Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008044.1 Hibiscus syriacus cultivar Beakdansim tig00110532_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: 979496
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:636591 original size:20 final size:20
Alignment explanation
Indices: 636566--636605 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
636556 TTCAAACTGA
636566 ATAGTATCGATACTCCTTTT
1 ATAGTATCGATACTCCTTTT
*
636586 ATAGTATCGATACTTCTTTT
1 ATAGTATCGATACTCCTTTT
636606 TTATGGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (20 bp):
ATAGTATCGATACTCCTTTT
Found at i:637698 original size:41 final size:41
Alignment explanation
Indices: 637613--637698 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
637603 GCCTGGCCTG
* * * *
637613 GCCTATTTAACTAAACAGGCCAGGCCCAGGCCTTTTTAACA
1 GCCTATTTAACTAAACAGGCCAGACCCAGGCCTATTAAAAA
* **
637654 GCCTATTTAACTAAATAGGCCAGACTTAGGCCTATTAAAAA
1 GCCTATTTAACTAAACAGGCCAGACCCAGGCCTATTAAAAA
637695 GCCT
1 GCCT
637699 TATAAGCCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
GCCTATTTAACTAAACAGGCCAGACCCAGGCCTATTAAAAA
Found at i:637839 original size:12 final size:12
Alignment explanation
Indices: 637822--637855 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
637812 ATGTTTATTG
637822 TTAAACAGGCTT
1 TTAAACAGGCTT
637834 TTAAACAGGCTT
1 TTAAACAGGCTT
637846 TTAAACAGGC
1 TTAAACAGGC
637856 CATACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (12 bp):
TTAAACAGGCTT
Found at i:638460 original size:22 final size:26
Alignment explanation
Indices: 638430--638500 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
638420 AGGATAAAAA
638430 TAAAAGAGATTTATT-TCT-TTT-AT
1 TAAAAGAGATTTATTATCTCTTTAAT
638453 T-AAAGAGATTTATTATCTCTTTAAT
1 TAAAAGAGATTTATTATCTCTTTAAT
* *
638478 TAAAAGAGATTTAATAGCTCTTT
1 TAAAAGAGATTTATTATCTCTTT
638501 TATTGGGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
22 13 0.31
23 4 0.10
24 3 0.07
25 3 0.07
26 19 0.45
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (26 bp):
TAAAAGAGATTTATTATCTCTTTAAT
Found at i:640101 original size:18 final size:18
Alignment explanation
Indices: 640075--640119 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
640065 TTCCTCTTAG
640075 TATCAATACCCACATCAA
1 TATCAATACCCACATCAA
* *
640093 TATCGATACCCACATCAG
1 TATCAATACCCACATCAA
640111 TATCAATAC
1 TATCAATAC
640120 TAATCATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.24
Consensus pattern (18 bp):
TATCAATACCCACATCAA
Found at i:640670 original size:204 final size:206
Alignment explanation
Indices: 640367--640777 Score: 799
Period size: 204 Copynumber: 2.0 Consensus size: 206
640357 ACACTACTTT
640367 TTCAAACATGTTTTTAATCGCATCGAAGGTTTGTAAACCTCAATAAAAACTAATATTTCATCATA
1 TTCAAACATGTTTTTAATCGCATCGAAGGTTTGTAAACCTCAAT-AAAACTAATATTTCATCATA
640432 TCACTAAAAAACCCATTTTCTTATATCTCAAATAATTCACTAATCACTTAGTTTTAATCATCCTT
65 TCACTAAAAAACCCATTTTCTTATATCTCAAATAATTCACTAATCACTTAGTTTTAATCATCCTT
640497 GAACTTTCCTTAAGCCTCTATATCAATTAAGGTTTCAAAGCTAGCCCATAAACTAAAGG-AAAAC
130 GAACTTTCCTTAAGCCTCTATATCAATTAAGGTTTCAAAGCTAGCCCATAAACTAAAGGAAAAAC
640561 CAACTTGAAAAA
195 CAACTTGAAAAA
640573 TTCAAACATGTTTTTAATCGCATCGAAGGTTTGTAAACCTCAAT-AAACTAATATTTCATCATAT
1 TTCAAACATGTTTTTAATCGCATCGAAGGTTTGTAAACCTCAATAAAACTAATATTTCATCATAT
640637 CACTAAAAAACCCATTTTCTTATATCTCAAATAATTCACTAATCACTTAGTTTTAATCATCCTTG
66 CACTAAAAAACCCATTTTCTTATATCTCAAATAATTCACTAATCACTTAGTTTTAATCATCCTTG
640702 AACTTTCCTTAAGCCTCTATATCAATTAAGGTTTCAAAGCTAGCCCATAAACTAAAGGAAAAACC
131 AACTTTCCTTAAGCCTCTATATCAATTAAGGTTTCAAAGCTAGCCCATAAACTAAAGGAAAAACC
640767 AACTTGAAAAA
196 AACTTGAAAAA
640778 AACTTACCTT
Statistics
Matches: 204, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
204 143 0.70
205 17 0.08
206 44 0.22
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (206 bp):
TTCAAACATGTTTTTAATCGCATCGAAGGTTTGTAAACCTCAATAAAACTAATATTTCATCATAT
CACTAAAAAACCCATTTTCTTATATCTCAAATAATTCACTAATCACTTAGTTTTAATCATCCTTG
AACTTTCCTTAAGCCTCTATATCAATTAAGGTTTCAAAGCTAGCCCATAAACTAAAGGAAAAACC
AACTTGAAAAA
Found at i:644047 original size:154 final size:155
Alignment explanation
Indices: 643767--644076 Score: 613
Period size: 154 Copynumber: 2.0 Consensus size: 155
643757 CCACTCCAGA
643767 TCTGGAAGTAATGCCAAAAGGTCCCATTACTAGGTCAAGGGACAAACAATTCAGGGAATTACTCC
1 TCTGGAAGTAATGCCAAAAGGTCCCATTACTAGGTCAAGGGACAAACAATTCAGGGAATTACTCC
643832 TAACTAAGTGTCTTGAAGCTTTTGATTCGTTTGATAACTTAACACCCTCCTATGTTATGTTATAT
66 TAACTAAGTGTCTTGAAGCTTTTGATTCGTTTGATAACTTAACACCCTCCTATGTTATGTTATAT
643897 -ATGTTTTAATAGTTAAAGAATAAC
131 AATGTTTTAATAGTTAAAGAATAAC
643921 TCTGGAAGTAATGCCAAAAGGTCCCATTACTAGGTCAAGGGACAAACAATTCAGGGAATTACTCC
1 TCTGGAAGTAATGCCAAAAGGTCCCATTACTAGGTCAAGGGACAAACAATTCAGGGAATTACTCC
643986 TAACTAAGTGTCTTGAAGCTTTTGATTCGTTTGATAACTTAACACCCTCCTATGTTATGTTATAT
66 TAACTAAGTGTCTTGAAGCTTTTGATTCGTTTGATAACTTAACACCCTCCTATGTTATGTTATAT
644051 AATGTTTTAATAGTTAAAGAATAAC
131 AATGTTTTAATAGTTAAAGAATAAC
644076 T
1 T
644077 TAGCATAAAT
Statistics
Matches: 155, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 130 0.84
155 25 0.16
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (155 bp):
TCTGGAAGTAATGCCAAAAGGTCCCATTACTAGGTCAAGGGACAAACAATTCAGGGAATTACTCC
TAACTAAGTGTCTTGAAGCTTTTGATTCGTTTGATAACTTAACACCCTCCTATGTTATGTTATAT
AATGTTTTAATAGTTAAAGAATAAC
Found at i:651630 original size:23 final size:23
Alignment explanation
Indices: 651601--651678 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
651591 ATAAAAATAT
651601 AGATTTATTTCTTTTATTAAAAG
1 AGATTTATTTCTTTTATTAAAAG
* *
651624 ATATTTATTTATTTTATTAAAAG
1 AGATTTATTTCTTTTATTAAAAG
*
651647 AGA-TTATTATCTCTTTAATTAAAAT
1 AGATTTATT-TCT-TTT-ATTAAAAG
651672 AGATTTA
1 AGATTTA
651679 ATATCTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.11
23 25 0.54
24 3 0.07
25 10 0.22
26 3 0.07
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (23 bp):
AGATTTATTTCTTTTATTAAAAG
Found at i:651656 original size:25 final size:25
Alignment explanation
Indices: 651612--651692 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
651602 GATTTATTTC
* *
651612 TTTTATTAAAAGATA-T-TTATTTA
1 TTTTATTAAAAGAGATTATTATCTA
*
651635 TTTTATTAAAAGAGATTATTATCTC
1 TTTTATTAAAAGAGATTATTATCTA
* * *
651660 TTTAATTAAAATAGATTTAATATCTA
1 TTTTATTAAAAGAGA-TTATTATCTA
651686 TTTTATT
1 TTTTATT
651693 GGGATAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 14 0.30
24 1 0.02
25 18 0.38
26 14 0.30
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (25 bp):
TTTTATTAAAAGAGATTATTATCTA
Found at i:654798 original size:35 final size:34
Alignment explanation
Indices: 654752--654865 Score: 138
Period size: 34 Copynumber: 3.2 Consensus size: 34
654742 CCACCATATA
* *
654752 CACTAAGTGTCTTGGGTGTAGACTCTAGTGTTATG
1 CACTAAGTGTCTTGGGTATACACTCTAGTG-TATG
* **
654787 CACTAAGTGTCTTAGGTATACACTCTAGTGCCTG
1 CACTAAGTGTCTTGGGTATACACTCTAGTGTATG
*
654821 AACTAAGTGTCTTGGGTATACACTCTAGTGCTATG
1 CACTAAGTGTCTTGGGTATACACTCTAGTG-TATG
654856 ACACATAAGT
1 -CAC-TAAGT
654866 TTGTCCCACC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
34 30 0.45
