAGGGAATACC
* *
5072832 TTGGGTCCTTAGAGCCTACCCAAGGAAATACC
1 TTGGGGCCTTAGAGCCTACCCAAGGGAATACC
* *
5072864 TTGAGGCCTTAGAGCCTACCAAAGGG
1 TTGGGGCCTTAGAGCCTACCCAAGGG
5072890 TCACCTTAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
32 49 0.96
33 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (32 bp):
TTGGGGCCTTAGAGCCTACCCAAGGGAATACC
Found at i:5078466 original size:16 final size:18
Alignment explanation
Indices: 5078447--5078480 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
5078437 AAACAAAAGT
5078447 AATTG-AAA-AAAAAGAA
1 AATTGCAAAGAAAAAGAA
5078463 AATTGCAAAGAAAAAGAA
1 AATTGCAAAGAAAAAGAA
5078481 GTTGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (18 bp):
AATTGCAAAGAAAAAGAA
Found at i:5078490 original size:16 final size:17
Alignment explanation
Indices: 5078447--5078490 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
5078437 AAACAAAAGT
5078447 AATTGAAA-AAAAAGAA
1 AATTGAAAGAAAAAGAA
5078463 AATTGCAAAGAAAAAG-A
1 AATTG-AAAGAAAAAGAA
*
5078480 AGTTGAAAGAA
1 AATTGAAAGAA
5078491 CAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.18, T:0.14
Consensus pattern (17 bp):
AATTGAAAGAAAAAGAA
Found at i:5089438 original size:57 final size:57
Alignment explanation
Indices: 5089329--5089501 Score: 153
Period size: 57 Copynumber: 3.1 Consensus size: 57
5089319 CCCAAACAAC
* * * * * *
5089329 ATGATATTTTCAAAAGAGTTTTTAAAGAAAGTAAGCTTGATTTTCAGTGGTTTCTTG
1 ATGATATTTTCAAAAGAGTTTTTAAACAAACTAAACCTAATTTTCAGGGGTTTCTTG
*
5089386 ATGATGATTTTC-AATGAGTTTTTAAAACAAACTAAACCTAATTTT-AGGGGTTTCTTG
1 ATGAT-ATTTTCAAAAGAGTTTTT-AAACAAACTAAACCTAATTTTCAGGGGTTTCTTG
* * * * * *
5089443 ATG---TTTTCAAATGAGTTTTT--AGAAATTAAGCCTTATTTTCAAGGGGTTTCTTA
1 ATGATATTTTCAAAAGAGTTTTTAAACAAACTAAACCTAATTTTC-AGGGGTTTCTTG
5089496 ATGATA
1 ATGATA
5089502 ACTAAAAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
51 15 0.16
53 19 0.20
54 11 0.11
57 29 0.30
58 22 0.23
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (57 bp):
ATGATATTTTCAAAAGAGTTTTTAAACAAACTAAACCTAATTTTCAGGGGTTTCTTG
Found at i:5089611 original size:42 final size:41
Alignment explanation
Indices: 5089553--5089657 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
5089543 AGGGTTTCTT
* *
5089553 GATGAATAAGTCCTTCGGGCCA-TTAGTAAGTCTTTCGAGCAT
1 GATG-ATAAATCCTTCGGGCCATTTA-TAAGTCTTTCGAGCAA
* * *
5089595 GATGCTTAAATCCTTCGGGTCATTTATAAGTCTTTTGAGCAA
1 GATG-ATAAATCCTTCGGGCCATTTATAAGTCTTTCGAGCAA
*
5089637 GATGATAAGTCCTTCGGGCCA
1 GATGATAAATCCTTCGGGCCA
5089658 CCCATAAGAC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 14 0.26
42 36 0.68
43 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (41 bp):
GATGATAAATCCTTCGGGCCATTTATAAGTCTTTCGAGCAA
Found at i:5090069 original size:136 final size:137
Alignment explanation
Indices: 5089821--5090083 Score: 359
Period size: 136 Copynumber: 1.9 Consensus size: 137
5089811 AAAACCAACT
* ** * **
5089821 ACGCCTCGCTTGAGGGATTAACATTTTCAAATGGGGAGTTCATAATGAGATTAACTCATCCGACA
1 ACGCCTCGCTTGAGGGATTAACATCTTCAAATGGAAAGTTAATAATGAGAAGAACTCATCCGACA
* * *
5089886 GAGGTAGAAGAAGTTCAAAATGAGAAGAGCTTTTTCAACCTAACGCTCGATTCACGACATTTTGA
66 GAGGGAGAAGAAGTTCAAAATGAAAAGAGCTTTTTCAACATAACGCTCGATTCACGACATTTTGA
5089951 ATCAGTA
131 ATCAGTA
* *
5089958 ACGCCTCGTTTGAGGGATTAACA-CTTCAAATGGAAAGTTAATAATGAGAAGAACTCATCCGATA
1 ACGCCTCGCTTGAGGGATTAACATCTTCAAATGGAAAGTTAATAATGAGAAGAACTCATCCGACA
* * ** *
5090022 GAGGGAGAAGAAGTTCATAATGAAAAGAGCTTGTTT-GACATGTCGCTCGATTCACGGCATTT
