Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_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: 1361854
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:791623 original size:29 final size:29
Alignment explanation
Indices: 791525--791636 Score: 127
Period size: 29 Copynumber: 3.8 Consensus size: 29
791515 CGTTTTTATT
* *
791525 TAAGTATTTAAAATATTTTTTAATTAAAA
1 TAAGTATTTAAAATATTTTTTGATCAAAA
*
791554 TAAGTATTTAAAATATTTTATTGTTCAAAA
1 TAAGTATTTAAAATATTTT-TTGATCAAAA
791584 TATA-TATTTAAAATATTTTTTGATCAAAA
1 TA-AGTATTTAAAATATTTTTTGATCAAAA
* * * * *
791613 GAGGTACTTAAAGTATTCTTTGAT
1 TAAGTATTTAAAATATTTTTTGAT
791637 TAATGTCAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
29 46 0.65
30 24 0.34
31 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (29 bp):
TAAGTATTTAAAATATTTTTTGATCAAAA
Found at i:794474 original size:2 final size:2
Alignment explanation
Indices: 794462--794501 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
794452 TGTTTCTAGA
*
794462 AT AT AT GT 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
794502 TGGTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:799417 original size:51 final size:51
Alignment explanation
Indices: 799361--799479 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
799351 CACACCCCTA
*
799361 GTAAGTATATGTTAAATGCTACACTTTTTTATTTTATGCACTTACACCGAT
1 GTAAGTATGTGTTAAATGCTACACTTTTTTATTTTATGCACTTACACCGAT
* ** * *
799412 GTAAGTATGT-TTCAAGTTTTACACTTTTTTATTTTATTCACTTACACCGGT
1 GTAAGTATGTGTT-AAATGCTACACTTTTTTATTTTATGCACTTACACCGAT
*
799463 GTAGGTATGTGTTAAAT
1 GTAAGTATGTGTTAAAT
799480 TCTATATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.03
51 54 0.93
52 2 0.03
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.45
Consensus pattern (51 bp):
GTAAGTATGTGTTAAATGCTACACTTTTTTATTTTATGCACTTACACCGAT
Found at i:800416 original size:35 final size:35
Alignment explanation
Indices: 800367--800437 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
800357 GTTAAAAACT
*
800367 ATATTAATATACTAAATTAAAAGCAGGACCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
800402 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
1 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
800437 A
1 A
800438 CTTATTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
Found at i:801056 original size:2 final size:2
Alignment explanation
Indices: 801049--801073 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
801039 CCCTGATTAC
801049 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
801074 CGTGCACTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:801218 original size:77 final size:77
Alignment explanation
Indices: 801079--801222 Score: 207
Period size: 77 Copynumber: 1.9 Consensus size: 77
801069 ATATACGTGC
* * *
801079 ACTTTTTAGTTGAAGATAATTAAGATAGAATGAAGTGGAGTTACGTGGGAATACTATGAATATAA
1 ACTTTTTAGTTGAAGATAATTAAGATAAAACGAAGTGGAGTTACGTGGGAATACTATAAATATAA
801144 CCGATTATATAT
66 CCGATTATATAT
* * * * **
801156 ACTTTTTAGTTGAAGATGATTAGGATAAAACGACGTGGAGTTACGTGGGATTGTTATAAATATAA
1 ACTTTTTAGTTGAAGATAATTAAGATAAAACGAAGTGGAGTTACGTGGGAATACTATAAATATAA
801221 CC
66 CC
801223 CCCTATGTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 58 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (77 bp):
ACTTTTTAGTTGAAGATAATTAAGATAAAACGAAGTGGAGTTACGTGGGAATACTATAAATATAA
CCGATTATATAT
Found at i:804758 original size:13 final size:13
Alignment explanation
Indices: 804724--804750 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
804714 TATTTAAACT
804724 AAATATAAATTAA
1 AAATATAAATTAA
804737 AAATATAAATTAA
1 AAATATAAATTAA
804750 A
1 A
804751 CTAATAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATATAAATTAA
Found at i:806266 original size:2 final size:2
Alignment explanation
Indices: 806261--806297 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
806251 TATATATATA
*
806261 TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
806298 ATATAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (2 bp):
TG
Found at i:812814 original size:21 final size:21
Alignment explanation
Indices: 812790--812837 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
812780 TTCATCATCT
812790 TCATCATCCTC-TCCTTCGTCG
1 TCATCATCCTCGTCC-TCGTCG
* *
812811 TCATCGTCTTCGTCCTCGTCG
1 TCATCATCCTCGTCCTCGTCG
812832 TCATCA
1 TCATCA
812838 CCGTCTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.10, C:0.40, G:0.12, T:0.38
Consensus pattern (21 bp):
TCATCATCCTCGTCCTCGTCG
Found at i:812842 original size:24 final size:24
Alignment explanation
Indices: 812805--812851 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
812795 ATCCTCTCCT
* *
812805 TCGTCGTCATCGTCTTCGTCCTCG
1 TCGTCATCACCGTCTTCGTCCTCG
*
812829 TCGTCATCACCGTCTTCTTCCTC
1 TCGTCATCACCGTCTTCGTCCTC
812852 CTCTTCGCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.06, C:0.40, G:0.15, T:0.38
Consensus pattern (24 bp):
TCGTCATCACCGTCTTCGTCCTCG
Found at i:814678 original size:21 final size:22
Alignment explanation
Indices: 814638--814679 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
814628 CTTAGATGTT
*
814638 TGTAACTCTTGTATTTAAACTC
1 TGTAACTCTTGTAATTAAACTC
*
814660 TGTAACTTTTG-AATTAAACT
1 TGTAACTCTTGTAATTAAACT
814680 TGTCTCTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (22 bp):
TGTAACTCTTGTAATTAAACTC
Found at i:822953 original size:22 final size:22
Alignment explanation
Indices: 822928--822978 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
822918 AATTCTTAAT
822928 TTATATTGGGTCAGGGTCCAAA
1 TTATATTGGGTCAGGGTCCAAA
*
822950 TTATATTGGGTTAGGGTCCAAA
1 TTATATTGGGTCAGGGTCCAAA
822972 TTATATT
1 TTATATT
822979 CTAAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (22 bp):
TTATATTGGGTCAGGGTCCAAA
Found at i:826186 original size:22 final size:22
Alignment explanation
Indices: 826143--826189 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
826133 GATTGAGAGG
* *
826143 ATATTTTTTTAAAATTTAATTA
1 ATATTATTTTAAAATATAATTA
826165 ATATTATTTTAAACATAT-ATTA
1 ATATTATTTTAAA-ATATAATTA
826187 ATA
1 ATA
826190 AAATAAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTATTTTAAAATATAATTA
Found at i:831888 original size:24 final size:23
Alignment explanation
Indices: 831859--831904 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
831849 TTTCTAGAAA
831859 ATGAAAACAAAAATAAATGAAAAT
1 ATGAAAACAAAAA-AAATGAAAAT
* *
831883 ATGAAAACATAAAAGATGAAAA
1 ATGAAAACAAAAAAAATGAAAA
831905 CAAAATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.70, C:0.04, G:0.11, T:0.15
Consensus pattern (23 bp):
ATGAAAACAAAAAAAATGAAAAT
Found at i:831901 original size:15 final size:15
Alignment explanation
Indices: 831878--831919 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
831868 AAAATAAATG
* *
831878 AAAATATGAAAACAT
1 AAAAGATGAAAACAA
831893 AAAAGATGAAAACAA
1 AAAAGATGAAAACAA
831908 AATAAG-TGAAAA
1 AA-AAGATGAAAA
831920 TAAAGATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (15 bp):
AAAAGATGAAAACAA
Found at i:832688 original size:27 final size:26
Alignment explanation
Indices: 832635--832688 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
832625 TAAATTTATG
* * *
832635 TAATAAATTTTTTAATGATTATATTT
1 TAATAAATTATTTAATAACTATATTT
*
832661 TAATATAATTATTTAATAACTATTTTT
1 TAATA-AATTATTTAATAACTATATTT
832688 T
1 T
832689 CATTTCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TAATAAATTATTTAATAACTATATTT
Found at i:832832 original size:26 final size:26
Alignment explanation
Indices: 832796--832851 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
832786 TTTCAAAAAA
* * * * *
832796 AAAAATGAAAATGAGAACTATTTTTT
1 AAAAATAAAAATAAAAAATATTTTCT
832822 AAAAATAAAAATAAAAAATATTTTCT
1 AAAAATAAAAATAAAAAATATTTTCT
832848 AAAA
1 AAAA
832852 CCAAACCTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAAATAAAAATAAAAAATATTTTCT
Found at i:834229 original size:24 final size:24
Alignment explanation
Indices: 834183--834229 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
834173 GTTAAATTGA
* *
834183 TAAACGAACAGAAACGAACGAACG
1 TAAACGAACACAAACAAACGAACG
*
834207 TAAACGAACACAAACAAATGAAC
1 TAAACGAACACAAACAAACGAAC
834230 ATAAGAAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.21, G:0.15, T:0.06
Consensus pattern (24 bp):
TAAACGAACACAAACAAACGAACG
Found at i:834341 original size:19 final size:16
Alignment explanation
Indices: 834308--834347 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 16
834298 ATTTTTATTT
834308 GGTTTTAAAATTAATTG
1 GGTTTTAAAATTAA-TG
834325 GGTTTTAAAATATTAATG
1 GGTTTT-AAA-ATTAATG
834343 GGTTT
1 GGTTT
834348 AAGGTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (16 bp):
GGTTTTAAAATTAATG
Found at i:834372 original size:23 final size:23
Alignment explanation