35 29 0.44
36 2 0.03
37 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (34 bp):
CACTAAGTGTCTTGGGTATACACTCTAGTGTATG
Found at i:663518 original size:13 final size:13
Alignment explanation
Indices: 663480--663521 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
663470 GTCTTTTTTG
663480 CATTTTTT-TCTT
1 CATTTTTTATCTT
*
663492 CGTTTTTTA-CTT
1 CATTTTTTATCTT
*
663504 CATTTTTTATTTT
1 CATTTTTTATCTT
663517 CATTT
1 CATTT
663522 ATTTGTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 18 0.72
13 7 0.28
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (13 bp):
CATTTTTTATCTT
Found at i:664802 original size:46 final size:46
Alignment explanation
Indices: 664728--664820 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
664718 CATCGTTTTT
* **
664728 CCTCTTTGACGGTGAAAAGGGGAAAGCACTTAACCAACCCCAAAAC
1 CCTCTTTGACGGTGAAAAAGGGAAAGCACAGAACCAACCCCAAAAC
*
664774 CCTCTTTGACGGTGAAAAAGGGAGAGCACAGAACCAACCCCAAAAC
1 CCTCTTTGACGGTGAAAAAGGGAAAGCACAGAACCAACCCCAAAAC
664820 C
1 C
664821 TACAAAGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.38, C:0.29, G:0.20, T:0.13
Consensus pattern (46 bp):
CCTCTTTGACGGTGAAAAAGGGAAAGCACAGAACCAACCCCAAAAC
Found at i:665371 original size:70 final size:71
Alignment explanation
Indices: 665265--665497 Score: 332
Period size: 70 Copynumber: 3.4 Consensus size: 71
665255 GCGTTAGTTC
*
665265 GTTTATTTTTAAAGATGTTCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
1 GTTTATTTTTAAAGGTGTTCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
665330 TATTTT
66 TATTTT
665336 GTTTATTTTTAAAGGTG-TCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
1 GTTTATTTTTAAAGGTGTTCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
665400 TATTTT
66 TATTTT
* * ** * * * *
665406 GTTTATTTTTAAAGGTGTTCATGTTCGATTGATTTTCGTTTAAATTTTTAATATC---CTCGTGT
1 GTTTATTTTTAAAGGTGTTCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
*
665468 TAGTTT
66 TATTTT
*
665474 GTTTATTTTT-AAGGTGTTCGTGTT
1 GTTTATTTTTAAAGGTGTTCATGTT
665498 TGGTTTATTT
Statistics
Matches: 150, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
67 13 0.09
68 19 0.13
70 70 0.47
71 48 0.32
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (71 bp):
GTTTATTTTTAAAGGTGTTCATGTTCGATTTATGTTCAATTAAAATTTTAATATCATATTTGTAT
TATTTT
Found at i:668803 original size:3 final size:3
Alignment explanation
Indices: 668797--668840 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
668787 ATCTTCATAA
* *
668797 ATT ATT ATT ATT ATT GTT ATT ATT ATT A-T GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
668841 TATTTTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 35 0.97
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:670820 original size:26 final size:27
Alignment explanation
Indices: 670791--670842 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
670781 CGCATGTGTT
670791 TTTC-AATAGGAT-TTCAAAATAGTAAC
1 TTTCGAAT-GGATGTTCAAAATAGTAAC
* *
670817 TTTCGAATTGATGTTGAAAATAGTAA
1 TTTCGAATGGATGTTCAAAATAGTAA
670843 TATCTCCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (27 bp):
TTTCGAATGGATGTTCAAAATAGTAAC
Found at i:671068 original size:130 final size:131
Alignment explanation
Indices: 670859--671196 Score: 430
Period size: 130 Copynumber: 2.6 Consensus size: 131
670849 CTCGTTTCGG
* * * *
670859 TTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAATTATTCTCGATTAGAAATAATCAAA
1 TTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAAA
* * * * * *
670924 TATTACCGTTTTCACTCGAGTTAATAAT-GATTTTAAGACGGAATAGTGATATATCTTCATTTCA
66 TATTACCATTTTCACTCGAATCAATAATGGATATTAAGACGAAATAGTGACATATCTTCATTTCA
670988 A
131 A
* * * * *
670989 TTGTAGTAATAAATGATTGCTTTAAGGGATGAGAGGTTATTTATTCTCGATTGGAAATCATTAGA
1 TTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAAA
** * *
671054 TATTATTATTTTCACTCGAATCAATATTGGATATTAAGACGAAATAGTGACATCTCTTCATTTCA
66 TATTACCATTTTCACTCGAATCAATAATGGATATTAAGACGAAATAGTGACATATCTTCATTTCA
671119 A
131 A
* * * *
671120 TTGGGGTAACAAATGAATT--TTTAAGGCATGAAAGGTCATTTATTCTCGATTGGAAATAATTAT
1 TTGGAGTAATAAATG-ATTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAA
*
671183 ATATTACCGTTTTC
65 ATATTACCATTTTC
671197 TCTCTTAAAA
Statistics
Matches: 176, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
130 128 0.73
131 45 0.26
132 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (131 bp):
TTGGAGTAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATAATTAAA
TATTACCATTTTCACTCGAATCAATAATGGATATTAAGACGAAATAGTGACATATCTTCATTTCA
A
Found at i:681103 original size:44 final size:44
Alignment explanation
Indices: 681053--681405 Score: 481
Period size: 44 Copynumber: 8.0 Consensus size: 44
681043 TGTTACCGAA
* **
681053 ATAAATGAAAAAGCATAACGGTGCATTATTGGCAGAAATATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* **
681097 ATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAATATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
681141 ATAAATGAAAATGCATAACGGTGTATTATTGACAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
681185 ATAAATGAAAATGCATAAGGGTACATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
681229 ATAAATGAGAATGCATAACGGTGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
681273 AAAAATGAAAATACATAACGGTGCATTATTGGCTGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * * *
681317 ATAAATAAAAATGCATAATGATGCATTATTGGTAGAAAGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
681361 ATAAATGAAAATGCATAATGATGCATTATTGACAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
681405 A
1 A
681406 CTCATGGTAT
Statistics
Matches: 273, Mismatches: 36, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 273 1.00
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:686768 original size:20 final size:20
Alignment explanation
Indices: 686721--686769 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
686711 CTGATATGGA
*
686721 TATCGATACTAAGAGAAAGG
1 TATCGATGCTAAGAGAAAGG
686741 TATCGATGCTAAGAGAAAGG
1 TATCGATGCTAAGAGAAAGG
686761 TATCGATGC
1 TATCGATGC
686770 CATGGATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (20 bp):
TATCGATGCTAAGAGAAAGG
Found at i:687369 original size:44 final size:43
Alignment explanation
Indices: 687300--687469 Score: 187
Period size: 44 Copynumber: 3.9 Consensus size: 43
687290 ATGTTATCGA
* ** * * *
687300 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAGAGGTTCC
1 ATAAATAAAAATGCATAA-TATGCATTATTGGCAGAAACGTACC
* * **
687344 ATAAATGAAAATGCATAACTATGCATTATTGGCAGAAACATGGC
1 ATAAATAAAAATGCATAA-TATGCATTATTGGCAGAAACGTACC
* * *
687388 ATAAATAAAAATGCATAATGGTGCATTATAGGCAGAAATGTACC
1 ATAAATAAAAATGCATAAT-ATGCATTATTGGCAGAAACGTACC
687432 ATAAATAAAAATGCATAATAGTGCATTATTGGCAGAAA
1 ATAAATAAAAATGCATAATA-TGCATTATTGGCAGAAA
687470 AGTGCCACTC
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
43 1 0.01
44 107 0.99
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (43 bp):
ATAAATAAAAATGCATAATATGCATTATTGGCAGAAACGTACC
Found at i:687449 original size:88 final size:88
Alignment explanation
Indices: 687300--687469 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 88