66 GAGGGAGAAGAAGTTCAAAATGAAAAGAGCTT-TTTCAACATAACGCTCGATTCACGACATTT
5090084 CAAATCAACA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
136 84 0.77
137 25 0.23
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (137 bp):
ACGCCTCGCTTGAGGGATTAACATCTTCAAATGGAAAGTTAATAATGAGAAGAACTCATCCGACA
GAGGGAGAAGAAGTTCAAAATGAAAAGAGCTTTTTCAACATAACGCTCGATTCACGACATTTTGA
ATCAGTA
Found at i:5090171 original size:39 final size:39
Alignment explanation
Indices: 5090111--5090357 Score: 370
Period size: 39 Copynumber: 6.4 Consensus size: 39
5090101 AGGGATCAAC
*
5090111 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTAT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** *
5090150 ATCTTTCTTGAGATAGTTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
5090189 ATCTCGCTTGAAATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
5090228 ATCTCGCTTGAGATAATTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
5090267 ATCTCACTTGATATAGTTTCACTCGAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * *
5090306 TTCTTGCTTGAGATAGTTTCACTCGAAACGGAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
5090344 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
5090358 TGTTCTTCTT
Statistics
Matches: 185, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
38 14 0.08
39 171 0.92
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:5090265 original size:19 final size:19
Alignment explanation
Indices: 5090205--5090265 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
5090195 CTTGAAATAG
5090205 TTTCACTCGAAACAGAAGA
1 TTTCACTCGAAACAGAAGA
* ****
5090224 TTTTATCTCGCTTGAGATA-A
1 TTTCA-CTCGAAACAGA-AGA
5090244 TTTCACTCGAAACAGAAGA
1 TTTCACTCGAAACAGAAGA
5090263 TTT
1 TTT
5090266 TATCTCACTT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
18 1 0.03
19 15 0.52
20 12 0.41
21 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (19 bp):
TTTCACTCGAAACAGAAGA
Found at i:5090460 original size:60 final size:60
Alignment explanation
Indices: 5090376--5090496 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
5090366 TTAAAACAAA
* * *
5090376 CAACGCCCCACCAGAGGTGTTAACATTTACTATTACTCAATT-CACAACACTTCGAATCAG
1 CAACACCCCACCAGAGGGGATAACATTTA-TATTACTCAATTACACAACACTTCGAATCAG
* * *
5090436 CAACACCCCACCAGAGGGGATAACATTTATTTTCCTCCATTCACACAACACTTCGAATCAG
1 CAACACCCCACCAGAGGGGATAACATTTATATTACTCAATT-ACACAACACTTCGAATCAG
5090497 TAACGCTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 9 0.17
60 26 0.49
61 18 0.34
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (60 bp):
CAACACCCCACCAGAGGGGATAACATTTATATTACTCAATTACACAACACTTCGAATCAG
Found at i:5090899 original size:23 final size:23
Alignment explanation
Indices: 5090873--5090934 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
5090863 AACTTGAACC
5090873 AGGCCTAAACTAAACCCTAAATT
1 AGGCCTAAACTAAACCCTAAATT
*
5090896 AGGCCTAAACCAAACCCTAAATT
1 AGGCCTAAACTAAACCCTAAATT
*
5090919 A-ACCTCAAACTAAACC
1 AGGCCT-AAACTAAACC
5090935 AAAATTGGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 3 0.09
23 32 0.91
ACGTcount: A:0.45, C:0.31, G:0.06, T:0.18
Consensus pattern (23 bp):
AGGCCTAAACTAAACCCTAAATT
Found at i:5091374 original size:7 final size:7
Alignment explanation
Indices: 5091355--5091388 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
5091345 AACAAAAGTA
5091355 ATATTATT
1 ATATTA-T
5091363 ATATTAT
1 ATATTAT
5091370 ATATTAT
1 ATATTAT
5091377 ATATTAT
1 ATATTAT