Indices: 834329--834372 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
834319 TAATTGGGTT
*
834329 TTAAAATATTAATGGGTTTAAGG
1 TTAAAATATTAATAGGTTTAAGG
*
834352 TTAAAAT-TTATTAGGTATTAA
1 TTAAAATATTAATAGGT-TTAA
834373 TATTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (23 bp):
TTAAAATATTAATAGGTTTAAGG
Found at i:836432 original size:13 final size:13
Alignment explanation
Indices: 836399--836434 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
836389 AAGAACAAGC
*
836399 AGATGGAAGCCGG
1 AGATGGAGGCCGG
836412 AGATGGAGGCCGG
1 AGATGGAGGCCGG
836425 AGATGGAGGC
1 AGATGGAGGC
836435 GTTGACCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.14, G:0.50, T:0.08
Consensus pattern (13 bp):
AGATGGAGGCCGG
Found at i:838837 original size:21 final size:21
Alignment explanation
Indices: 838811--838860 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
838801 AGGAGCTCCA
838811 CTCTCTTATCTCTGTTGTCCC
1 CTCTCTTATCTCTGTTGTCCC
838832 CTCTCTTATCTCTGTTGTCCC
1 CTCTCTTATCTCTGTTGTCCC
838853 CTCTCTTA
1 CTCTCTTA
838861 ATCCTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.06, C:0.38, G:0.08, T:0.48
Consensus pattern (21 bp):
CTCTCTTATCTCTGTTGTCCC
Found at i:840455 original size:15 final size:15
Alignment explanation
Indices: 840435--840465 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
840425 ATTAAAAATT
840435 AAGATGGGAGTTGGG
1 AAGATGGGAGTTGGG
840450 AAGATGGGAGTTGGG
1 AAGATGGGAGTTGGG
840465 A
1 A
840466 GGTTAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (15 bp):
AAGATGGGAGTTGGG
Found at i:848858 original size:2 final size:2
Alignment explanation
Indices: 848851--848887 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
848841 GTTGTTGGTA
848851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
848888 ACGTGTAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:849373 original size:543 final size:543
Alignment explanation
Indices: 848345--849427 Score: 2087
Period size: 543 Copynumber: 2.0 Consensus size: 543
848335 GCGTACATAG
848345 CGTGTAATCTAAAAGTGTTCAATATTTACCTGCTTTAGCAAAACTTTAATATAGATCATAGAATT
1 CGTGTAATCTAAAAGTGTTCAATATTTACCTGCTTTAGCAAAACTTTAATATAGATCATAGAATT
848410 TGTCGTCATATGATTATCAAATTTTGACTCAATTGATTTTATCAAAGGACTAATTATAAAATAAG
66 TGTCGTCATATGATTATCAAATTTTGACTCAATTGATTTTATCAAAGGACTAATTATAAAATAAG
848475 TGTTCATATTATAATGTTTTTCACGAATAGATGTTCAAACTTTTTTTTTTAAATGATTCAGGTGC
131 TGTTCATATTATAATGTTTTTCACGAATAGATGTTCAAAC-TTTTTTTTTAAATGATTCAGGTGC
848540 TTAACGTTACAAACGTTATCACTTTAGGTGCTCGGGCCGCAAACACTATTAATTTTTTTCGTTAA
195 TTAACGTTACAAACGTTATCACTTTAGGTGCTCGGGCCGCAAACACTATTAATTTTTTTCGTTAA
848605 ATGAATGTGTCACATTCCGATAATTTTAAAATTTTTATTTAACTTTAAAAAAATTAATATATATA
260 ATGAATGTGTCACATTCCGATAATTTTAAAATTTTTATTTAACTTTAAAAAAATTAATATATATA
848670 TATATATTGAATTAATCACTGGTATCCGATATATTGACAAACTAATCCAGATCAAGTATTGTAGA
325 TATATATTGAATTAATCACTGGTATCCGATATATTGACAAACTAATCCAGATCAAGTATTGTAGA
*
848735 GGCGAGGACGACCCTCCCAACCCAGTTTGCTCCATTCGCAAACGCCAGGATTCGAACCCCTGACA
390 GGCGAGGACGACCCTACCAACCCAGTTTGCTCCATTCGCAAACGCCAGGATTCGAACCCCTGACA
848800 TTACTTAAGGGAACTAGTGTCTCATCTCACTAGATCAATTGGTTGTTGGTAATATATATATATAT
455 TTACTTAAGGGAACTAGTGTCTCATCTCACTAGATCAATTGGTTGTTGGTAATATATATATATAT
848865 ATATATATATATATATATATATAA
520 ATATATATATATATATATATATAA
*
848889 CGTGTAATCTAAAAGTGTTCAATATTTACCTGCTTTAGCAAAACTTTTATATAGATCATAGAATT
1 CGTGTAATCTAAAAGTGTTCAATATTTACCTGCTTTAGCAAAACTTTAATATAGATCATAGAATT
*
848954 TGTCGTCATATGATTATCAAATTTTGACTCAATTGATTTTATCAAAGGAGTAATTATAAAATAAG
66 TGTCGTCATATGATTATCAAATTTTGACTCAATTGATTTTATCAAAGGACTAATTATAAAATAAG
* *
849019 TGTTCATATTATAATGTTTTTCACGAATAGGTGTTCAAAC-TTTTTTTTGAATGATTCAGGTGCT
131 TGTTCATATTATAATGTTTTTCACGAATAGATGTTCAAACTTTTTTTTTAAATGATTCAGGTGCT
849083 TAACGTTACAAACGTTATCACTTTAGGTGCTCGGGCCGCAAACACTATTAATTTTTTTTCGTTAA
196 TAACGTTACAAACGTTATCACTTTAGGTGCTCGGGCCGCAAACACTATTAA-TTTTTTTCGTTAA
849148 ATGAATGTGTCACATTCCGATAATTTTAAAATTTTTATTTAACTTTAAAAAAATTAATATATATA
260 ATGAATGTGTCACATTCCGATAATTTTAAAATTTTTATTTAACTTTAAAAAAATTAATATATATA
849213 TATATATTGAATTAATCACTGGTATCCGATATATTGACAAACTAATCCAGATCAAGTATTGTAGA
325 TATATATTGAATTAATCACTGGTATCCGATATATTGACAAACTAATCCAGATCAAGTATTGTAGA
*
849278 GGCGAGGGCGACCCTACCAACCCAGTTTGCTCCATTCGCAAACGCCAGGATTCGAACCCCTGACA
390 GGCGAGGACGACCCTACCAACCCAGTTTGCTCCATTCGCAAACGCCAGGATTCGAACCCCTGACA
849343 TTACTTAAGGGAACTAGTGTCTCATCTCACTAGATCAATTGGTTGTTGGTAATATATATATATAT
455 TTACTTAAGGGAACTAGTGTCTCATCTCACTAGATCAATTGGTTGTTGGTAATATATATATATAT
849408 ATATATATATATATATATAT
520 ATATATATATATATATATAT
849428 TAAAAACAAA
Statistics
Matches: 532, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
542 74 0.14
543 291 0.55
544 167 0.31
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (543 bp):
CGTGTAATCTAAAAGTGTTCAATATTTACCTGCTTTAGCAAAACTTTAATATAGATCATAGAATT
TGTCGTCATATGATTATCAAATTTTGACTCAATTGATTTTATCAAAGGACTAATTATAAAATAAG
TGTTCATATTATAATGTTTTTCACGAATAGATGTTCAAACTTTTTTTTTAAATGATTCAGGTGCT
TAACGTTACAAACGTTATCACTTTAGGTGCTCGGGCCGCAAACACTATTAATTTTTTTCGTTAAA
TGAATGTGTCACATTCCGATAATTTTAAAATTTTTATTTAACTTTAAAAAAATTAATATATATAT
ATATATTGAATTAATCACTGGTATCCGATATATTGACAAACTAATCCAGATCAAGTATTGTAGAG
GCGAGGACGACCCTACCAACCCAGTTTGCTCCATTCGCAAACGCCAGGATTCGAACCCCTGACAT
TACTTAAGGGAACTAGTGTCTCATCTCACTAGATCAATTGGTTGTTGGTAATATATATATATATA
TATATATATATATATATATATAA
Found at i:849401 original size:2 final size:2
Alignment explanation
Indices: 849394--849427 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
849384 GTTGTTGGTA
849394 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
849428 TAAAAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:855465 original size:6 final size:6
Alignment explanation
Indices: 855456--855480 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
855446 GGGATGATAA
855456 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
855481 AAACTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:855649 original size:27 final size:27
Alignment explanation
Indices: 855617--855669 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
855607 AATAAATTTA
*
855617 ATTTAAATAAAAAATATATATTTATAT
1 ATTTAAATAAAAAATATATATATATAT
* * *
855644 ATTTAATTTAAATATATATATATATA
1 ATTTAAATAAAAAATATATATATATA
855670 CCCGGCCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTTAAATAAAAAATATATATATATAT
Found at i:855702 original size:12 final size:12
Alignment explanation
Indices: 855687--855721 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
855677 CGATTCTCGG
855687 CCCAATACCCGA
1 CCCAATACCCGA
855699 CCCAATACCCGA
1 CCCAATACCCGA
855711 CCCAATACCCG
1 CCCAATACCCG
855722 TTTAAATAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.51, G:0.09, T:0.09
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:860833 original size:57 final size:57
Alignment explanation
Indices: 860743--860858 Score: 169
Period size: 57 Copynumber: 2.0 Consensus size: 57
860733 ACCCATCTGC
* *
860743 ATCAATGCTGAGTTACTTTGGCTACTTTGCACACCATGAGAAGCAACTTGCATATTT
1 ATCAATGCCGAGTTACTTTGGCCACTTTGCACACCATGAGAAGCAACTTGCATATTT
* * * * *
860800 ATCAATTCCGAGTTATTTTGGCCACTTTTCACACCATGTGAAGCGACTTGCATATTT
1 ATCAATGCCGAGTTACTTTGGCCACTTTGCACACCATGAGAAGCAACTTGCATATTT
860857 AT
1 AT
860859 GTTTCCTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (57 bp):
ATCAATGCCGAGTTACTTTGGCCACTTTGCACACCATGAGAAGCAACTTGCATATTT
Found at i:864165 original size:60 final size:58
Alignment explanation
Indices: 864021--864166 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 58
864011 TATTTAGGGT
* * *
864021 AAAGTATAC-AAATGGTCCCTGATTATAGGATGATACTTTGGTAAGCCTCTCGACTATTA
1 AAAGT-TACAAAATGGTCCCTGACTATAGGAT-ATACTTTGGTAAGCCCCTCGACCATTA
* * * *
864080 AAAGTTATAAAATGATCCCCCGACTATA-GAGTATTACTTTGTTAAGCCCCTCGACCATTA
1 AAAGTTACAAAATGGT-CCCTGACTATAGGA-TA-TACTTTGGTAAGCCCCTCGACCATTA
864140 AAAGTTACAAAATGGTCACCTGACTAT
1 AAAGTTACAAAATGGTC-CCTGACTAT
864167 TCATTATATT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
58 2 0.03
59 15 0.21
60 55 0.76
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (58 bp):
AAAGTTACAAAATGGTCCCTGACTATAGGATATACTTTGGTAAGCCCCTCGACCATTA
Found at i:869085 original size:58 final size:58
Alignment explanation
Indices: 869022--869132 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
869012 GTATTTAATG
* * **
869022 TAATGGGTCGGAACACGGGCCGACATTTTGGTATTCGAAAATTTCTG-GTACCCAGATA
1 TAATGGGCCGGAACACGGGCCGACATTTTAGTACCCGAAAATTT-TGAGTACCCAGATA
* * *
869080 TAATGGGCCGGGATACGGGGCGACATTTTAGTACCCGAAAATTTTGAGTACCC
1 TAATGGGCCGGAACACGGGCCGACATTTTAGTACCCGAAAATTTTGAGTACCC
869133 GATTTTATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
57 2 0.04
58 43 0.96
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (58 bp):
TAATGGGCCGGAACACGGGCCGACATTTTAGTACCCGAAAATTTTGAGTACCCAGATA
Found at i:871599 original size:31 final size:30