687290 ATGTTATCGA
* * * * *
687300 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAGAGGTTCCATAAATGAAAATGCATAACTA
1 ATAAATAAAAATGCATAACGGTGCATTATAGGCAGAAAGGTACCATAAATAAAAATGCATAA-TA
687365 -TGCATTATTGGCAGAAACATGGC
65 GTGCATTATTGGCAGAAACATGGC
* *
687388 ATAAATAAAAATGCATAATGGTGCATTATAGGCAGAAATGTACCATAAATAAAAATGCATAATAG
1 ATAAATAAAAATGCATAACGGTGCATTATAGGCAGAAAGGTACCATAAATAAAAATGCATAATAG
687453 TGCATTATTGGCAGAAA
66 TGCATTATTGGCAGAAA
687470 AGTGCCACTC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
87 2 0.03
88 72 0.97
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (88 bp):
ATAAATAAAAATGCATAACGGTGCATTATAGGCAGAAAGGTACCATAAATAAAAATGCATAATAG
TGCATTATTGGCAGAAACATGGC
Found at i:688925 original size:285 final size:285
Alignment explanation
Indices: 688387--688956 Score: 1108
Period size: 285 Copynumber: 2.0 Consensus size: 285
688377 GACTTCAACC
688387 TCTGAAATATCTAATGGTTGTACCTTTTTTATCTGGAAGATTGGCTCGTTGGAAGATTTTATTGT
1 TCTGAAATATCTAATGGTTGTACCTTTTTTATCTGGAAGATTGGCTCGTTGGAAGATTTTATTGT
688452 CTGAGTTTGATATCCAATAAGTAAGCCAAAAATTAGTTAAAGGGAGTACTGTAGAAGATTTCATT
66 CTGAGTTTGATATCCAATAAGTAAGCCAAAAATTAGTTAAAGGGAGTACTGTAGAAGATTTCATT
688517 GCAAGCAGGGCTTCCGAAGAATATAAACCATTAAACTTTGATTTCCCGGACGAAGACTTAATGGA
131 GCAAGCAGGGCTTCCGAAGAATATAAACCATTAAACTTTGATTTCCCGGACGAAGACTTAATGGA
688582 TATTTCAACTGAAGAGGCAGTTTTCCTCTACAAATGAACATTGGAAGATGAATTTGATGGTACTT
196 TATTTCAACTGAAGAGGCAGTTTTCCTCTACAAATGAACATTGGAAGATGAATTTGATGGTAC-T
688647 TCGAATTCCTTGGGCATGTAATTGGG
260 TCGAATTCCTTGGGCATGTAATTGGG
688673 TCTGAAATATCTAATGGTTGTACC-TTTTTATCTGGAAGATTGGCTCGTTGGAAGATTTTATTGT
1 TCTGAAATATCTAATGGTTGTACCTTTTTTATCTGGAAGATTGGCTCGTTGGAAGATTTTATTGT
688737 CTGAGTTTGATATCCAATAAGTAAGCCAAAAATTAGTTAAAGGGAGTACTGTAGAAGATTTCATT
66 CTGAGTTTGATATCCAATAAGTAAGCCAAAAATTAGTTAAAGGGAGTACTGTAGAAGATTTCATT
688802 GCAAGCAGGGCTTCCGAAGAATATAAACCATTAAACTTTGATTTCCCGGACGAAGACTTAATGGA
131 GCAAGCAGGGCTTCCGAAGAATATAAACCATTAAACTTTGATTTCCCGGACGAAGACTTAATGGA
688867 TATTTCAACTGAAGAGGCAG-TTTCCTCTACAAATGAACATTGGAAGATGAATTTTGATGGTACT
196 TATTTCAACTGAAGAGGCAGTTTTCCTCTACAAATGAACATTGGAAGATGAA-TTTGATGGTACT
688931 TCGAATTCCTTGGGCATGTAATTGGG
260 TCGAATTCCTTGGGCATGTAATTGGG
688957 GAAATTTTGG
Statistics
Matches: 283, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
284 58 0.20
285 201 0.71
286 24 0.08
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (285 bp):
TCTGAAATATCTAATGGTTGTACCTTTTTTATCTGGAAGATTGGCTCGTTGGAAGATTTTATTGT
CTGAGTTTGATATCCAATAAGTAAGCCAAAAATTAGTTAAAGGGAGTACTGTAGAAGATTTCATT
GCAAGCAGGGCTTCCGAAGAATATAAACCATTAAACTTTGATTTCCCGGACGAAGACTTAATGGA
TATTTCAACTGAAGAGGCAGTTTTCCTCTACAAATGAACATTGGAAGATGAATTTGATGGTACTT
CGAATTCCTTGGGCATGTAATTGGG
Found at i:690615 original size:26 final size:26
Alignment explanation
Indices: 690586--690652 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
690576 CTTCGCCTAA
* *
690586 AAAATAAAAAGAAAAAAT-AAATATAT
1 AAAA-AAAAAGAAAAAATGAAAAAGAT
*
690612 AAAAGAAAAGAAAAAATGAAAAAGAT
1 AAAAAAAAAGAAAAAATGAAAAAGAT
*
690638 AAAAATAAAGAAAAA
1 AAAAAAAAAGAAAAA
690653 GAAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (26 bp):
AAAAAAAAAGAAAAAATGAAAAAGAT
Found at i:690627 original size:32 final size:32
Alignment explanation
Indices: 690591--690657 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 32
690581 CCTAAAAAAT
690591 AAAAA-GAAAAA-ATAAATATATAAA-AGAAAAGA
1 AAAAATGAAAAAGATAAA-A-ATAAAGA-AAAAGA
690623 AAAAATGAAAAAGATAAAAATAAAGAAAAAGA
1 AAAAATGAAAAAGATAAAAATAAAGAAAAAGA
690655 AAA
1 AAA
690658 TAAAAGAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
32 19 0.59
33 8 0.25
34 5 0.16
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (32 bp):
AAAAATGAAAAAGATAAAAATAAAGAAAAAGA
Found at i:691149 original size:2 final size:2
Alignment explanation
Indices: 691142--691175 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
691132 CTCTTTACAT
*
691142 TA TA TA TA TA TA TA TA TG 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
691176 AAGAGGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:699867 original size:23 final size:23
Alignment explanation
Indices: 699811--699874 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
699801 TGATACACTA
* *
699811 TGAATGTGTACCGATACATTCCT
1 TGAATGTGTATCAATACATTCCT
699834 TGAATGTGTATCAATACATTCCT
1 TGAATGTGTATCAATACATTCCT
*
699857 TGAATGTGTATCAGTACA
1 TGAATGTGTATCAATACA
699875 CTTAAGAGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (23 bp):
TGAATGTGTATCAATACATTCCT
Found at i:700272 original size:21 final size:22
Alignment explanation
Indices: 700234--700278 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
700224 AATTAAAAAG
*
700234 TTTCAAAATAATT-TTTTTTAT
1 TTTCAAAATAATTCTTTTTGAT
**
700255 TTTCAAAATTGTTCTTTTTGAT
1 TTTCAAAATAATTCTTTTTGAT
700277 TT
1 TT
700279 AATTATGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTCAAAATAATTCTTTTTGAT
Found at i:702595 original size:20 final size:20
Alignment explanation
Indices: 702544--702596 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
702534 TGTAATTTGG
*
702544 GTACTGATACAAC-CTTGAGT
1 GTACCGATAC-ACTCTTGAGT
702564 GTACCGATACACTCTTGAGT
1 GTACCGATACACTCTTGAGT
702584 GTACCGATACACT
1 GTACCGATACACT
702597 AGGTCAACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (20 bp):
GTACCGATACACTCTTGAGT
Found at i:704233 original size:131 final size:130
Alignment explanation
Indices: 704039--704353 Score: 384
Period size: 131 Copynumber: 2.4 Consensus size: 130
704029 TATCTCCTTG
* * *
704039 TTTCGGTTGGAGTAATAAATGATTGCTTTAGGCATGAGAGGTCATTTATTCTCAATTGGAAATAA
1 TTTCGATTGGAGTAATAAATAATTGCTTTAGGCATAAGAGGTCATTTATTCTCAATTGGAAATAA
* * * * * * * *
704104 TCGGATATTA-CTGTTTTCACTCGAGTTAATATT-GATTTTTAAGATGGAATAGTGATATTTTTT
66 TCAGATATTATC-ATTTTCACTCGAATCAATATTGGA-TTTTAAGACGAAATAGTGATATCTCTT
704167 CA
129 CA
* * * *
704169 TTTCGATTGGAGTAATAAGTAACTGCTTTACGGCATAAGTGGTCATTTATTCTCTATTGGAAATA
1 TTTCGATTGGAGTAATAAATAATTGCTTTA-GGCATAAGAGGTCATTTATTCTCAATTGGAAATA
*
704234 ATTAGATATTATCATTTTCACTCGAATCAATATTGGATTTTAAGACGAAATAGTGATATCTCTTC
65 ATCAGATATTATCATTTTCACTCGAATCAATATTGGATTTTAAGACGAAATAGTGATATCTCTTC
704299 A
130 A
* * * *
704300 TTTCAATTGGGGTAATAAATTATTGTTTTAAGGCATGAA-AGGTCATTTATTCTC
1 TTTCGATTGGAGTAATAAATAATTGCTTT-AGGCAT-AAGAGGTCATTTATTCTC
704354 GATTAGAGAT
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
130 26 0.17
131 125 0.80
132 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (130 bp):
TTTCGATTGGAGTAATAAATAATTGCTTTAGGCATAAGAGGTCATTTATTCTCAATTGGAAATAA
TCAGATATTATCATTTTCACTCGAATCAATATTGGATTTTAAGACGAAATAGTGATATCTCTTCA
Found at i:712735 original size:144 final size:144
Alignment explanation
Indices: 712475--712762 Score: 576
Period size: 144 Copynumber: 2.0 Consensus size: 144
712465 ATAAGTCAAC
712475 CTTGGATTGATGATCTCTATTGCACTCCTTACTCTGCTAGTCTTTACTATTTCCAACATGTGACA
1 CTTGGATTGATGATCTCTATTGCACTCCTTACTCTGCTAGTCTTTACTATTTCCAACATGTGACA
712540 TGCTAAGTATTTACTTAGTGAGTAATAATAATGGATATGAACTGTAATTTATATCATGACTATTA
66 TGCTAAGTATTTACTTAGTGAGTAATAATAATGGATATGAACTGTAATTTATATCATGACTATTA