5091384 ATATT
1 ATATT
5091389 CATGTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATTAT
Found at i:5091381 original size:22 final size:22
Alignment explanation
Indices: 5091355--5091397 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5091345 AACAAAAGTA
5091355 ATATTATTATATT-ATATATTAT
1 ATATTA-TATATTCATATATTAT
*
5091377 ATATTATATATTCATGTATTA
1 ATATTATATATTCATATATTA
5091398 AAAATTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATTATATATTCATATATTAT
Found at i:5092305 original size:18 final size:18
Alignment explanation
Indices: 5092282--5092337 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
5092272 TCCATGTATG
5092282 TATGTTTATTTTTTATTT
1 TATGTTTATTTTTTATTT
*
5092300 TATGTTTATTTTACTATTT
1 TATGTTTATTTT-TTATTT
* *
5092319 T-TATTTATTTGTTATTT
1 TATGTTTATTTTTTATTT
5092336 TA
1 TA
5092338 ATTAATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.19
18 20 0.62
19 6 0.19
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (18 bp):
TATGTTTATTTTTTATTT
Found at i:5092351 original size:25 final size:25
Alignment explanation
Indices: 5092292--5092362 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
5092282 TATGTTTATT
*
5092292 TTTTATT-TTATGTTTATTTT-ACTAT
1 TTTTATTATT-TG-TTATTTTAACTAA
*
5092317 TTTTATTTATTTGTTATTTTAATTAA
1 TTTTA-TTATTTGTTATTTTAACTAA
**
5092343 TTTTATTATTAATTATTTTA
1 TTTTATTATTTGTTATTTTA
5092363 TTTCATAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 25 0.64
26 12 0.31
27 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.70
Consensus pattern (25 bp):
TTTTATTATTTGTTATTTTAACTAA
Found at i:5092359 original size:36 final size:37
Alignment explanation
Indices: 5092286--5092365 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 37
5092276 TGTATGTATG
* * * *
5092286 TTTATTTTTTATTTTATGTTTATTTTACTATTTTTA-
1 TTTATTTGTTATTTTATATTAATTTTACTATTATTAT
*
5092322 TTTATTTGTTATTTTA-ATTAATTTTATTATTAATTAT
1 TTTATTTGTTATTTTATATTAATTTTACTATT-ATTAT
5092359 TTTATTT
1 TTTATTT
5092366 CATAGTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 12 0.32
36 18 0.49
37 7 0.19
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (37 bp):
TTTATTTGTTATTTTATATTAATTTTACTATTATTAT
Found at i:5092360 original size:15 final size:15
Alignment explanation
Indices: 5092330--5092365 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
5092320 TATTTATTTG
5092330 TTATTTTAATTAATT
1 TTATTTTAATTAATT
5092345 TTATTATTAATT-ATT
1 TTATT-TTAATTAATT
5092360 TTATTT
1 TTATTT
5092366 CATAGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 13 0.65
16 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTTAATTAATT
Found at i:5093858 original size:23 final size:23
Alignment explanation
Indices: 5093814--5093858 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5093804 AGTATGTGTC
*
5093814 CACCATCACCAAACTGTAGCTCA
1 CACCATCACCAAACTATAGCTCA
* *
5093837 CACCCTCACCAAACTATGGCTC
1 CACCATCACCAAACTATAGCTC
5093859 CGCAACTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.42, G:0.09, T:0.18
Consensus pattern (23 bp):
CACCATCACCAAACTATAGCTCA
Found at i:5094683 original size:20 final size:19
Alignment explanation
Indices: 5094660--5094705 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
5094650 CGATATAACA
5094660 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
5094680 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
5094700 GATAAA
1 GGTAAA