Alignment explanation
Indices: 871563--871640 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
871553 ATTTTAAAAA
871563 AATTAAAAGTTTAAATATTTGATAATTTAAGT
1 AATTAAAAGTTTAAA-A-TTGATAATTTAAGT
* *
871595 -ATTAAAAAATATCAAAATTGATAATTTAAGT
1 AATT-AAAAGT-TTAAAATTGATAATTTAAGT
*
871626 AAATAAACAGTTTAA
1 AATTAAA-AGTTTAA
871641 GCTTTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
31 23 0.62
32 10 0.27
33 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTAAAAGTTTAAAATTGATAATTTAAGT
Found at i:875693 original size:23 final size:24
Alignment explanation
Indices: 875649--875702 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
875639 GATATTTTAA
*
875649 AAAAATTATTTAAAAAATAAAAAT
1 AAAAATTATATAAAAAATAAAAAT
**
875673 AAAAATTATATATTAAA-AAAAAT
1 AAAAATTATATAAAAAATAAAAAT
875696 AAAAATT
1 AAAAATT
875703 TTAAAATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAAATTATATAAAAAATAAAAAT
Found at i:876469 original size:2 final size:2
Alignment explanation
Indices: 876462--876497 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
876452 TAATTAGTGG
876462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
876498 TTCCCTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:881736 original size:110 final size:109
Alignment explanation
Indices: 881543--881755 Score: 408
Period size: 110 Copynumber: 1.9 Consensus size: 109
881533 ACCCTATATG
*
881543 ACAATATAGATAAGTTTACAAGTATACTTAACAATATATAATTTTTTAGCCACATGTTGGTCCTA
1 ACAATATAGATAAGTTTACAAGTATACTTAACAATATATAAGTTTTTAGCCACATGTTGGTCCTA
881608 CGTTGCTCCGACTGAAGTACAACCAAAATCCGACACATTCCGAAT
66 CGTTGCTCCGACTGAAGTAC-ACCAAAATCCGACACATTCCGAAT
881653 ACAATATAGATAAGTTTACAAGTATACTTAACAATATATAAGTTTTTAGCCACATGTTGGTCCTA
1 ACAATATAGATAAGTTTACAAGTATACTTAACAATATATAAGTTTTTAGCCACATGTTGGTCCTA
881718 CGTTGCTCCGACTGAAGTACACCAAAATCCGACACATT
66 CGTTGCTCCGACTGAAGTACACCAAAATCCGACACATT
881756 AGAATATGGA
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 18 0.18
110 84 0.82
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (109 bp):
ACAATATAGATAAGTTTACAAGTATACTTAACAATATATAAGTTTTTAGCCACATGTTGGTCCTA
CGTTGCTCCGACTGAAGTACACCAAAATCCGACACATTCCGAAT
Found at i:887559 original size:31 final size:32
Alignment explanation
Indices: 887524--887584 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
887514 GAGGACCCAC
* *
887524 GTTCGAGTACTATAGATATTAAGA-TGTGAGT
1 GTTCGAGTACTATAAATATCAAGAGTGTGAGT
887555 GTTCGAGTACTATAAATATCAAGAGTGTGA
1 GTTCGAGTACTATAAATATCAAGAGTGTGA
887585 ACGTTCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (32 bp):
GTTCGAGTACTATAAATATCAAGAGTGTGAGT
Found at i:891076 original size:55 final size:55
Alignment explanation
Indices: 890990--891097 Score: 171
Period size: 55 Copynumber: 2.0 Consensus size: 55
890980 TGGTTTTCTA
*
890990 GTAAATCCCATAACTCGCTCTCATATATTCTTTTCCATTCATCAAGATTCTTATG
1 GTAAATCCCATAACTCGCTCTCATATATTCTTTCCCATTCATCAAGATTCTTATG
** * *
891045 GTAAATCCCATATGTCGCTCTCATATGTTCTTTCCCATTCATCAAGTTTCTTA
1 GTAAATCCCATAACTCGCTCTCATATATTCTTTCCCATTCATCAAGATTCTTA
891098 GTTTGAATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.25, C:0.26, G:0.08, T:0.41
Consensus pattern (55 bp):
GTAAATCCCATAACTCGCTCTCATATATTCTTTCCCATTCATCAAGATTCTTATG
Found at i:896816 original size:22 final size:22
Alignment explanation
Indices: 896788--896844 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
896778 AATATCCGGA
*
896788 AAAATAACTGGGTAGACAGGCC
1 AAAATAACTAGGTAGACAGGCC
*
896810 AAAATAACTAGGTATACAGGCC
1 AAAATAACTAGGTAGACAGGCC
896832 AAAATAACTAGGT
1 AAAATAACTAGGT
896845 TGAAAGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.18
Consensus pattern (22 bp):
AAAATAACTAGGTAGACAGGCC
Found at i:904208 original size:8 final size:8
Alignment explanation
Indices: 904195--904227 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
904185 CTCATTTTCA
904195 GAGAATTT
1 GAGAATTT
904203 GAGAATTT
1 GAGAATTT
*
904211 -AGAGTTT
1 GAGAATTT
904218 GAGAATTT
1 GAGAATTT
904226 GA
1 GA
904228 AAACTTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (8 bp):
GAGAATTT
Found at i:904599 original size:128 final size:128
Alignment explanation
Indices: 904308--905040 Score: 1193
Period size: 128 Copynumber: 5.7 Consensus size: 128
904298 ACTATTCACA
*
904308 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGCTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
904373 TTATGTCACTCATGTCCCTCGGGG--ACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * * * *
904434 TGAAGGCGTGTTCCCGGGGGTGCGTCTTCCATTATTTTGTTAGAGAATATATTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
904499 TTATGTCACTCATGTCCCTCAGGGACACTATTCATATCATTACCTATTATTTCTCAAGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * * * *
904562 TAAAGACGCGTTTCCGGGGGTGCGCCTTCCATTATTTTGTCAGAAAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
904627 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCATTACCTATTATTTCTCAAGGGTCT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
* * *
904690 TGAAGGCACGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCATA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
904755 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACTTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
*
904818 TGAAGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
904883 TTATGTCACTCATATCCCTCGGGGATACTATTCATATCAGTACCTATTATTTCTC-AGGAGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGG-GACT
* * *
904946 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTATCAGAGAATATGTTATCATCGCCTTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
905011 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
905041 GATGGATTGT
Statistics
Matches: 559, Mismatches: 45, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
126 82 0.15
127 2 0.00
128 475 0.85
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAAGGGACT
Found at i:905317 original size:14 final size:14
Alignment explanation
Indices: 905298--905327 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
905288 GATAAGTTGA
*
905298 TTTTAATGTATATG
1 TTTTAATATATATG
905312 TTTTAATATATATG
1 TTTTAATATATATG
905326 TT
1 TT
905328 AATGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTTTAATATATATG
Found at i:905436 original size:34 final size:34
Alignment explanation
Indices: 905397--905463 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
905387 TTGGAATATA
* *
905397 ATTTTAAATTTCGAATAATATTATTTTTATTTTT
1 ATTTTAAATTTCGAATAATATAATTTGTATTTTT
905431 ATTTTAAATTTCGAATAATATAATTTGTATTTT
1 ATTTTAAATTTCGAATAATATAATTTGTATTTT
905464 ACAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (34 bp):
ATTTTAAATTTCGAATAATATAATTTGTATTTTT
Found at i:906012 original size:21 final size:21
Alignment explanation
Indices: 905986--906100 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
905976 TATGGTATAA
905986 AACCCTGCGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
906007 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
* *
906028 AA-CCTGGTGGGTTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
906049 AACCCTACGGTCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
* *
906070 AACCCTGCGGGATCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
906091 AACCCTGCGG
1 AACCCTGCGG
906101 AGATGGCATA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
20 3 0.04
21 74 0.93
22 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.21
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:906130 original size:21 final size:21
Alignment explanation
Indices: 906104--906151 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
906094 CCTGCGGAGA
*
906104 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
906125 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
906146 GGGCAT
1 TGGCAT
906152 GTACCCCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:908588 original size:21 final size:21
Alignment explanation
Indices: 908558--908605 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
908548 GCAGGGGTAC
* *
908558 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
908579 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
908600 ATGCCA
1 ATGCCA
908606 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:908635 original size:21 final size:21
Alignment explanation
Indices: 908609--908678 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
908599 TATGCCATCT
* *
908609 CCGCAGGGTTACATTTCGAGC
1 CCGCAGGGTTACATTCCTAGC
908630 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
908651 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
908672 CCGCAGG
1 CCGCAGG
908679 ATTTTATACC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.05
21 40 0.91
22 2 0.05
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:909205 original size:28 final size:28