712605 AAATACGAAATAAA
131 AAATACGAAATAAA
712619 CTTGGATTGATGATCTCTATTGCACTCCTTACTCTGCTAGTCTTTACTATTTCCAACATGTGACA
1 CTTGGATTGATGATCTCTATTGCACTCCTTACTCTGCTAGTCTTTACTATTTCCAACATGTGACA
712684 TGCTAAGTATTTACTTAGTGAGTAATAATAATGGATATGAACTGTAATTTATATCATGACTATTA
66 TGCTAAGTATTTACTTAGTGAGTAATAATAATGGATATGAACTGTAATTTATATCATGACTATTA
712749 AAATACGAAATAAA
131 AAATACGAAATAAA
712763 TTGTATACTT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (144 bp):
CTTGGATTGATGATCTCTATTGCACTCCTTACTCTGCTAGTCTTTACTATTTCCAACATGTGACA
TGCTAAGTATTTACTTAGTGAGTAATAATAATGGATATGAACTGTAATTTATATCATGACTATTA
AAATACGAAATAAA
Found at i:713164 original size:111 final size:111
Alignment explanation
Indices: 712955--713181 Score: 321
Period size: 111 Copynumber: 2.0 Consensus size: 111
712945 TGAAGTGCCG
*
712955 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGAACATTTTATGCCAAAAATACATCGTTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGAACATTTTATGCCAAAAATACACCGTTA
** * * * * *
713020 TGCATTAAGTAAACTCAATTGATAACTTTATACACGAAGTATGTCA
66 TGCATTAAACAAAATCAATAGATAACATCATACACAAAGTATGTCA
* * *
713066 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGAACCTTTTATGCCGAAAATGCACCGTTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGAACATTTTATGCCAAAAATACACCGTTA
* *
713131 TGCATTAAACAAAATCGATAGAT-ACAATCATACACAAAGTATGTCG
66 TGCATTAAACAAAATCAATAGATAAC-ATCATACACAAAGTATGTCA
713177 AAATG
1 AAATG
713182 CACCTATAAC
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 2 0.02
111 100 0.98
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (111 bp):
AAATGGTAATTCACCTCATTATGAATACCATGGGTGGAACATTTTATGCCAAAAATACACCGTTA
TGCATTAAACAAAATCAATAGATAACATCATACACAAAGTATGTCA
Found at i:715735 original size:16 final size:18
Alignment explanation
Indices: 715703--715735 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
715693 ACTACATGAA
715703 TTCAACTTTTAATATATT
1 TTCAACTTTTAATATATT
715721 TTCAA-TTTT-ATATAT
1 TTCAACTTTTAATATAT
715736 CATCAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
TTCAACTTTTAATATATT
Found at i:721023 original size:21 final size:22
Alignment explanation
Indices: 720979--721023 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
720969 ATAATTAAAT
*
720979 TAAATTCATATCATTTTTTGAA
1 TAAATTCATATCACTTTTTGAA
*
721001 TAAATTCATATCCCTTTTT-AA
1 TAAATTCATATCACTTTTTGAA
721022 TA
1 TA
721024 TTCCAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATTCATATCACTTTTTGAA
Found at i:721543 original size:18 final size:19
Alignment explanation
Indices: 721514--721549 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
721504 ATTAAAAGAG
721514 TATTTTTGTTATTTTTATT
1 TATTTTTGTTATTTTTATT
721533 TATTTTT-TTATTTTTAT
1 TATTTTTGTTATTTTTAT
721550 GAAGTTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (19 bp):
TATTTTTGTTATTTTTATT
Found at i:725131 original size:57 final size:57
Alignment explanation
Indices: 725043--725156 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
725033 GGTTATGTAG
725043 TTTTAAGTGAAGAAAAGAAAGTCTATAGGTTAGTGAAGTCTTTGCATGAACTTAAAC
1 TTTTAAGTGAAGAAAAGAAAGTCTATAGGTTAGTGAAGTCTTTGCATGAACTTAAAC
725100 TTTTAAGTGAAGAAAAGAAAGTCTATAGGTTAGTGAAGTCTTTGCATGAACTTAAAC
1 TTTTAAGTGAAGAAAAGAAAGTCTATAGGTTAGTGAAGTCTTTGCATGAACTTAAAC
725157 AAGCACAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (57 bp):
TTTTAAGTGAAGAAAAGAAAGTCTATAGGTTAGTGAAGTCTTTGCATGAACTTAAAC
Found at i:734967 original size:45 final size:46
Alignment explanation
Indices: 734869--734975 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 46
734859 ATGCACATAC
* **
734869 CATGCATCGATGCACTCAGGTTTTTATAAAAAACATCGAATGCTTTT
1 CATGCATCGATGCACTCAGGTATTTAT-AAAAACATCGAATGCACTT
* *
734916 GATGCATCGATGCACTCAGGCTATTT-T-AAAATATCGAATGCACTT
1 CATGCATCGATGCACTCAGG-TATTTATAAAAACATCGAATGCACTT
734961 CATGCATCGATGCAC
1 CATGCATCGATGCAC
734976 ATTTAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 29 0.55
47 20 0.38
48 4 0.08
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (46 bp):
CATGCATCGATGCACTCAGGTATTTATAAAAACATCGAATGCACTT
Found at i:745160 original size:3 final size:3
Alignment explanation
Indices: 745147--745284 Score: 198
Period size: 3 Copynumber: 47.3 Consensus size: 3
745137 CACATGTTTG
745147 TAA TGAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA T-AA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* *
745193 T-A TAA TAA TAA T-A TAA T-C TAA TAA TAA TAA TAA TAA -CA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
745237 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
745284 T
1 T
745285 GGTTGAAAAA
Statistics
Matches: 123, Mismatches: 4, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
2 10 0.08
3 107 0.87
4 6 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:745506 original size:58 final size:58
Alignment explanation
Indices: 745433--745550 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
745423 GGGATGTCAA
745433 TCCACCTCCTTCTACGATGAATAATACATGATTGGACAAGTTCTTCTCATTATGAACT
1 TCCACCTCCTTCTACGATGAATAATACATGATTGGACAAGTTCTTCTCATTATGAACT
745491 TCCACCTCCTTCTACGATGAATAATACATGATTGGACAAGTTCTTCTCATTATGAACT
1 TCCACCTCCTTCTACGATGAATAATACATGATTGGACAAGTTCTTCTCATTATGAACT
745549 TC
1 TC
745551 TTTTATCGAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (58 bp):
TCCACCTCCTTCTACGATGAATAATACATGATTGGACAAGTTCTTCTCATTATGAACT
Found at i:746738 original size:10 final size:11
Alignment explanation
Indices: 746721--746748 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
746711 GTTAAAGTTT
746721 GGTAAAAATTC
1 GGTAAAAATTC
746732 GGTAAAAATTC
1 GGTAAAAATTC
746743 GGTAAA
1 GGTAAA
746749 TCGGATCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (11 bp):
GGTAAAAATTC
Found at i:747768 original size:23 final size:23
Alignment explanation
Indices: 747741--747796 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
747731 TTTTATAATG
747741 TTGAATCGAAGTTGATTTCATGC
1 TTGAATCGAAGTTGATTTCATGC
747764 TTGAATCGAAGTTGATTTCATGC
1 TTGAATCGAAGTTGATTTCATGC
747787 TTGAATCGAA
1 TTGAATCGAA
747797 TTAAAATCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (23 bp):
TTGAATCGAAGTTGATTTCATGC
Found at i:748942 original size:60 final size:60
Alignment explanation
Indices: 748832--748951 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
748822 GATAGGTCAG
*
748832 AAAACGAGGCAGCAGATTCTGCTCAAACAAATTCTGTCGGTGAACTTTTTAAATTCACCA
1 AAAACGAGGCAGCAGATTCTGCTCAAACAAATTCTGTCGGTGAACCTTTTAAATTCACCA
748892 AAAACGAGGCAGCAGATTCTGCTCAAAACAAATTCTGTCGGTG-ACCTTTTAAATTCACCA
1 AAAACGAGGCAGCAGATTCTGCTC-AAACAAATTCTGTCGGTGAACCTTTTAAATTCACCA
748952 TAAAGTACAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 40 0.69
61 18 0.31
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (60 bp):
AAAACGAGGCAGCAGATTCTGCTCAAACAAATTCTGTCGGTGAACCTTTTAAATTCACCA
Found at i:754980 original size:19 final size:20
Alignment explanation
Indices: 754956--755006 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
754946 CGGCCAAGAG
*
754956 CATGTATTTTCATTAAA-GT
1 CATGTATTTTCATTAAATAT
754975 CATGTATTTTCATTAAATAT
1 CATGTATTTTCATTAAATAT
754995 CATGTATTTTCA