5094706 GCGCTACCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5096560 original size:19 final size:22
Alignment explanation
Indices: 5096512--5096566 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
5096502 TTTTTTGTGT
5096512 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
5096535 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
5096555 TTTTATTATAAA
1 TTTTA-TATAAA
5096567 TGCATGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Found at i:5096864 original size:15 final size:15
Alignment explanation
Indices: 5096844--5096876 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5096834 TGATTGTATT
5096844 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
5096859 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
5096874 GGG
1 GGG
5096877 AAAATAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.06, G:0.64, T:0.12
Consensus pattern (15 bp):
GGGGGATGACGGTGA
Found at i:5097072 original size:33 final size:33
Alignment explanation
Indices: 5097035--5097100 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
5097025 AAATAGATGG
5097035 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
5097068 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
5097101 TCTTAAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
Found at i:5098306 original size:4 final size:4
Alignment explanation
Indices: 5098297--5098321 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5098287 TAAGAGATTG
5098297 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
5098322 AAAGGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:5098854 original size:28 final size:30
Alignment explanation
Indices: 5098822--5098884 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
5098812 CAATCAAAAT
**
5098822 CAATGAAGACATGAG-ATAACAAAA-GATG
1 CAATGAAGACACAAGAATAACAAAAGGATG
5098850 CAATG-AGACACAAGAATAACAAAAGGATG
1 CAATGAAGACACAAGAATAACAAAAGGATG
5098879 CAATGA
1 CAATGA
5098885 TGTAAATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 9 0.30
ACGTcount: A:0.54, C:0.13, G:0.21, T:0.13
Consensus pattern (30 bp):
CAATGAAGACACAAGAATAACAAAAGGATG
Found at i:5098923 original size:19 final size:19
Alignment explanation
Indices: 5098899--5098947 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5098889 AATGTAGGGT
*
5098899 TAATTTTTTATAAGATTTA
1 TAATTTTGTATAAGATTTA
5098918 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
5098937 TAATTTTGTAT
1 TAATTTTGTAT
5098948 GTGAATGTAA
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:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5099640 original size:201 final size:201
Alignment explanation
Indices: 5099202--5099743 Score: 940
Period size: 201 Copynumber: 2.7 Consensus size: 201
5099192 AGGTAAAATT
* * *
5099202 TATCGATCCCATAAACATATGCATCCATAAGTATATTGTAATAGGTAAATTTTCAATGTAACCGG
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
*
5099267 TATAAATATACCGGTTTTATTAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTAATTTTG
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTT-ATTTTG
* * *
5099332 TGTCGATGCTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTGTCGATACATTTA
130 TGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTATCGATACAATTA
5099397 TAAAAAA
195 TAAAAAA
*
5099404 TATCAATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
* *
5099469 TATAAATATACCGGTTTTATGAGAGAATATGTCCACAACATGTATCGACACTTTTTTTATTTTGT
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTATTTTGT
*
5099534 GTCGATACTTTTGGTTCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTATCGATACAATTAT
131 GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTATCGATACAATTAT
*
5099599 AAAAAG
196 AAAAAA
*
5099605 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACTGA
1 TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
* *
5099670 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGT
66 TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTATTTTGT
5099735 GTCGATACT
131 GTCGATACT
5099744 AATTTAAATA
Statistics
Matches: 322, Mismatches: 18, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
201 206 0.64
202 116 0.36
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (201 bp):
TATCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGA
TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTTATTTTGT
GTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACCATAAAGTATCGATACAATTAT
AAAAAA
Found at i:5102973 original size:251 final size:251
Alignment explanation
Indices: 5102568--5103021 Score: 664
Period size: 251 Copynumber: 1.8 Consensus size: 251
5102558 TAACGACCCA
* * * *
5102568 AAAAACATTGAACCCCATAATTATAATGTAATGGGTAATTTTTCAATGTAACTGGTATAAATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACTGGTATAAATATA
* * * * *
5102633 CTGGTTTTATGAAAAATATGTCTACAACATTTATCGACACTTATTAGTATTGTGTCGATACTTTT
66 CCGGTTTTATGAAAAATAGGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTT
* * * * *
5102698 TTTCCATAATGGATGCCAAAAAGGGTGAAC-CTACAAAGTGTCGATACATTTTCATAGAGTGTCG
131 TGTCCAGAATGGATGCCAAAAAGGGTGAACGC-ACAAAGTGTCGATACATTTTAAAAAAGTGTCG
5102762 AT-CCAAAAGGGTTGCACGCATAAAGTGTCGATACAATTATTAAAAGTGCCGATCCC
195 ATCCCAAAAGGGTTGCACGCATAAAGTGTCGATACAATTATTAAAAGTGCCGATCCC
*
5102818 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGT-AATATAA-TCGGTATACATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-TCAATATAACT-GGTATAAATA
* * * *
5102881 TACCGGTTTTATGAGAGAATAGGTCTATAATATGTATCGACACTTCTTAATATTGTGTCGATAAT
64 TACCGGTTTTATGA-AAAATAGGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAAT
*
5102946 TTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTAAAAAAGTGT
128 TTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTAAAAAAGTGT
5103011 CGATCCCAAAA
193 CGATCCCAAAA
5103022 ACATCGAAAC
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
249 1 0.01
250 67 0.37
251 104 0.58
252 7 0.04
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (251 bp):
AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACTGGTATAAATATA
CCGGTTTTATGAAAAATAGGTCTACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTT
TGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTAAAAAAGTGTCGA
TCCCAAAAGGGTTGCACGCATAAAGTGTCGATACAATTATTAAAAGTGCCGATCCC
Found at i:5103084 original size:200 final size:197
Alignment explanation
Indices: 5102766--5103323 Score: 805
Period size: 198 Copynumber: 2.8 Consensus size: 197
5102756 GTGTCGATCC
* *
5102766 AAAAGGGTTGCACGCATAAAGTGTCGATACAATTATT-AAAAGTGCCGATCCCAAAAACATCGAA
1 AAAAGGG-TGAACGCATAAAGTGTCGATAC-ATT-TTAAAAAGTGTCGATCCCAAAAACATCGAA
* *
5102830 ACCCATAATTATAATGTAATAGGTAATTTTGTAATATAATCGGTATACATATACCGGTTTTATGA
63 ACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGA
*
5102895 GAGAATAGGTCTATAATATGTATCGACACTTCTT-AATATTGTGTCGATAATTTTTGTCCAGAAT
128 GAGAATAGGTCTATAACATGTATCGACACTTCTTAAAT-TTGTGTCGATAATTTTT-T-CAGAAT
5102959 GGATGCCA
190 GGATGCCA