Alignment explanation
Indices: 909173--909230 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
909163 ATTAAATGTT
* *
909173 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
909201 TTTAAAATAAAAATAATATTATTTAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
909229 TT
1 TT
909231 ATATTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:910098 original size:127 final size:128
Alignment explanation
Indices: 909557--910251 Score: 1168
Period size: 128 Copynumber: 5.5 Consensus size: 128
909547 AAATTTTGGT
*
909557 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCAAGTCC
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
*
909622 CCTGAGAAATAATAGGTACTGATA-GAATAGTATCCCCGAGGGACATGAGTGACATAATAGGG
66 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACATGAGTGACATAATAGGG
909684 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
*
909749 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCTCCGAGGGACATGAGTGACATAATAGGG
66 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACATGAGTGACATAATAGGG
*
909812 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCAAGTCC
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
* * *
909877 CTTGA-AAATGATAGGTAATGATATGAATA--GTCCCCGAGGGACATGAGTGACATAATAGGG
66 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACATGAGTGACATAATAGGG
* * *
909937 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCACGCCGCC-GGAACGCGCCTTTAAGTCC
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
* *
910001 CCTGAGAAATAATAGATAATGATATGAATAGTGTCCCCGAGGGA-ATTGAGTGACATAATAGGG
66 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACA-TGAGTGACATAATAGGG
* * * *
910064 CAATGATAACATATTTTCTGACAAATTAATGGAAGGCGCGCCCCCGTGAACGCGCCTTCAAATCC
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
*
910129 CCTGAGAAATAATAGGTACTGATATGAATAGTATCCCCGAGGGACATGAGTGACATAATAGGG
66 CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACATGAGTGACATAATAGGG
* *
910192 CAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCCTGGAACGCGCCTTCA
1 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCA
910252 TATGAATAGT
Statistics
Matches: 531, Mismatches: 30, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
124 22 0.04
125 94 0.18
126 1 0.00
127 180 0.34
128 233 0.44
129 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (128 bp):
CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCC
CCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAGGGACATGAGTGACATAATAGGG
Found at i:915735 original size:161 final size:160
Alignment explanation
Indices: 915454--915775 Score: 619
Period size: 161 Copynumber: 2.0 Consensus size: 160
915444 AAAGGTCCCC
915454 GAAAGACAGAGGAGGTGGAACCACAGCCCCAGAGGGCCCAAGACAGACCAAGGTACAACGACAGG
1 GAAAGACAGAGGAGGTGGAACCACAGCCCCAGAGGGCCCAAGACAGACCAAGGTACAACGACAGG
915519 ACCGCCATGCACGTCGAATGCGCTGAAACCTACTATTACAAAAGAATAGGTGTATAGAG-TGGAA
66 ACCGCCATGCACGTCGAATGCGCTGAAACCTACTATTACAAAAGAATAGGTGTATAGAGTTGGAA
915583 GCAATGAGGTTGATGTGTTGCTGGACGTAT
131 GCAATGAGGTTGATGTGTTGCTGGACGTAT
915613 GAAAGACAGAGGAGGGTGGAACCACAGCCCCAGAGGGCCCAAGACAGACCAAGGTACAACGACAG
1 GAAAGACAGAGGA-GGTGGAACCACAGCCCCAGAGGGCCCAAGACAGACCAAGGTACAACGACAG
915678 GACCCGCCATGCACGTCGAATGCGCTGAAACCTACTATTACAAAAGAATAGGTGTATAGAGTTGG
65 GA-CCGCCATGCACGTCGAATGCGCTGAAACCTACTATTACAAAAGAATAGGTGTATAGAGTTGG
915743 AAGCAATGAGGTTGATGTGTTGCTGGACGTAT
129 AAGCAATGAGGTTGATGTGTTGCTGGACGTAT
915775 G
1 G
915776 GATGATGAAT
Statistics
Matches: 160, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
159 13 0.08
160 53 0.33
161 58 0.36
162 36 0.22
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.16
Consensus pattern (160 bp):
GAAAGACAGAGGAGGTGGAACCACAGCCCCAGAGGGCCCAAGACAGACCAAGGTACAACGACAGG
ACCGCCATGCACGTCGAATGCGCTGAAACCTACTATTACAAAAGAATAGGTGTATAGAGTTGGAA
GCAATGAGGTTGATGTGTTGCTGGACGTAT
Found at i:916253 original size:10 final size:10
Alignment explanation
Indices: 916238--916267 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
916228 CATTTTCTTC
*
916238 ATATATGCAT
1 ATATATACAT
916248 ATATATACAT
1 ATATATACAT
916258 ATATATACAT
1 ATATATACAT
916268 GTATTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATATACAT
Found at i:917493 original size:45 final size:47
Alignment explanation
Indices: 917315--917523 Score: 203
Period size: 45 Copynumber: 4.4 Consensus size: 47
917305 TGATGCATAA
* * * *
917315 AACCCTAAACCCTAAAATGGGA-GAAAAAGAACAAAG--CTTTTAATG
1 AACCCTAAACCCTAAAAT-GAATGCAAAAGAACAAAGTTTTTTTCATG
* * *
917360 AACCCTGAACCCTGAAATGAACGCAAAAGAACAAAGTTTTTTTCATG
1 AACCCTAAACCCTAAAATGAATGCAAAAGAACAAAGTTTTTTTCATG
* * * ***
917407 ATCCCTACACCCTAAAATGAGTGCAAAAGAAGTGAG-TTTTTTCATG
1 AACCCTAAACCCTAAAATGAATGCAAAAGAACAAAGTTTTTTTCATG
*
917453 AACCCTAAACCCT-AAATGAATGCAAAAGAAGAAAGTTTTTTTTCATG
1 AACCCTAAACCCTAAAATGAATGCAAAAGAACAAAG-TTTTTTTCATG
*
917500 AAACCCCTAAACCATAAAGATGAA
1 -AA-CCCTAAACCCTAAA-ATGAA
917524 AGTTCTTACC
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.01
45 48 0.36
46 21 0.16
47 44 0.33
48 2 0.01
49 10 0.07
50 2 0.01
51 5 0.04
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (47 bp):
AACCCTAAACCCTAAAATGAATGCAAAAGAACAAAGTTTTTTTCATG
Found at i:927325 original size:21 final size:20
Alignment explanation
Indices: 927298--927358 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
927288 ATTATCTTTC
927298 TTTTAATAATAATTTTTTAA
1 TTTTAATAATAATTTTTTAA
*
927318 TATTTAATAAT-ATTTATTTAC
1 T-TTTAATAATAATTT-TTTAA
927339 TTTTAA-AATTAATTTTTTAA
1 TTTTAATAA-TAATTTTTTAA
927359 AAATATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 2 0.06
20 15 0.43
21 18 0.51
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAATAATAATTTTTTAA
Found at i:927385 original size:44 final size:41
Alignment explanation
Indices: 927297--927386 Score: 101
Period size: 41 Copynumber: 2.1 Consensus size: 41
927287 TATTATCTTT
* * * *
927297 CTTTTAATAATAATTTTTTAATATTTAATAATATTTATTTA
1 CTTTTAATAATAATTTTTTAAAATTTAAAAAAATTTATTCA
927338 CTTTTAA-AATTAATTTTTTAAAAATATTAAAAAAATATTATTCA
1 CTTTTAATAA-TAATTTTTT-AAAAT-TTAAAAAAAT-TTATTCA
927382 CTTTT
1 CTTTT
927387 TTAAAAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.05
41 16 0.39
42 4 0.10
43 8 0.20
44 11 0.27
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (41 bp):
CTTTTAATAATAATTTTTTAAAATTTAAAAAAATTTATTCA
Found at i:927879 original size:26 final size:26
Alignment explanation
Indices: 927850--927902 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
927840 GTTTATTCAT
927850 TTTTA-ATAAATTAAAATTTAATATTA
1 TTTTATATAAATTAAAA-TTAATATTA
***
927876 TTTTATATTTTTTAAAATTAATATTA
1 TTTTATATAAATTAAAATTAATATTA
927902 T
1 T
927903 AAATAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTATATAAATTAAAATTAATATTA
Found at i:927913 original size:35 final size:34
Alignment explanation
Indices: 927848--927915 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
927838 ATGTTTATTC
*
927848 ATTTTTAATAAATTAAAATTTAATATTATTTTAT
1 ATTTTTAATAAATTAAAATTTAATAATATTTTAT
* *
927882 ATTTTTTA-AAATTAATATTATAAATAATATTTTA
1 ATTTTTAATAAATTAAAATT-T-AATAATATTTTA
927916 AATAAAGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 10 0.34
34 8 0.28
35 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
ATTTTTAATAAATTAAAATTTAATAATATTTTAT
Found at i:927976 original size:21 final size:20
Alignment explanation
Indices: 927952--928022 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
927942 TTACATTATA
927952 TTTTTATTGAATTTTATTCAT
1 TTTTTATT-AATTTTATTCAT
* *
927973 TTTTAATTCATTTTTATTGCA-
1 TTTTTATT-AATTTTATT-CAT
*
927994 TTTTTATTTATTTTA-T-AT
1 TTTTTATTAATTTTATTCAT
928012 TTTTTA-TAATT
1 TTTTTATTAATT
928023 AATATTATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
19 1 0.02
20 5 0.12
21 22 0.54
22 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTATTAATTTTATTCAT
Found at i:927998 original size:22 final size:20
Alignment explanation
Indices: 927951--928012 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
927941 TTTACATTAT
* *
927951 ATTTTTATTGAATTTTATTC
1 ATTTTTATTCATTTTTATTC
927971 ATTTTTAATTCATTTTTATTGC
1 ATTTTT-ATTCATTTTTATT-C
*
927993 ATTTTTATTTATTTTATATT
1 ATTTTTATTCATTTT-TATT
928013 TTTTATAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.17
21 19 0.53
22 11 0.31
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTATTCATTTTTATTC
Found at i:928006 original size:10 final size:10
Alignment explanation
Indices: 927951--928012 Score: 70
Period size: 11 Copynumber: 5.9 Consensus size: 10
927941 TTTACATTAT
*
927951 ATTTTTATTG
1 ATTTTTATTC
*
927961 AATTTTATTC
1 ATTTTTATTC
927971 ATTTTTAATTC
1 ATTTTT-ATTC
927982 ATTTTTATTGC
1 ATTTTTATT-C
*
927993 ATTTTTATTT
1 ATTTTTATTC
928003 ATTTTATATT
1 ATTTT-TATT
928013 TTTTATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