1 CATGTATTTTCA
755007 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (20 bp):
CATGTATTTTCATTAAATAT
Found at i:755689 original size:11 final size:11
Alignment explanation
Indices: 755673--755697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
755663 AAGCATTCAA
755673 AAAAAGAAAAG
1 AAAAAGAAAAG
755684 AAAAAGAAAAG
1 AAAAAGAAAAG
755695 AAA
1 AAA
755698 TTACAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:756981 original size:24 final size:24
Alignment explanation
Indices: 756924--756981 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
756914 TTGAAGAACT
* *
756924 AATAGTTGTGACCTTTGATGATCC
1 AATAGTTATGACCTTTGACGATCC
* *
756948 ACA-AGATATGACCTTTGACGTTCC
1 A-ATAGTTATGACCTTTGACGATCC
756972 AATAGTTATG
1 AATAGTTATG
756982 CCACTTGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (24 bp):
AATAGTTATGACCTTTGACGATCC
Found at i:757967 original size:45 final size:46
Alignment explanation
Indices: 757918--758018 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 46
757908 TATAAAATCT
**
757918 CTTACCATTT-ATC-CTATAAGCTTGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATCTC-ATAAGCTCATAAGCTTATTTTACCAAAATA
* * *
757963 CTTACCATTTAAATTTCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT-AATCTCATAAGCTCATAAGCTTATTTTACCAAAATA
*
758010 CTTGCCATT
1 CTTACCATT
758019 ATTCCATAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 10 0.21
47 36 0.77
48 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.42
Consensus pattern (46 bp):
CTTACCATTTAATCTCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:758049 original size:20 final size:20
Alignment explanation
Indices: 758024--758066 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
758014 CCATTATTCC
* *
758024 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
758044 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
758064 ATA
1 ATA
758067 GCCCAATATA
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:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:758229 original size:59 final size:59
Alignment explanation
Indices: 758135--758256 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
758125 CTATCCCGAG
* **
758135 TATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAGTCCCAAA
1 TATGACACATAAGGTCGTGCCCACCATCTACACTAGGTATCCTTAAGTACAGTCCCAAA
* ** *
758194 TATGACACATAAGGTCGTGCCCACCA-CATACACTAGGTATCCTTTAGTGTATTCCCAAA
1 TATGACACATAAGGTCGTGCCCACCATC-TACACTAGGTATCCTTAAGTACAGTCCCAAA
758253 TATG
1 TATG
758257 CAGCCTCCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 1 0.02
59 54 0.98
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (59 bp):
TATGACACATAAGGTCGTGCCCACCATCTACACTAGGTATCCTTAAGTACAGTCCCAAA
Found at i:765050 original size:45 final size:46
Alignment explanation
Indices: 765001--765095 Score: 129
Period size: 47 Copynumber: 2.1 Consensus size: 46
764991 TATAAAATCT
* *
765001 CTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAATCCCATAAACTCATAAGCTTATTTTACCAAAATA
* * *
765046 CTTACCATTTAAATTCCATAAACTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT-AATCCCATAAACTCATAAGCTTATTTTACCAAAATA
765093 CTT
1 CTT
765096 GACATTATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 10 0.23
47 33 0.77
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (46 bp):
CTTACCATTTAATCCCATAAACTCATAAGCTTATTTTACCAAAATA
Found at i:769162 original size:20 final size:20
Alignment explanation
Indices: 769119--769170 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
769109 CGGCCAATAG
769119 CATGTATTTTC-ATTAAAGT
1 CATGTATTTTCAATTAAAGT
769138 CATGTATTTTCAATATAAA-T
1 CATGTATTTTCAAT-TAAAGT
769158 CATGTATTTTCAA
1 CATGTATTTTCAA
769171 AGGGGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.35
20 16 0.52
21 4 0.13
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.46
Consensus pattern (20 bp):
CATGTATTTTCAATTAAAGT
Found at i:777517 original size:21 final size:21
Alignment explanation
Indices: 777465--777517 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
777455 TAAATCCCAG
777465 ATTGAGGAAGAGCATATTGAAT
1 ATTGAGGAA-AGCATATTGAAT
*
777487 ATTTGA-GAAAG-GTATTCGAAT
1 A-TTGAGGAAAGCATATT-GAAT
777508 ATTGAGGAAA
1 ATTGAGGAAA
777518 TACCAGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 4 0.15
23 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.28
Consensus pattern (21 bp):
ATTGAGGAAAGCATATTGAAT
Found at i:780101 original size:13 final size:12
Alignment explanation
Indices: 780036--780118 Score: 60
Period size: 13 Copynumber: 6.3 Consensus size: 12
780026 AATAAGAAGA
780036 AAAAGAAACAAAG
1 AAAAGAAA-AAAG
*
780049 CAAAAGAAAACAAA
1 -AAAAGAAAA-AAG
780063 AAAAGGAAAAAAG
1 AAAA-GAAAAAAG
* *
780076 GAAAGAAGGAAAG
1 AAAAGAA-AAAAG
780089 AAAAGAATAAAAG
1 AAAAGAA-AAAAG
780102 AAATA-ATAAAAAG
1 AAA-AGA-AAAAAG
780115 AAAA
1 AAAA
780119 AAAGAGGTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
12 4 0.07
13 36 0.63
14 17 0.30
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.04
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:780818 original size:6 final size:6
Alignment explanation
Indices: 780807--780871 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
780797 ACCAATGAAG
* *
780807 AAGAAA AAGAAA AAGAAA GAAAAAA AAGAGAA GAAGAAA AA-AAA GAAAAAA
1 AAGAAA AAGAAA AAGAAA -AAGAAA AAGA-AA -AAGAAA AAGAAA -AAGAAA
*
780858 AAGAAA AATAAA AA
1 AAGAAA AAGAAA AA
780872 AGGAGAGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
5 3 0.06
6 31 0.62
7 12 0.24
8 4 0.08
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:780829 original size:9 final size:9
Alignment explanation
Indices: 780804--780865 Score: 81
Period size: 9 Copynumber: 6.9 Consensus size: 9
780794 ACAACCAATG
*
780804 AAGAAGAAA
1 AAGAAAAAA
780813 AAGAAAAAGA
1 AAGAAAAA-A
780823 AAGAAAAAA
1 AAGAAAAAA
* *
780832 AAG-AGAAG
1 AAGAAAAAA
780840 AAGAAAAAA
1 AAGAAAAAA
780849 AAGAAAAAA
1 AAGAAAAAA
780858 AAGAAAAA
1 AAGAAAAA
780866 TAAAAAAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
8 6 0.13
9 31 0.67
10 9 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:780853 original size:26 final size:27
Alignment explanation
Indices: 780808--780873 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
780798 CCAATGAAGA
780808 AGAAAAAGAAAAAGAAAGAAAAAAAAG
1 AGAAAAAGAAAAAGAAAGAAAAAAAAG
*
780835 AGAAGAAGAAAAA-AAAGAAAAAAAAG
1 AGAAAAAGAAAAAGAAAGAAAAAAAAG
780861 A-AAAATA-AAAAAG
1 AGAAAA-AGAAAAAG
780874 GAGAGAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 8 0.23
26 15 0.43
27 12 0.34
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AGAAAAAGAAAAAGAAAGAAAAAAAAG
Found at i:780870 original size:15 final size:14
Alignment explanation
Indices: 780804--780872 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 14
780794 ACAACCAATG
*
780804 AAGAAGAAAAAGAAA
1 AAGAA-AAAAAAAAA
780819 AAGAAAGAAAAAAAA
1 AAGAAA-AAAAAAAA
* *
780834 GAGAAGAAGAAAAAA
1 AAGAA-AAAAAAAAA
780849 AAGAAAAAAAAGAAA
1 AAGAAAAAAAA-AAA
*
780864 AATAAAAAA
1 AAGAAAAAA
780873 GGAGAGAAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.13
15 38 0.84