5102967 AAAAGGGTGAACGCATAAAGTGTCGATACATTTTAAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTTT-AAAAAGTGTCGATCCCAAAAACATCGAAAC
* ** * *
5103032 CCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGAGA
65 CCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGA
* * * * *
5103097 GAATAGGTCTATAACATGTAGCAACACTTGTTAAATTTGTGTCGATACTTTTTTCAGAATGGATT
130 GAATAGGTCTATAACATGTATCGACACTTCTTAAATTTGTGTCGATAATTTTTTCAGAATGGATG
5103162 CCA
195 CCA
* * * * * * *
5103165 AAAAGGATGAACGCACAAAGTGTCGATACCTTTATTAAAAGTGTTGATACCGAAAACATCGAAAC
1 AAAAGGGTGAACGCATAAAGTGTCGATACATTT-TAAAAAGTGTCGATCCCAAAAACATCGAAAC
* *
5103230 CCATAATTATAATGTAATAGGTAATTTTGTACTATAACCGGTATAAATATACCAGTTTTATGAGA
65 CCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGA
*
5103295 GAATAGGTCTACAACATGTATCGACACTT
130 GAATAGGTCTATAACATGTATCGACACTT
5103324 TGTAAATAAA
Statistics
Matches: 321, Mismatches: 32, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
198 155 0.48
199 5 0.02
200 151 0.47
201 10 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (197 bp):
AAAAGGGTGAACGCATAAAGTGTCGATACATTTTAAAAAGTGTCGATCCCAAAAACATCGAAACC
CATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAG
AATAGGTCTATAACATGTATCGACACTTCTTAAATTTGTGTCGATAATTTTTTCAGAATGGATGC
CA
Found at i:5103270 original size:198 final size:200
Alignment explanation
Indices: 5102763--5103323 Score: 817
Period size: 200 Copynumber: 2.8 Consensus size: 200
5102753 AGAGTGTCGA
* * * * *
5102763 TCCAAAAGGGTTGCACGCATAAAGTGTCGATACAATTATTAAAAGTGCCGATCCCAAAAACATCG
1 TCCAAAAAGGATGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCG
* * *
5102828 AAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAATCGGTATACATATACCGGTTTTAT
66 AAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTAT
*
5102893 GAGAGAATAGGTCTATAATATGTATCGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAA
131 GAGAGAATAGGTCTATAACATGTATCGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAA
5102958 TGGAT
196 TGGAT
* * *
5102963 GCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTT-TAAAAAAGTGTCGATCCCAAAAACATC
1 TCCAAAAAGGATGAACGCATAAAGTGTCGATACATTTAT-TAAAAGTGTCGATCCCAAAAACATC
* ** *
5103027 GAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTA
65 GAAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTA
* * * *
5103092 TGAGAGAATAGGTCTATAACATGTAGCAACACTTGTTAA-ATTTGTGTCGATACTTTTT-T-CAG
130 TGAGAGAATAGGTCTATAACATGTATCGACACTTCTTAATA-TTGTGTCGATAATTTTTGTCCAG
5103154 AATGGAT
194 AATGGAT
* * * * *
5103161 TCCAAAAAGGATGAACGCACAAAGTGTCGATACCTTTATTAAAAGTGTTGATACCGAAAACATCG
1 TCCAAAAAGGATGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCG
*
5103226 AAACCCATAATTATAATGTAATAGGTAATTTTGTACTATAACCGGTATAAATATACC-AGTTTTA
66 AAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGA-TTTTA
*
5103290 TGAGAGAATAGGTCTACAACATGTATCGACACTT
130 TGAGAGAATAGGTCTATAACATGTATCGACACTT
5103324 TGTAAATAAA
Statistics
Matches: 322, Mismatches: 35, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
197 1 0.00
198 153 0.48
199 4 0.01
200 164 0.51
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (200 bp):
TCCAAAAAGGATGAACGCATAAAGTGTCGATACATTTATTAAAAGTGTCGATCCCAAAAACATCG
AAACCCATAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTAT
GAGAGAATAGGTCTATAACATGTATCGACACTTCTTAATATTGTGTCGATAATTTTTGTCCAGAA
TGGAT
Found at i:5106253 original size:200 final size:197
Alignment explanation
Indices: 5105854--5106584 Score: 780