10 21 0.47
11 24 0.53
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:930176 original size:30 final size:29
Alignment explanation
Indices: 930142--930209 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
930132 TTTAGTATAA
* *
930142 TGTTCGTGTTCGTTTATTTATTTTTAAAGG
1 TGTTCATGTTCGCTTATTTATTTTTAAA-G
* *
930172 TGTTCATGTTCGCTTGTTTATTTTTGAAG
1 TGTTCATGTTCGCTTATTTATTTTTAAAG
930201 TGTT-ATGTT
1 TGTTCATGTT
930210 TTGTTAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 5 0.15
29 5 0.15
30 24 0.71
ACGTcount: A:0.15, C:0.07, G:0.21, T:0.57
Consensus pattern (29 bp):
TGTTCATGTTCGCTTATTTATTTTTAAAG
Found at i:933037 original size:2 final size:2
Alignment explanation
Indices: 933030--933082 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
933020 ATAGTTGATA
933030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
933072 AT AT AT AT AT A
1 AT AT AT AT AT A
933083 AATTTATTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:937230 original size:2 final size:2
Alignment explanation
Indices: 937218--937264 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
937208 CTGAAGGATT
*
937218 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
937260 TA TA T
1 TA TA T
937265 GTTTCATCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:942024 original size:2 final size:2
Alignment explanation
Indices: 942017--942052 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
942007 AAGAATAAGG
942017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
942053 GAATATTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:944348 original size:33 final size:33
Alignment explanation
Indices: 944311--944378 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
944301 AGGCTACAGA
944311 GCACTCTGGAATTGCAAATGAAACCTCTCACCG
1 GCACTCTGGAATTGCAAATGAAACCTCTCACCG
944344 GCACTCTGGAATTGCAAATGAAACCTCTCACCG
1 GCACTCTGGAATTGCAAATGAAACCTCTCACCG
944377 GC
1 GC
944379 GCAAGAAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (33 bp):
GCACTCTGGAATTGCAAATGAAACCTCTCACCG
Found at i:952394 original size:70 final size:71
Alignment explanation
Indices: 952313--952453 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 71
952303 ACTCAACTTT
* * *
952313 AAAACTTTTAAAAAGAACAATAC-TTCTTCTACCACCAAATTCGTTCGATAATTGTATAATATCC
1 AAAACTTTTAAAAAGAACAATACTTTCTTCTACCACCAAATTCGCTCAATAATTGTATAACATCC
952377 TAACTC
66 TAACTC
* * **
952383 AAAACTTTTAAAGAGAACAATACTTTCTTTTACCATTAAATTCGCTCAATAATTGTATAACATCC
1 AAAACTTTTAAAAAGAACAATACTTTCTTCTACCACCAAATTCGCTCAATAATTGTATAACATCC
952448 TAACTC
66 TAACTC
952454 GCTTCCATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 22 0.35
71 41 0.65
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.34
Consensus pattern (71 bp):
AAAACTTTTAAAAAGAACAATACTTTCTTCTACCACCAAATTCGCTCAATAATTGTATAACATCC
TAACTC
Found at i:954032 original size:15 final size:16
Alignment explanation
Indices: 954012--954044 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
954002 AAAATACAAC
954012 ATTCCC-AGTAATCTT
1 ATTCCCTAGTAATCTT
*
954027 ATTCCCTTGTAATCTT
1 ATTCCCTAGTAATCTT
954043 AT
1 AT
954045 ATTCCGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTCCCTAGTAATCTT
Found at i:962205 original size:20 final size:20
Alignment explanation
Indices: 962180--962296 Score: 198
Period size: 20 Copynumber: 5.8 Consensus size: 20
962170 TTTTTCGACT
*
962180 ATCGCAATGCGAATATTTAA
1 ATCGCAATGCGAATATGTAA
*
962200 ATCGCAACGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
962220 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
962240 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
962260 ATCACAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
962280 ATCGCAATGCGAGTATG
1 ATCGCAATGCGAATATG
962297 ACTATCGCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 91 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:962303 original size:20 final size:19
Alignment explanation
Indices: 962179--962326 Score: 125
Period size: 20 Copynumber: 7.4 Consensus size: 19
962169 ATTTTTCGAC
*
962179 TATCGCAATGCGAATATTTA
1 TATCGCAATGCGAATA-TGA
* *
962199 AATCGCAACGCGAATATGTA
1 TATCGCAATGCGAATATG-A
*
962219 AATCGCAATGCGAATATGTA
1 TATCGCAATGCGAATATG-A
*
962239 AATCGCAATGCGAATATGTA
1 TATCGCAATGCGAATATG-A
* *
962259 AATCACAATGCGAATATGTA
1 TATCGCAATGCGAATATG-A
* *
962279 AATCGCAATGCGAGTATGA
1 TATCGCAATGCGAATATGA
* * *
962298 CTATCGCAACGCGATTCTGA
1 -TATCGCAATGCGAATATGA
962318 TTATCGCAA
1 -TATCGCAA
962327 CGAGATTCTG
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 2 0.02
20 112 0.98
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (19 bp):
TATCGCAATGCGAATATGA
Found at i:962304 original size:60 final size:60
Alignment explanation
Indices: 962176--962311 Score: 202
Period size: 60 Copynumber: 2.3 Consensus size: 60
962166 GCGATTTTTC
* *
962176 GACTATCGCAATGCGAATATTTAAATCGCAACGCGAATATGTAAATCGCAATGCGAATAT
1 GACTATCGCAATGCGAATATGTAAATCACAACGCGAATATGTAAATCGCAATGCGAATAT
* * *
962236 GTA-AATCGCAATGCGAATATGTAAATCACAATGCGAATATGTAAATCGCAATGCGAGTAT
1 G-ACTATCGCAATGCGAATATGTAAATCACAACGCGAATATGTAAATCGCAATGCGAATAT
*
962296 GACTATCGCAACGCGA
1 GACTATCGCAATGCGA
962312 TTCTGATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 1 0.01
60 65 0.97
61 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (60 bp):
GACTATCGCAATGCGAATATGTAAATCACAACGCGAATATGTAAATCGCAATGCGAATAT
Found at i:962327 original size:20 final size:20
Alignment explanation
Indices: 962280--962393 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
962270 GAATATGTAA
* * *
962280 ATCGCAATGCGAGTATGACT
1 ATCGCAACGCGATTCTGACT
*
962300 ATCGCAACGCGATTCTGATT
1 ATCGCAACGCGATTCTGACT
*
962320 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
962340 GTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* *
962360 GTCGCAACGCGATGCTGACT
1 ATCGCAACGCGATTCTGACT
*
962380 ATCGCAATGCGATT
1 ATCGCAACGCGATT
962394 TTCAAAGCGC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:962592 original size:22 final size:22
Alignment explanation
Indices: 962567--962614 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
962557 GGCGACATAC
962567 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
962589 GTCCCCATCTCCGGCGAAATCC
1 GTCCCCATCTCCGACGAAATCA
962611 GTCC
1 GTCC
962615 ATCTCCATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.44, G:0.17, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:962618 original size:20 final size:21
Alignment explanation
Indices: 962570--962620 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
962560 GACATACGTC
962570 CCCATCTCCGACGAAATCAGT
1 CCCATCTCCGACGAAATCAGT
* *
962591 CCCCATCTCCGGCGAAATCCGT
1 -CCCATCTCCGACGAAATCAGT
962613 -CCATCTCC
1 CCCATCTCC
962621 ATCTCTCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
22 19 0.70
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.20
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCAGT
Found at i:963100 original size:20 final size:20
Alignment explanation
Indices: 962995--963101 Score: 119
Period size: 20 Copynumber: 5.5 Consensus size: 20
962985 AGAATCGCAA
*
962995 TGCGATTTT-AGTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
963014 TGCGATTTTCA-TTTCGTGT
1 TGCGATTTTCATTTTCGTGT
** ** *
963033 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGTGT
**
963053 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
*
963073 TGCTATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
963093 TGCGATTTT
1 TGCGATTTT
963102 AAGTTTCAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
19 26 0.35
20 49 0.65
ACGTcount: A:0.14, C:0.15, G:0.22, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:965021 original size:22 final size:22
Alignment explanation
Indices: 964990--965061 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
964980 TTGAGTGGCA
964990 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
965013 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
* *
965035 TATG-AGTTGTCCCGAATGACC
1 TATGAATTTGTCCCGAAGGACC
965056 TATGAA
1 TATGAA
965062 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.43
22 22 0.50
23 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:965046 original size:21 final size:21
Alignment explanation
Indices: 964998--965060 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
964988 CATATGAAAT
* *
964998 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
965020 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
*
965041 TTGTCCCGAATGACCTATGA
1 TTGTCCCGAAGGACCTATGA
965061 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:966528 original size:64 final size:65
Alignment explanation
Indices: 966456--966597 Score: 196
Period size: 65 Copynumber: 2.2 Consensus size: 65
966446 GTACTACACC
* ** * *