16 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (14 bp):
AAGAAAAAAAAAAA
Found at i:821422 original size:19 final size:22
Alignment explanation
Indices: 821370--821423 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
821360 TATACACAAT
*
821370 TAATGAAATTGTTTTAAAGTTGA
1 TAATGAAATT-TTTTAAAGATGA
821393 TAATGAAATTTTTTAAA-ATGA
1 TAATGAAATTTTTTAAAGATGA
821414 -AAT-AAATTTT
1 TAATGAAATTTT
821424 AAGCATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 7 0.23
20 3 0.10
21 3 0.10
22 7 0.23
23 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (22 bp):
TAATGAAATTTTTTAAAGATGA
Found at i:822811 original size:46 final size:46
Alignment explanation
Indices: 822706--822804 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 46
822696 TTTATGTCAT
* *
822706 TAATGCACCGTTATACATTTTTGTTTGTGGCATCCTATCATACCGA
1 TAATGCACCGTTATACATTTTCGTTTGTGGCATCATATCATACCGA
* * * *
822752 TAATGCACCGTTATGCATTTTCGTTTGTGGCATGATTTCATGCCGA
1 TAATGCACCGTTATACATTTTCGTTTGTGGCATCATATCATACCGA
822798 TAATGCA
1 TAATGCA
822805 TTGTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (46 bp):
TAATGCACCGTTATACATTTTCGTTTGTGGCATCATATCATACCGA
Found at i:834776 original size:46 final size:46
Alignment explanation
Indices: 834726--835437 Score: 654
Period size: 46 Copynumber: 15.4 Consensus size: 46
834716 GAGTTATCAG
* * * ** * *
834726 TTATGCATTTTCGTTTATGACATCCTTTTATGTTGATATTACACCA
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
** * **
834772 TTATGCATTTTCAATTGTGGCATCCTATCATGCCGATAATGCACTG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * *
834818 TTATGCATTTTTGTTTATGGCATCATTTCATGCCGATAATGCACCGA
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACC-A
* * *
834865 -TATGCATTTTCGTTTGTGGCATCCTTTCATGTCGTTAATGCACTA
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * *
834910 CTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * *
834956 TTATGCATTTTTGTTTGTGGTATCCTTTAATGCTAATAACGCACCGATAATGCACCG
1 TTATGCATTTTCGTTTGTGGCATCC-TT--T-C--AT---G--CCGATAATGCACCA
* ** *
835013 TTATGCAATTTT-GTTTGTAGCATCCTTTCATATCGATAATGCACCG
1 TTATGC-ATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * * *
835059 TAATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGTACCG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * * *
835105 TTATGCATTTTCGTTTGTGGTATCCTTTCATACCGATAATGCATCG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
** *
835151 TTATGCATTATT-GTTTGTGGCATCCTTTCATGTTGATAATGCACCG
1 TTATGCATT-TTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * * * * * *
835197 TTATGAATTTT--TTTATGACAT--TGTTCAAG-CGATAATTCATCG
1 TTATGCATTTTCGTTTGTGGCATCCT-TTCATGCCGATAATGCACCA
* * ** **
835239 TTATGTATTTTCATTTGTGGCATCC-TTCATATCGATAATGCA-TG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
*
835283 TTATGCATTTTCGTTTGTGGCATCATTTCATGCCGATAATGCACCA
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* **
835329 TTATGCATTTTCATTTGT-GCATCCTTTCATGCCGATAATGCACTG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
* * * *
835374 TTATGCATTTTCATTTGTGGCATCCTTTCATGCCAATAATGCATCG
1 TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
**
835420 TTACACATTTTCGTTTGT
1 TTATGCATTTTCGTTTGT
835438 TCATTCATTT
Statistics
Matches: 554, Mismatches: 87, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
42 21 0.04
43 5 0.01
44 43 0.08
45 74 0.13
46 361 0.65
47 4 0.01
49 1 0.00
50 1 0.00
51 2 0.00
52 2 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 2 0.00
57 30 0.05
58 5 0.01
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (46 bp):
TTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCA
Found at i:834882 original size:92 final size:92
Alignment explanation
Indices: 834725--835437 Score: 744
Period size: 92 Copynumber: 7.7 Consensus size: 92
834715 AGAGTTATCA
* * * ** * * * *
834725 GTTATGCATTTTCGTTTATGACATCCTTTTATGTTGATATTACACCATTATGCATTTTCAATTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
*
834790 GGCATCCTATCATGCCGATAATGCACT
66 GGCATCCTTTCATGCCGATAATGCACT
* * * * *
834817 GTTATGCATTTTTGTTTATGGCATCATTTCATGCCGATAATGCACCGATATGCATTTTCGTTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
* *
834882 GGCATCCTTTCATGTCGTTAATGCACT
66 GGCATCCTTTCATGCCGATAATGCACT
** * **
834909 ACTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
* *
834974 GGTATCCTTTAATGCTAATAACGCACCGATAATGCACC
66 GGCATCC-TT--T-C--AT---G--CCGATAATGCACT
* ** *
835012 GTTATGCAATTTT-GTTTGTAGCATCCTTTCATATCGATAATGCACCGTAATGCATTTTCATTTG
1 GTTATGC-ATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTG
* *
835076 TGGCATCCTTTCATGCCGATAATGTACC
65 TGGCATCCTTTCATGCCGATAATGCACT
* * * *
835104 GTTATGCATTTTCGTTTGTGGTATCCTTTCATACCGATAATGCATCGTTATGCATTATT-GTTTG
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATT-TTCATTTG
** *
835168 TGGCATCCTTTCATGTTGATAATGCACC
65 TGGCATCCTTTCATGCCGATAATGCACT
* * * * * * *
835196 GTTATGAATTTT--TTTATGACAT--TGTTCAAG-CGATAATTCATCGTTATGTATTTTCATTTG
1 GTTATGCATTTTCGTTTGTGGCATCCT-TTCATGCCGATAATGCACCGTTATGCATTTTCATTTG
**
835256 TGGCATCC-TTCATATCGATAATGCA-T
65 TGGCATCCTTTCATGCCGATAATGCACT
* *
835282 GTTATGCATTTTCGTTTGTGGCATCATTTCATGCCGATAATGCACCATTATGCATTTTCATTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
835347 -GCATCCTTTCATGCCGATAATGCACT
66 GGCATCCTTTCATGCCGATAATGCACT
* * * ** *
835373 GTTATGCATTTTCATTTGTGGCATCCTTTCATGCCAATAATGCATCGTTACACATTTTCGTTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
835438 TCATTCATTT
Statistics
Matches: 521, Mismatches: 77, Indels: 47
0.81 0.12 0.07
Matches are distributed among these distances:
86 11 0.02
87 17 0.03
88 41 0.08
89 15 0.03
90 50 0.10
91 63 0.12
92 237 0.45
93 4 0.01
94 1 0.00
95 1 0.00
96 1 0.00
97 2 0.00
98 2 0.00
99 1 0.00
100 1 0.00
101 1 0.00
102 2 0.00
103 66 0.13
104 5 0.01
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (92 bp):
GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
GGCATCCTTTCATGCCGATAATGCACT
Found at i:835143 original size:195 final size:184
Alignment explanation
Indices: 834725--835416 Score: 676
Period size: 195 Copynumber: 3.7 Consensus size: 184
834715 AGAGTTATCA
* * * ** * * * * ***
834725 GTTATGCATTTTCGTTTATGACATCCTTTTATGTTGATATTACACCATTATGCATTTTCAATTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
* * * * *
834790 GGCATCCTATCATG--CCGATAATGCACTGTTATGCATTTTTGTTTATGGCATCATTTCATGCCG
66 GGCATCCTTTAATGTTCCGATAATGCACCGTTATGCAATTTTGTTTAT-GCATC-TTTCATACCG
* *
834853 ATAATGCACCG-ATATGCATTTTCGTTTGTGGCATCCTTTCATGTCGTTAATGCACT
129 ATAATGCACCGTA-ATGCATTTTCATTTGTGGCATCCTTTCATGTCGATAATGCACT
**
834909 ACTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
* *
834974 GGTATCCTTTAATGCTAATAACGCACCGATAATGCACCGTTATGCAATTTTGTTTGTAGCATCCT
66 GGCATCCTTTAATG-T--T------CCGATAATGCACCGTTATGCAATTTTGTTTAT-GCAT-CT
* * * *
835039 TTCATATCGATAATGCACCGTAATGCATTTTCATTTGTGGCATCCTTTCATGCCGATAATGTACC
120 TTCATACCGATAATGCACCGTAATGCATTTTCATTTGTGGCATCCTTTCATGTCGATAATGCACT
* * *
835104 GTTATGCATTTTCGTTTGTGGTATCCTTTCATACCGATAATGCATCGTTATGCATTATTGTTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
* *