Period size: 200 Copynumber: 3.6 Consensus size: 197
5105844 ACCTAAATAT
* * * *
5105854 GTGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAAATCAAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * *
5105917 AGGTAAATTAACAATGTAACCGGTATAAATATACCGGTTAATTAGAAAATAGGTCAACATAATGT
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCAACATAATGT
* * * *
5105982 ATCGACACTTGTGTAATTTGTGTTGATACTTATTGTCCAGGATGAAT-GCACAAACGAGGTGC-A
130 ATCGACACTTGT-TAATTTGTGTTGATACTT-TTGTTCAGAATGAATACCA-AAAAG-GGTGCAA
5106045 CGCATAAA
191 C-CATAAA
* *
5106053 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTATTA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
5106118 GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGATAAAATAGGTCAACATCAA-G
66 GGTAAATTTACAATGTAACCGGTATAAATATACCG-TTTTATGAGAAAATAGGTCAACAT-AATG
*
5106182 TATCGACACTTGCTAAATTTGTGTTGATACTTTTGGTTCAGAATGAATACCAAAAAGGGTGCAAC
129 TATCGACACTTG-TTAATTTGTGTTGATACTTTT-GTTCAGAATGAATACCAAAAAGGGTGCAAC
5106247 CATAAA
192 CATAAA
* ** * * *
5106253 GTGTCGATACATTTATAAAAAGTATCGATCCCGGAAACATTGAAACCCATAAGTATAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* ** *
5106318 GATAAATTTTTAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTAA-ATAATG
66 GGTAAATTTACAATGTAACCGGTATAAATATACC-GTTTTATGAGAAAATAGGTC-AACATAATG
* * **
5106382 TATCGACACGTTGTTAGTTTGTGTCGATACTTTT-TTCCAGAATGAAATATGAATGCCCAACCA-
129 TATCGACAC-TTGTTAATTTGTGTTGATACTTTTGTT-CAGAATG--A-AT--A---CCAAAAAG
*
5106445 GGTGCAAGCATAAA
184 GGTGCAACCATAAA
* ** * * *
5106459 GTGTCGATACATTTA--AAATTGTATCGATCTAAAAAACATCGTAAGCGATAATAATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * ** *
5106522 AGGTAAATTTACAATGTTACCGGTATAAATATATCGGTTTACTTCGAAAATAGGTCAATATAA
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGTTTTA-TGAGAAAATAGGTCAACATAA
5106585 GCGCTACCTA
Statistics
Matches: 451, Mismatches: 57, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
198 2 0.00
199 34 0.08
200 212 0.47
201 74 0.16
202 7 0.02
204 11 0.02
205 78 0.17
206 28 0.06
207 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCAACATAATGTA
TCGACACTTGTTAATTTGTGTTGATACTTTTGTTCAGAATGAATACCAAAAAGGGTGCAACCATA
AA
Found at i:5106713 original size:23 final size:23
Alignment explanation
Indices: 5106663--5106707 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5106653 TGTCTATTTT
* *
5106663 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
5106686 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
5106708 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:5106725 original size:87 final size:87
Alignment explanation
Indices: 5106579--5106741 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
5106569 AAATAGGTCA
5106579 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
*
5106644 CTGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* *
5106666 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
5106731 CCGGTTAAATG
66 CCGGTTAAATG
5106742 ATATAACATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:5109428 original size:2 final size:2
Alignment explanation
Indices: 5109421--5109445 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5109411 GTAAAGCATT
5109421 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
5109446 GGGGTATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5111056 original size:20 final size:22
Alignment explanation
Indices: 5111023--5111067 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