966456 ATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTTAATGGGGATGCATCGATGCACTCCTT
1 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAAGGCATGCATCGATGCACTCCAT
** *
966520 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAATTCATGCATCGATGCACTGCAT
1 ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAAGGCATGCATCGATGCACTCCAT
*
966585 GTGCATCGATGCA
1 ATGCATCGATGCA
966598 CCCTAAACAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 29 0.43
65 39 0.57
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (65 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAAGGCATGCATCGATGCACTCCAT
Found at i:970010 original size:22 final size:22
Alignment explanation
Indices: 969979--970050 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
969969 CTGAGTGGCA
969979 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
970002 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
* *
970024 TATG-AGTTGTCCCGAAAGACC
1 TATGAATTTGTCCCGAAGGACC
970045 TATGAA
1 TATGAA
970051 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.43
22 22 0.50
23 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:970035 original size:21 final size:21
Alignment explanation
Indices: 969987--970049 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
969977 CATATGAAAT
* *
969987 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
970009 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
*
970030 TTGTCCCGAAAGACCTATGA
1 TTGTCCCGAAGGACCTATGA
970050 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:971831 original size:14 final size:14
Alignment explanation
Indices: 971794--971855 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
971784 TTGCTTGTTT
*
971794 AATTGATTTATAAA
1 AATTGATTTGTAAA
971808 AATTGATTTGTAAA
1 AATTGATTTGTAAA
* *
971822 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
971837 TATTGATGTGTAAA
1 AATTGATTTGTAAA
971851 TAATT
1 -AATT
971856 CTTATTTGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 13 0.34
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:971992 original size:20 final size:20
Alignment explanation
Indices: 971969--972007 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
971959 ACGCTAAACT
971969 CAAAATCGCAACGAGAAAGA
1 CAAAATCGCAACGAGAAAGA
* *
971989 CAAAATCGCCACGCGAAAG
1 CAAAATCGCAACGAGAAAG
972008 TCAATTCGCG
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:0.49, C:0.26, G:0.21, T:0.05
Consensus pattern (20 bp):
CAAAATCGCAACGAGAAAGA
Found at i:972023 original size:19 final size:20
Alignment explanation
Indices: 972001--972043 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
971991 AAATCGCCAC
*
972001 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
972020 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
972040 GCGA
1 GCGA
972044 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:972098 original size:20 final size:20
Alignment explanation
Indices: 972072--972280 Score: 191
Period size: 20 Copynumber: 10.8 Consensus size: 20
972062 CAAATAATCA
972072 TTGCGATAATCAAATTCGCG
1 TTGCGATAATCAAATTCGCG
*
972092 TTACGATAATCAAATTCGCG
1 TTGCGATAATCAAATTCGCG
* * *
972112 TTACGATACTCAAATTCGCA
1 TTGCGATAATCAAATTCGCG
*
972132 TTGCGAT--T----TTCTCG
1 TTGCGATAATCAAATTCGCG
* *
972146 TTGCGATATTCAAA-TAGCCG
1 TTGCGATAATCAAATTCG-CG
*
972166 TTGCGATAGTCAAATTCGCG
1 TTGCGATAATCAAATTCGCG
*
972186 TTGCGATAGA-AAAATTCGCG
1 TTGCGATA-ATCAAATTCGCG
* * * *
972206 TTGCGCTAGTCATATTCGTG
1 TTGCGATAATCAAATTCGCG
*
972226 TTGCGATAGTCAAATTCGCG
1 TTGCGATAATCAAATTCGCG
**
972246 TTGTTATAATCAAATTCGCG
1 TTGCGATAATCAAATTCGCG
*
972266 TTGCGATAGTCAAAT
1 TTGCGATAATCAAAT
972281 GAATGTGTAA
Statistics
Matches: 153, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
14 11 0.07
16 1 0.01
18 1 0.01
19 1 0.01
20 137 0.90
21 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGCGATAATCAAATTCGCG
Found at i:972223 original size:94 final size:94
Alignment explanation
Indices: 972010--972232 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 94
972000 CGCGAAAGTC
* * *
972010 AATTCGCGTTGCGATAGTC-TAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATAATCATT
1 AATTCGCGTTGCGATAGTCAT-ATTCGCATTGCGATTTTCTCGTTGCGATAGTCAAATAACCATT
*
972074 GCGATAATCAAATTCGCGTTACGATAATCA
65 GCGATAATCAAATTCGCGTTACGATAATAA
* * * * * *
972104 AATTCGCGTTACGATACTCAAATTCGCATTGCGATTTTCTCGTTGCGATATTCAAATAGCCGTTG
1 AATTCGCGTTGCGATAGTCATATTCGCATTGCGATTTTCTCGTTGCGATAGTCAAATAACCATTG
* *
972169 CGATAGTCAAATTCGCGTTGCGATAGA-AA
66 CGATAATCAAATTCGCGTTACGATA-ATAA
* **
972198 AATTCGCGTTGCGCTAGTCATATTCGTGTTGCGAT
1 AATTCGCGTTGCGATAGTCATATTCGCATTGCGAT
972233 AGTCAAATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
94 108 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (94 bp):
AATTCGCGTTGCGATAGTCATATTCGCATTGCGATTTTCTCGTTGCGATAGTCAAATAACCATTG
CGATAATCAAATTCGCGTTACGATAATAA
Found at i:972507 original size:140 final size:140
Alignment explanation
Indices: 972255--972520 Score: 469
Period size: 140 Copynumber: 1.9 Consensus size: 140
972245 GTTGTTATAA
* * * *
972255 TCAAATTCGCGTTGCGATAGTCAAATGAATGTGTAATAAGTGATAACAACTGAATATATCATAGC
1 TCAAATTCGCGTTGCAATAGTCAAATGAATGTGTAATAACTGATAACAACTGAACATATCATAAC
972320 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
972385 CACATAATAG
131 CACATAATAG
* *
972395 TCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAACTGATAATAACTGAACATATCATAAC
1 TCAAATTCGCGTTGCAATAGTCAAATGAATGTGTAATAACTGATAACAACTGAACATATCATAAC
*
972460 AATGTTCAAACTCAAGTTACTAATACATGCCTATCTGAAAATGTTAAAAGTTTACACATAA
66 AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
972521 TACAACGTTT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 119 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (140 bp):
TCAAATTCGCGTTGCAATAGTCAAATGAATGTGTAATAACTGATAACAACTGAACATATCATAAC
AATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATA
CACATAATAG
Found at i:972603 original size:18 final size:18
Alignment explanation
Indices: 972580--972614 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
972570 AAGCCGGTTA
*
972580 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
972598 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
972615 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:974671 original size:14 final size:14
Alignment explanation
Indices: 974652--974678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
974642 TCCCATGGCA
974652 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
974666 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
974679 TTTCTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:974903 original size:24 final size:24
Alignment explanation
Indices: 974869--974919 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
974859 CTGAAACATC
974869 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
974893 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
974917 ATC
1 ATC
974920 CAATTTCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:975786 original size:20 final size:20
Alignment explanation
Indices: 975743--975808 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
975733 AAATTAAGTG
* **
975743 TTGCAACAGTCAGAATCGTG
1 TTGCGACAGTCAGAATCGCA
975763 TTGCGACAGTCAGAATCGCA
1 TTGCGACAGTCAGAATCGCA
* * *
975783 TTGCGATAGTCATAATTGCA
1 TTGCGACAGTCAGAATCGCA
975803 TTGCGA
1 TTGCGA
975809 TTTACATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (20 bp):
TTGCGACAGTCAGAATCGCA
Found at i:975816 original size:20 final size:20
Alignment explanation
Indices: 975778--975889 Score: 174
Period size: 20 Copynumber: 5.6 Consensus size: 20
975768 ACAGTCAGAA
*
975778 TCGCATTGCGATAGT-CATAAT
1 TCGCATTGCGAT-TTACAT-AT
975799 T-GCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
975818 TCTCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
975838 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
975858 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
975878 TCGCATTGCGAT
1 TCGCATTGCGAT
975890 AGTCGGAAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
19 4 0.05
20 81 0.94
21 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:976341 original size:31 final size:31
Alignment explanation
Indices: 976303--976386 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
976293 ACTTTTGATG
*
976303 TTTAGATAAAATACT-ATTTTACTTACTAAAT
1 TTTAGATAAAATACTAATTTAAC-TACTAAAT
* *
976334 TTTAGATAAAAATATTAATTTAACTATTAAAT
1 TTTAGAT-AAAATACTAATTTAACTACTAAAT
* *
976366 TTTAAATAAAATATTAATTTA
1 TTTAGATAAAATACTAATTTA
976387 TCTTATTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 21 0.45
32 20 0.43
33 6 0.13
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTAGATAAAATACTAATTTAACTACTAAAT
Found at i:976365 original size:32 final size:32