835169 GGCATCCTTTCATGTT--GATAATGCACCGTTATG-AATTTT-TTTATGACAT-TGTTCA-AGCG
66 GGCATCCTTTAATGTTCCGATAATGCACCGTTATGCAATTTTGTTTATG-CATCT-TTCATACCG
* * * * *
835228 ATAATTCATCGTTATGTATTTTCATTTGTGGCATCC-TTCATATCGATAATGCA-T
129 ATAATGCACCGTAATGCATTTTCATTTGTGGCATCCTTTCATGTCGATAATGCACT
* * * **
835282 GTTATGCATTTTCGTTTGTGGCATCATTTCATGCCGATAATGCACCATTATGCATTTTCATTTGT
1 GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
* * * * *
835347 -GCATCCTTTCATG--CCGATAATGCACTGTTATGC-ATTTTCATTTGTGGCATCCTTTCATGCC
66 GGCATCCTTTAATGTTCCGATAATGCACCGTTATGCAATTTT-GTTTAT-GCAT-CTTTCATACC
*
835408 AATAATGCA
128 GATAATGCA
835417 TCGTTACACA
Statistics
Matches: 425, Mismatches: 59, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
177 34 0.08
178 57 0.13
179 21 0.05
180 41 0.10
181 14 0.03
182 7 0.02
183 6 0.01
184 79 0.19
192 1 0.00
194 1 0.00
195 162 0.38
196 2 0.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.42
Consensus pattern (184 bp):
GTTATGCATTTTCGTTTGTGGCATCCTTTCATGCCGATAATGCATCGTTATGCATTTTTGTTTGT
GGCATCCTTTAATGTTCCGATAATGCACCGTTATGCAATTTTGTTTATGCATCTTTCATACCGAT
AATGCACCGTAATGCATTTTCATTTGTGGCATCCTTTCATGTCGATAATGCACT
Found at i:835966 original size:151 final size:149
Alignment explanation
Indices: 835696--835999 Score: 540
Period size: 151 Copynumber: 2.0 Consensus size: 149
835686 ATAATCATCA
835696 TTATTACACATACCATACAAATGTTAGTATACTCTCTAATTTATACTTTAATAATACTTAAAAGT
1 TTATTACACATACCATACAAATGTTAGTATACTCTCTAATTTATACTTTAATAATACTTAAAAGT
835761 ATATTATATTCAATTCTATTAAAATTTATCCTATCTAAAACATTTCAGACTCAATAGTATCGATA
66 ATATTATATTCAATTCTATTAAAATTTATCCTATCTAAAACATTTCAGACTCAATAGTATCGATA
835826 -CCC-TACGGTATCAATAC
131 CCCCATACGGTATCAATAC
835843 TTATTACACATACCATACAAATGTTAGTATACTCTCTAATATTTATACTTTAATAATACTTAAAA
1 TTATTACACATACCATACAAATGTTAGTATACTCTCT-A-ATTTATACTTTAATAATACTTAAAA
835908 GTACTATTATATTCAATTTCTATTAAAATTTATCCTATCTAAAACATTTCAGACTCAATAGTATC
64 GTA-TATTATATTCAA-TTCTATTAAAATTTATCCTATCTAAAACATTTCAGACTCAATAGTATC
835973 GATACCCCTAGTACGGTATCAATAC
127 GATACCCC-A-TACGGTATCAATAC
835998 TT
1 TT
836000 GTATACTATC
Statistics
Matches: 149, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
147 37 0.25
148 1 0.01
149 28 0.19
150 12 0.08
151 52 0.35
152 3 0.02
155 16 0.11
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (149 bp):
TTATTACACATACCATACAAATGTTAGTATACTCTCTAATTTATACTTTAATAATACTTAAAAGT
ATATTATATTCAATTCTATTAAAATTTATCCTATCTAAAACATTTCAGACTCAATAGTATCGATA
CCCCATACGGTATCAATAC
Found at i:839796 original size:28 final size:28
Alignment explanation
Indices: 839756--839809 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
839746 GTTAAACGCC
*
839756 GGGGTATTTCTTCCACAGAATGGAGGCT
1 GGGGCATTTCTTCCACAGAATGGAGGCT
839784 GGGGCATTTCTTCCACAGAATGGAGG
1 GGGGCATTTCTTCCACAGAATGGAGG
839810 AAAATCCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (28 bp):
GGGGCATTTCTTCCACAGAATGGAGGCT
Found at i:840932 original size:46 final size:46
Alignment explanation
Indices: 840869--841623 Score: 752
Period size: 46 Copynumber: 16.7 Consensus size: 46
840859 ATGAGTGGTA
* * * * *
840869 CCTTTTATGTCGTTAATGCATCGTTATACATTTTTATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * *
840915 TCTTTCATGTCGATAATGCACCGTTATG--TATT--TTTATGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * * * *
840957 CCTTTCAGGCCAATAATGCACCGTTATGCATTTTCAATTATGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
** * * * * * *
841003 CCTTTCA-CACTAAAAAGGTACCATTATGCATTTTCATTTGTGGTAT
1 CCTTTCATGTC-GATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * *
841049 CCTTTCATGTCGATAATGCACCGTTATTCATTTTAATTTATGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
** *
841095 CCTTTCATGTCGATAATATACCATTATGCATTTTCATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * * *
841141 CATTTCATGCCGATAATGCACCGTTATGCATTTTCGTTTATGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * *
841187 CCTTTCATGCCGATAATGCACCATTACGCATATTT-ATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCAT-TTTCATTTGTGGCAT
**
841233 CCTTTCATG-C----AT-----GTTATGCATTTTTGTTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* ** **
841269 CCTTTTATGTCGATAATGCAATGTTATGCATTTTCATTTGTCCCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * * * *
841315 CCTTTCATGCCGATAATACACTGTTATGTATTTTCATTTGTAGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * ** *
841361 CCTTTTATGCCGATAATGCACCGTTATATATTTTCATTTGTGACAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
** * *
841407 CCTTTCATGTCGATAATGCACCGTTATGCATTTTTGTTTATGACAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * *
841453 CCTTTCATGCCGATAATGCACCGTTATGCATTTTCGTTTGTGTCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* ** * *
841499 CCTTTCTTACCGATAATGCACCGTTATGTATTTTCGTTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* *
841545 CCGTTCATGTCGATAATGCACTGTTATGCATTTTCATTTGTGGCAT
1 CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
* * *
841591 CATTTCATG-CTTATAATGCACCATTATGCATTT
1 CCTTTCATGTC-GATAATGCACCGTTATGCATTT
841624 GTGTTTGTTC
Statistics
Matches: 591, Mismatches: 99, Indels: 38
0.81 0.14 0.05
Matches are distributed among these distances:
35 3 0.01
36 25 0.04
37 1 0.00
41 4 0.01
42 33 0.06
44 6 0.01
45 3 0.01
46 512 0.87
47 4 0.01
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (46 bp):
CCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGGCAT
Found at i:843036 original size:19 final size:19
Alignment explanation
Indices: 842993--843049 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
842983 AGAATGGAAA
* *
842993 ATAGTATCGGTACCGTAAT
1 ATAGTATCGATACCATAAT
*
843012 AGAGTATCGATACCATAGTAT
1 ATAGTATCGATACCATA--AT
843033 AGTAGTATCGATACCAT
1 A-TAGTATCGATACCAT
843050 GGTGTGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 14 0.45
21 3 0.10
22 14 0.45
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (19 bp):
ATAGTATCGATACCATAAT
Found at i:843042 original size:22 final size:20
Alignment explanation
Indices: 842994--843049 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 20
842984 GAATGGAAAA
* *
842994 TAGTATCGGTACCGTAATAG
1 TAGTATCGATACCATAATAG
843014 -AGTATCGATACCATAGTATAG
1 TAGTATCGATACCATA--ATAG
843035 TAGTATCGATACCAT
1 TAGTATCGATACCAT
843050 GGTGTGGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (20 bp):
TAGTATCGATACCATAATAG
Found at i:843536 original size:55 final size:55
Alignment explanation
Indices: 843404--843610 Score: 267
Period size: 55 Copynumber: 3.8 Consensus size: 55
843394 TAAGCGTGCA
* *
843404 AAAACTTAAGAAATCCATACTAAGTGTATTAA-TTTCTGTATGGGCACTTTGTGT-G
1 AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTTC-GTATGGGCACTATGTGTGG
** * *
843459 -AAACTAAGAAATTGATACTAAGTGTTTGAATTTTCGTATGGACACTATGTGTGG
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGG
* * *
843513 AAAACTAAGAAATCCATAGTAAGTGTATGAATTTTCGTACGGGCACTATGTGTGC
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGG
* * *
843568 AAAACTAAGAAATCTATACTAAGTGTAAGAATTTCCGTATGGG
1 AAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGG
843611 AAATATATGC
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