5111013 CCGAAAATGT
*
5111023 TAAAAAACATTAATTTTTTAGA
1 TAAAAAACATTAATATTTTAGA
5111045 TAAAAAA-A-TAATATTTTAGA
1 TAAAAAACATTAATATTTTAGA
5111065 TAA
1 TAA
5111068 TATTTTACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 1 0.05
22 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAAAAACATTAATATTTTAGA
Found at i:5112181 original size:23 final size:22
Alignment explanation
Indices: 5112155--5112197 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
5112145 TATACAAAAT
5112155 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
5112178 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
5112198 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:5112637 original size:11 final size:11
Alignment explanation
Indices: 5112621--5112661 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
5112611 AAAATATTTT
5112621 TATTATTATTA
1 TATTATTATTA
5112632 TATTATTATTA
1 TATTATTATTA
**
5112643 TATTACAATTA
1 TATTATTATTA
5112654 -ATTATTAT
1 TATTATTAT
5112662 AATTTTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTATTATTA
Found at i:5112659 original size:21 final size:22
Alignment explanation
Indices: 5112628--5112670 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
5112618 TTTTATTATT
*
5112628 ATTATATTATTATTATATTACA
1 ATTATATTATTATAATATTACA
*
5112650 ATTA-ATTATTATAATTTTACA
1 ATTATATTATTATAATATTACA
5112671 GGCCCAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTATATTATTATAATATTACA
Found at i:5112794 original size:21 final size:21
Alignment explanation
Indices: 5112764--5112805 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5112754 CGAATAGCCT
*
5112764 AACAGGCCCAAAAGCAAACCC
1 AACAGACCCAAAAGCAAACCC
5112785 AACAGACCCAAAAGCAAACCC
1 AACAGACCCAAAAGCAAACCC
5112806 GAATTACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.38, G:0.12, T:0.00
Consensus pattern (21 bp):
AACAGACCCAAAAGCAAACCC
Found at i:5117798 original size:60 final size:60
Alignment explanation
Indices: 5117689--5117841 Score: 216
Period size: 60 Copynumber: 2.5 Consensus size: 60
5117679 TTTCCCATAA
* * *
5117689 ATTTGTAAAGCCTTTGGGCCATTTGTAAAACCTCCGGGTGATTTATAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGCTCATTTATAAAGCCTCCGGGTC
* ** * * *
5117749 ATTTGTAAAACCTCCGGGTCATTTGTAAAGCCTCTGGCTCATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGCTCATTTATAAAGCCTCCGGGTC
*
5117809 ATTTGTAAAGCCTTTGGGTTATTTGTAAAACCT
1 ATTTGTAAAGCCTTTGGGTCATTTGTAAAACCT
5117842 TAAGGTAATT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.34
Consensus pattern (60 bp):
ATTTGTAAAGCCTTTGGGTCATTTGTAAAACCTCCGGCTCATTTATAAAGCCTCCGGGTC
Found at i:5117842 original size:20 final size:20
Alignment explanation
Indices: 5117689--5117837 Score: 190
Period size: 20 Copynumber: 7.5 Consensus size: 20
5117679 TTTCCCATAA
** *
5117689 ATTTGTAAAGCCTTTGGGCC
1 ATTTGTAAAGCCTCCGGGTC
* *
5117709 ATTTGTAAAACCTCCGGGTG
1 ATTTGTAAAGCCTCCGGGTC
*
5117729 ATTTATAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
*
5117749 ATTTGTAAAACCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
* *
5117769 ATTTGTAAAGCCTCTGGCTC
1 ATTTGTAAAGCCTCCGGGTC
5117789 ATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTCCGGGTC
** *
5117809 ATTTGTAAAGCCTTTGGGTT
1 ATTTGTAAAGCCTCCGGGTC
5117829 ATTTGTAAA
1 ATTTGTAAA
5117838 ACCTTAAGGT
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 111 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
ATTTGTAAAGCCTCCGGGTC
Done.