Alignment explanation
Indices: 976303--976395 Score: 118
Period size: 32 Copynumber: 2.9 Consensus size: 32
976293 ACTTTTGATG
* * *
976303 TTTAGATAAAATACT-ATTTTACTTACTAAAT
1 TTTAGATAAAATATTAATTTAACTTATTAAAT
976334 TTTAGATAAAAATATTAATTTAAC-TATTAAAT
1 TTTAGAT-AAAATATTAATTTAACTTATTAAAT
* *
976366 TTTAAATAAAATATTAATTTATCTTATTAA
1 TTTAGATAAAATATTAATTTAACTTATTAA
976396 TCATATCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 22 0.41
32 26 0.48
33 6 0.11
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (32 bp):
TTTAGATAAAATATTAATTTAACTTATTAAAT
Found at i:989609 original size:12 final size:12
Alignment explanation
Indices: 989592--989617 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
989582 ACAACTAGGT
989592 GAACCTCAACAA
1 GAACCTCAACAA
989604 GAACCTCAACAA
1 GAACCTCAACAA
989616 GA
1 GA
989618 GCTTAAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.12, T:0.08
Consensus pattern (12 bp):
GAACCTCAACAA
Found at i:992776 original size:68 final size:68
Alignment explanation
Indices: 992676--992820 Score: 238
Period size: 68 Copynumber: 2.1 Consensus size: 68
992666 GGTAATGACC
* * *
992676 AAAT-ATCATCCAAGGGCCTTCCGAGATAGCCTTTAAGAAATCAGATTAGGTGCGGAAGGTAATC
1 AAATAATCATCCAAGGGCCTTCCGAGATAGCCTTTAAGAAATCAGACTAGGTGCAGAAAGTAATC
992740 AAG
66 AAG
* *
992743 AAATAATCATCCAAGGGCTTTCCGAGATGGCCTTTAAGAAATCAGACTAGGTGCAGAAAGTAATC
1 AAATAATCATCCAAGGGCCTTCCGAGATAGCCTTTAAGAAATCAGACTAGGTGCAGAAAGTAATC
992808 AAG
66 AAG
992811 AAATAATCAT
1 AAATAATCAT
992821 TCTCGATGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
67 4 0.06
68 68 0.94
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (68 bp):
AAATAATCATCCAAGGGCCTTCCGAGATAGCCTTTAAGAAATCAGACTAGGTGCAGAAAGTAATC
AAG
Found at i:993906 original size:22 final size:23
Alignment explanation
Indices: 993862--993918 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
993852 AATTTTGTTC
*
993862 TTTAAATTTTTTTCTTTCAAAAT-
1 TTTAAATTTTTTTATTT-AAAATA
993885 TTTAAATTTTTTTAATTT-AAATA
1 TTTAAATTTTTTT-ATTTAAAATA
*
993908 TCTAAATTTTT
1 TTTAAATTTTT
993919 AAAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.13
23 23 0.77
24 3 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAAATTTTTTTATTTAAAATA
Found at i:995845 original size:12 final size:12
Alignment explanation
Indices: 995828--995852 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
995818 ACAAAGCACC
995828 ATTTGGTGCCTA
1 ATTTGGTGCCTA
995840 ATTTGGTGCCTA
1 ATTTGGTGCCTA
995852 A
1 A
995853 ATTATTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:1000905 original size:6 final size:6
Alignment explanation
Indices: 1000896--1000924 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1000886 AGAAGATAAA
1000896 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
1000925 ATTAAGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.34
Consensus pattern (6 bp):
TTAGGG
Found at i:1000933 original size:18 final size:18
Alignment explanation
Indices: 1000896--1000933 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1000886 AGAAGATAAA
* *
1000896 TTAGGGTTAGGGTTAGGG
1 TTAGGGTTAGGATTAAGG
1000914 TTAGGGTTAGGATTAAGG
1 TTAGGGTTAGGATTAAGG
1000932 TT
1 TT
1000934 CAAAAAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (18 bp):
TTAGGGTTAGGATTAAGG
Found at i:1005634 original size:37 final size:37
Alignment explanation
Indices: 1005593--1005675 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
1005583 CGTGGTTTGA
*
1005593 TCATTTTCATCTTTCCTTGAAACAGGACCAGGAGAGC
1 TCATTTTCATCTTCCCTTGAAACAGGACCAGGAGAGC
1005630 TCATTTTCATCTTCCCTTGAAACAGGACCAGGAGAGC
1 TCATTTTCATCTTCCCTTGAAACAGGACCAGGAGAGC
*
1005667 TTATTTTCA
1 TCATTTTCA
1005676 CATCACAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (37 bp):
TCATTTTCATCTTCCCTTGAAACAGGACCAGGAGAGC
Found at i:1013819 original size:37 final size:37
Alignment explanation
Indices: 1013760--1013841 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
1013750 TTTACTCGTC
*
1013760 AAAATAAAATAGAACATTTTCTCAAATAAAAGAAATA
1 AAAATAAAATAAAACATTTTCTCAAATAAAAGAAATA
1013797 AAAATAAAATAAAAC-TTATTCTCAAATAAAAGAAATA
1 AAAATAAAATAAAACATT-TTCTCAAATAAAAGAAATA
*
1013834 AATATAAA
1 AAAATAAA
1013842 TATGGTATAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 2 0.05
37 40 0.95
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.24
Consensus pattern (37 bp):
AAAATAAAATAAAACATTTTCTCAAATAAAAGAAATA
Found at i:1022411 original size:20 final size:19
Alignment explanation
Indices: 1022386--1022453 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
1022376 GAAGTTCGCA
1022386 TTGCGATTCATTCCAAATCG
1 TTGCGATT-ATTCCAAATCG
* * *
1022406 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTATTCCAA-AT--CG
1022427 TTGCGATTTATTCCAAATCG
1 TTGCGA-TTATTCCAAATCG
1022447 TTGCGAT
1 TTGCGAT
1022454 AGGCGAAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
20 14 0.38
21 8 0.22
22 1 0.03
23 6 0.16
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (19 bp):
TTGCGATTATTCCAAATCG
Found at i:1022412 original size:41 final size:41
Alignment explanation
Indices: 1022367--1022608 Score: 385
Period size: 41 Copynumber: 5.9 Consensus size: 41
1022357 GATTCGCAAC
* *
1022367 GCGATAGTCGAAGTTCGCATTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
1022408 GCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
1022449 GCGATAGGCGAAGTTCGCTTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
1022490 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
1022531 GCGATAGGCGAAGTTCGTGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
* *
1022573 GCGATGGGCAAAGTTCGCGTTGCGATTCATTCCAAA
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA
1022609 CTAGCTGATA
Statistics
Matches: 188, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
41 150 0.80
42 38 0.20
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:1022554 original size:21 final size:20
Alignment explanation
Indices: 1022446--1022556 Score: 68
Period size: 21 Copynumber: 5.4 Consensus size: 20
1022436 ATTCCAAATC
1022446 GTTGCGATAGGCGAAGTTCG
1 GTTGCGATAGGCGAAGTTCG
* ** *
1022466 CTTTGCGATTCATTCCAA-TTC-
1 -GTTGCGA-T-AGGCGAAGTTCG
1022487 GTTGCGATAGGCGAAGTTCG
1 GTTGCGATAGGCGAAGTTCG
** *
1022507 CGTTGCGATTCATTCCAA-TTC-
1 -GTTGCGA-T-AGGCGAAGTTCG
1022528 GTTGCGATAGGCGAAGTTCG
1 GTTGCGATAGGCGAAGTTCG
1022548 TGTTGCGAT
1 -GTTGCGAT
1022557 TCATTCCAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
18 8 0.12
19 8 0.12
20 13 0.20
21 21 0.32
22 8 0.12
23 8 0.12
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGGCGAAGTTCG
Found at i:1025358 original size:44 final size:41
Alignment explanation
Indices: 1025281--1025362 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
1025271 GCAACGCGAT
* *
1025281 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
1025322 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
1025363 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 2 0.06
44 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:1025372 original size:19 final size:20
Alignment explanation
Indices: 1025283--1025373 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
1025273 AACGCGATTT
1025283 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
1025303 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
1025322 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
1025347 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
1025366 TGAAAAAT
1 TGAAAAAT
1025374 CCAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:1025757 original size:21 final size:21
Alignment explanation
Indices: 1025733--1025868 Score: 86
Period size: 20 Copynumber: 6.6 Consensus size: 21
1025723 AATTTGGAAA
*
1025733 ATCGCATTGCGATTTTGTATT
1 ATCGCTTTGCGATTTTGTATT
* **
1025754 ATCGCTTTGCGA--TAGTCAGA
1 ATCGCTTTGCGATTTTGT-ATT
*
1025774 ATCGCGTTGCGATTTTGTATT
1 ATCGCTTTGCGATTTTGTATT
* **
1025795 ATCGCTTTGCGA--TAGTCAGA
1 ATCGCTTTGCGATTTTGT-ATT
* * **
1025815 ATCGCGTTGCGA--TAGTCAGA
1 ATCGCTTTGCGATTTTGT-ATT
*
1025835 ATCGCGTTGCGATTTTGTATT
1 ATCGCTTTGCGATTTTGTATT
1025856 ATCGCTTTGCGAT
1 ATCGCTTTGCGAT
1025869 AGTCAGAATC
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
19 6 0.07
20 44 0.48
21 36 0.39
22 6 0.07
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (21 bp):
ATCGCTTTGCGATTTTGTATT
Found at i:1025789 original size:41 final size:41
Alignment explanation
Indices: 1025732--1025827 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
1025722 GAATTTGGAA
*
1025732 AATCGCATTGCGATTTTGTATTATCGCTTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAG
1025773 AATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAG
1025814 AATCGCGTTGCGAT
1 AATCGCGTTGCGAT
1025828 AGTCAGAATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAG
Found at i:1025829 original size:61 final size:61
Alignment explanation
Indices: 1025754--1025883 Score: 251
Period size: 61 Copynumber: 2.1 Consensus size: 61
1025744 ATTTTGTATT
*
1025754 ATCGCTTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAGA
1025815 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAGA
1025876 ATCGCGTT
1 ATCGCGTT
1025884 CGCGTTGCGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGCTTTGCGATAGTCAGA
Found at i:1025860 original size:41 final size:41
Alignment explanation
Indices: 1025815--1025974 Score: 214
Period size: 41 Copynumber: 3.8 Consensus size: 41
1025805 GATAGTCAGA
*
1025815 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATT
* * *
1025856 ATCGCTTTGCGATAGTCAGAATCGCGTTCGCG-TTGCGATAGTCATA
1 ATCGCATTGCGATAGTCAGAATCGCGTT-GCGATT----TTGT-ATT
1025902 ATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATT
*
1025943 ATCGCATTGCGATAGTCAGAATCACGTTGCGA
1 ATCGCATTGCGATAGTCAGAATCGCGTTGCGA
1025975 ATCTGGAAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
41 62 0.59
42 6 0.06
45 6 0.06
46 31 0.30
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATT
Found at i:1025893 original size:26 final size:26
Alignment explanation
Indices: 1025857--1025906 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1025847 TTTTGTATTA
*
1025857 TCGCTTTGCGATAGTCAGAATCGCGT
1 TCGCGTTGCGATAGTCAGAATCGCGT
*
1025883 TCGCGTTGCGATAGTCATAATCGC
1 TCGCGTTGCGATAGTCAGAATCGC
1025907 ATTGCGATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (26 bp):
TCGCGTTGCGATAGTCAGAATCGCGT
Found at i:1025912 original size:87 final size:87
Alignment explanation
Indices: 1025796--1025970 Score: 305
Period size: 87 Copynumber: 2.0 Consensus size: 87
1025786 TTTTGTATTA
* *
1025796 TCGCTTTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGC
1 TCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGC
* *
1025861 TTTGCGATAGTCAGAATCGCGT
66 ATTGCGATAGTCAGAATCACGT
*
1025883 TCGCGTTGCGATAGTCATAATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGC
1 TCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGC
1025948 ATTGCGATAGTCAGAATCACGT
66 ATTGCGATAGTCAGAATCACGT
1025970 T
1 T
1025971 GCGAATCTGG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (87 bp):
TCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCGTTGCGATTTTGTATTATCGC
ATTGCGATAGTCAGAATCACGT
Found at i:1026024 original size:19 final size:19
Alignment explanation
Indices: 1026000--1026036 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1025990 TGTGATAGTG
*
1026000 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
1026019 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
1026037 TGTTGGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:1028443 original size:35 final size:35
Alignment explanation
Indices: 1028397--1028472 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
1028387 AAAACAGTCC
* *
1028397 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
1028432 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1028467 TCAATT
1 TCAATT
1028473 ATGTCAGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1029006 original size:130 final size:130
Alignment explanation
Indices: 1028860--1029107 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
1028850 TATTTATATA
* **
1028860 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
1028925 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
1028990 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
1029055 TTAACACATGATCATGATATATGTTATTGGTGACATATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
1029108 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1029138 original size:130 final size:129
Alignment explanation
Indices: 1028874--1029138 Score: 300
Period size: 130 Copynumber: 2.0 Consensus size: 129
1028864 ATTTGGTCCT
* ** *
1028874 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
1028939 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1029004 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
1029069 TGATATATGTTATTGGTGACATATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1029133 -A
128 CA
1029134 AAATT
1 AAATT
1029139 TGGGTCTTGG
Statistics
Matches: 112, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
130 99 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1029595 original size:16 final size:18
Alignment explanation
Indices: 1029574--1029607 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1029564 ATTTCTTATT
1029574 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1029590 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1029608 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1054651 original size:13 final size:13
Alignment explanation
Indices: 1054633--1054657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1054623 ATAAAAAATA
1054633 ATTAAATACAAAC
1 ATTAAATACAAAC
1054646 ATTAAATACAAA
1 ATTAAATACAAA
1054658 AGTTACAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (13 bp):
ATTAAATACAAAC
Found at i:1055241 original size:21 final size:21
Alignment explanation
Indices: 1055215--1055270 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1055205 ATGGATTTAG
1055215 TGCCATCTGAAATGACTATGA
1 TGCCATCTGAAATGACTATGA
* * * *
1055236 TTCCATCTGAAACGACTGTGG
1 TGCCATCTGAAATGACTATGA
1055257 TGCCATCTGAAATG
1 TGCCATCTGAAATG
1055271 GTTGCGGTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (21 bp):
TGCCATCTGAAATGACTATGA
Found at i:1056092 original size:18 final size:20
Alignment explanation
Indices: 1056045--1056093 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
1056035 CACATATTCA
*
1056045 ATATAAAAAAAATTCATTAT
1 ATATACAAAAAATTCATTAT
1056065 ATACTCACAAAAAATT-ATT-T
1 ATA-T-ACAAAAAATTCATTAT
1056085 ATATACAAA
1 ATATACAAA
1056094 CTTAGTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 7 0.27
21 4 0.15
22 9 0.35
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATACAAAAAATTCATTAT
Found at i:1066809 original size:15 final size:15
Alignment explanation
Indices: 1066789--1066821 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1066779 GAACCACCGC
1066789 TGATCGGAGGTGGGG
1 TGATCGGAGGTGGGG
*
1066804 TGATCGGATGTGGGG
1 TGATCGGAGGTGGGG
1066819 TGA
1 TGA
1066822 CGAGAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.55, T:0.24
Consensus pattern (15 bp):
TGATCGGAGGTGGGG
Found at i:1073659 original size:348 final size:348
Alignment explanation
Indices: 1073021--1073717 Score: 1346
Period size: 348 Copynumber: 2.0 Consensus size: 348
1073011 TTTGGTAGAC
1073021 TCTCGAAAGACAAACTCTCTAAAGATGCAAATGCAACTGACTGATTTTCCCCAAACAACTCATTA
1 TCTCGAAAGACAAACTCTCTAAAGATGCAAATGCAACTGACTGATTTTCCCCAAACAACTCATTA
1073086 CCAATCTTTCGCACCTCAACCAACCCACCAATTGAAAGACCTTTCAACGATGACAACCTTCCAAT
66 CCAATCTTTCGCACCTCAACCAACCCACCAATTGAAAGACCTTTCAACGATGACAACCTTCCAAT
1073151 CGGTGGTAGTGATTTGCAGTTTTTACAACTGCGTAGCTCCAAAGATGACAAATTACTGAAAGAAG
131 CGGTGGTAGTGATTTGCAGTTTTTACAACTGCGTAGCTCCAAAGATGACAAATTACTGAAAGAAG
1073216 AATCTGTTATCCAAGTAGAGAACTTTGCACCACCGAAATTCTTGATGACGAGTTGCTCAAGCTTT
196 AATCTGTTATCCAAGTAGAGAACTTTGCACCACCGAAATTCTTGATGACGAGTTGCTCAAGCTTT
1073281 TTGGGAGGATGAAGAGAGTCCAACACACGTTCTTCAACTTGATTCTTCCTTGTAGGCTTCTCAAA
261 TTGGGAGGATGAAGAGAGTCCAACACACGTTCTTCAACTTGATTCTTCCTTGTAGG---CTCAAA
1073346 GTCTCCACTCCA-T-TAGTACCAAAT
323 GTCTCCACTCCATTCTAGTACCAAAT
1073370 TCTCGAAAGACAAACTCTCTAAAGATGCAAATGCAACTGACTGATTTT-CCCAAACAACTCATTA
1 TCTCGAAAGACAAACTCTCTAAAGATGCAAATGCAACTGACTGATTTTCCCCAAACAACTCATTA
1073434 CCAATCTTTCGCACCTCAACCAACCCACCAATTGAAAGACCTTTCAACGATGACAACCTTCCAAT
66 CCAATCTTTCGCACCTCAACCAACCCACCAATTGAAAGACCTTTCAACGATGACAACCTTCCAAT
1073499 CGGTGGTAGTGATTTGCAGTTTTTACAACTGCGTAGCTCCAAAGATGACAAATTACTGAAAGAAG
131 CGGTGGTAGTGATTTGCAGTTTTTACAACTGCGTAGCTCCAAAGATGACAAATTACTGAAAGAAG
1073564 AATCTGTTATCCAAGTAGAGAACTTTGCACCACCGAAATTCTTGATGACGAGTTGCTCAAGCTTT
196 AATCTGTTATCCAAGTAGAGAACTTTGCACCACCGAAATTCTTGATGACGAGTTGCTCAAGCTTT
1073629 TTGGGAGGATGAAGAGAGTCCAACACACGTTCTTCAACTTGATTCTTCCTTGTAGGCTCAAAGTC
261 TTGGGAGGATGAAGAGAGTCCAACACACGTTCTTCAACTTGATTCTTCCTTGTAGGCTCAAAGTC
1073694 TCCACTCCATTCTAGTACCAAAT
326 TCCACTCCATTCTAGTACCAAAT
1073717 T
1 T
1073718 ATTGATACCC
Statistics
Matches: 346, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
345 18 0.05
346 1 0.00
347 12 0.03
348 267 0.77
349 48 0.14
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (348 bp):
TCTCGAAAGACAAACTCTCTAAAGATGCAAATGCAACTGACTGATTTTCCCCAAACAACTCATTA
CCAATCTTTCGCACCTCAACCAACCCACCAATTGAAAGACCTTTCAACGATGACAACCTTCCAAT
CGGTGGTAGTGATTTGCAGTTTTTACAACTGCGTAGCTCCAAAGATGACAAATTACTGAAAGAAG
AATCTGTTATCCAAGTAGAGAACTTTGCACCACCGAAATTCTTGATGACGAGTTGCTCAAGCTTT
TTGGGAGGATGAAGAGAGTCCAACACACGTTCTTCAACTTGATTCTTCCTTGTAGGCTCAAAGTC
TCCACTCCATTCTAGTACCAAAT
Done.