53 37 0.28
54 9 0.07
55 85 0.65
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (55 bp):
AAAACTAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGG
Found at i:843558 original size:108 final size:110
Alignment explanation
Indices: 843404--843609 Score: 294
Period size: 108 Copynumber: 1.9 Consensus size: 110
843394 TAAGCGTGCA
* * *
843404 AAAACTTAAGAAATCCATACTAAGTGTATTAATTTCTGTATGGGCACTTTGTGTG-AAACTAAGA
1 AAAACTTAAGAAATCCATACTAAGTGTATGAATTTCTGTACGGGCACTATGTGTGAAAACTAAGA
** *
843468 AAT-TGATACTAAGTGTTTGAATTTTCGTATGGACACTATGTGTGG
66 AATCT-ATACTAAGTGTAAGAATTTCCGTATGGACACTATGTGTGG
*
843513 AAAAC-TAAGAAATCCATAGTAAGTGTATGAATTT-TCGTACGGGCACTATGTGTGCAAAACTAA
1 AAAACTTAAGAAATCCATACTAAGTGTATGAATTTCT-GTACGGGCACTATGTGTG-AAAACTAA
843576 GAAATCTATACTAAGTGTAAGAATTTCCGTATGG
64 GAAATCTATACTAAGTGTAAGAATTTCCGTATGG
843610 GAAATATATG
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
107 1 0.01
108 43 0.50
109 5 0.06
110 36 0.42
111 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (110 bp):
AAAACTTAAGAAATCCATACTAAGTGTATGAATTTCTGTACGGGCACTATGTGTGAAAACTAAGA
AATCTATACTAAGTGTAAGAATTTCCGTATGGACACTATGTGTGG
Found at i:843923 original size:47 final size:46
Alignment explanation
Indices: 843850--843943 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 46
843840 TAGAAATCTG
* * *
843850 TCAATTATGTAGTTAGATGAATGGTTAAAGACTATTGAGTAAAAGA
1 TCAATTATGTAGTTAGATAAACGGTTAAAGACTATGGAGTAAAAGA
*
843896 TCAATTATGCTAGTTAGATAAACGGTTAAAGACTGTGGAGTAAAAGA
1 TCAATTATG-TAGTTAGATAAACGGTTAAAGACTATGGAGTAAAAGA
843943 T
1 T
843944 AAATGGCCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 9 0.21
47 34 0.79
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.31
Consensus pattern (46 bp):
TCAATTATGTAGTTAGATAAACGGTTAAAGACTATGGAGTAAAAGA
Found at i:844031 original size:81 final size:81
Alignment explanation
Indices: 843896--844590 Score: 862
Period size: 81 Copynumber: 8.6 Consensus size: 81
843886 GAGTAAAAGA
* * * *
843896 TCAATTATGCTAGTTAGATAAACGGTTAAAGACTGTGGAGTAAAAGATAAATGGCCTAGTTGTGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
*
843961 ACTTGGCAGAAAGGTG
66 ATTTGGCAGAAAGGTG
*
843977 TCAATTATGCCAGTTAGATGAATGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
*
844042 ACTTT-GTAGAAAGGTG
66 A-TTTGGCAGAAAGGTG
* * *
844058 TCAGTTATGTCAGTTAGATGAACGGTTAAAGATCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
* * * *
844123 ACTTAGTA-AGAATGTG
66 ATTTGGCAGA-AAGGTG
*
844139 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAA-ATTAAATGGGCTAGTTGTG
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGA-TAAATGGCCTAGTTGTG
844203 CATTTGGCAGAAAGGTG
65 CATTTGGCAGAAAGGTG
* * * * * * *
844220 TCAATTATGCCAGTTAGATGGACGGTTAAAGATCGTTGACTAAAAGACAAATGACCTAGCTGTGT
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
* *
844285 ATTTGGCATAAATGTG
66 ATTTGGCAGAAAGGTG
* * * * * * *
844301 CCAATTATG-CAGTTAGATGAAAGGATAAAGACCATTGAGTAAAAGATAAATAGCCTAGCTATGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
* *
844365 ATTTGGCATAAAGTTG
66 ATTTGGCAGAAAGGTG
* * *
844381 TCAATTATGCCAGTTAAGATGAACGGTTAAAAACCGTTGAGTAAAAGGTAAATGGCCTAGCTGTG
1 TCAATTATGCCAGTT-AGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTG
*
844446 CATTTGGCATAAAGGTG
65 CATTTGGCAGAAAGGTG
** * *
844463 TCAATTATGAAAGTTAGATGAACGGTTAAAGACCATTGAGTAAAAGATAAATGGTCTAGTTGTGC
1 TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
*
844528 ATTTGGTAGAACA-GTG
66 ATTTGGCAGAA-AGGTG
* * * * * *
844544 TTAATCATGCAAGTTAGATGAAAGGTTAAATG-CCTTTGGGTAAAAGA
1 TCAATTATGCCAGTTAGATGAACGGTTAAA-GACCGTTGAGTAAAAGA
844591 ATTAAGGAAT
Statistics
Matches: 535, Mismatches: 69, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
80 70 0.13
81 388 0.73
82 77 0.14
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (81 bp):
TCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGATAAATGGCCTAGTTGTGC
ATTTGGCAGAAAGGTG
Found at i:848593 original size:81 final size:81
Alignment explanation
Indices: 848453--848947 Score: 645
Period size: 81 Copynumber: 6.1 Consensus size: 81
848443 CAATTCCAAA
* * * *
848453 AGTAGAAGATTAATGACCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGGCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTATCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
848518 CGGTTAAATACCATTG
66 CGGTTAAATACCGTTG
* *
848534 AGTAAAAGATTAATGGCCTATCT-TAGCATTTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGA
1 AGTAAAAGATTAATGGCCTATCTGT-GCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
*
848598 ACGATTAAATACCGTTG
65 ACGGTTAAATACCGTTG
*
848615 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTATCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
848680 CGGTTAAATATCGTTG
66 CGGTTAAATACCGTTG
* * * ** * *
848696 AGTAAAGGATTAATTGCCTAACTGTGCATTTGAAAGAAAAGTGTCAATTATGCCATTTAGATGAA
1 AGTAAAAGATTAATGGCCTATCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
848761 CGGTTAAATACCGTTG
66 CGGTTAAATACCGTTG
* * * *
848777 AGTAAAATATTAATTGCCTAGT-TGTGCATTTGGCAGAAATGTATCAATTATGCCAGTTAGATCA
1 AGTAAAAGATTAATGGCCTA-TCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
*
848841 ACGGTTAAATATCGTTG
65 ACGGTTAAATACCGTTG
* * ** * *
848858 AGTAAAGGATTAATTGCCTAAT-TGTGCATTTGAAAGAAAAGTGTCAATTATGCAAGTTAGATGA
1 AGTAAAAGATTAATGGCCT-ATCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
* * * *
848922 AAGGCTAAATGCCTTTG
65 ACGGTTAAATACCGTTG
*
848939 GGTAAAAGA
1 AGTAAAAGA
848948 ATAAAGGAAT
Statistics
Matches: 364, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 361 0.99
82 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTATCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATACCGTTG
Found at i:848727 original size:162 final size:162
Alignment explanation
Indices: 848453--848922 Score: 735
Period size: 162 Copynumber: 2.9 Consensus size: 162
848443 CAATTCCAAA
* * *
848453 AGTAGAAGATTAATGACCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGGCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
* * * * * ** *
848518 CGGTTAAATACCATTGAGTAAAAGATTAATGGCCTATCT-TAGCATTTGGCAGAAAGGTGTCAAT
66 CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAACTGT-GCATTTGAAAGAAAAGTGTCAAT
*
848582 TATGCTAGTTAGATGAACGATTAAATACCGTTG
130 TATGCAAGTTAGATGAACGATTAAATACCGTTG
848615 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
848680 CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAACTGTGCATTTGAAAGAAAAGTGTCAATT
66 CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAACTGTGCATTTGAAAGAAAAGTGTCAATT
* * *
848745 ATGCCATTTAGATGAACGGTTAAATACCGTTG
131 ATGCAAGTTAGATGAACGATTAAATACCGTTG
* * * * *
848777 AGTAAAATATTAATTGCCTAGTTGTGCATTTGGCAGAAATGTATCAATTATGCCAGTTAGATCAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
848842 CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAATTGTGCATTTGAAAGAAAAGTGTCAATT
66 CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAACTGTGCATTTGAAAGAAAAGTGTCAATT
848907 ATGCAAGTTAGATGAA
131 ATGCAAGTTAGATGAA
848923 AGGCTAAATG
Statistics
Matches: 285, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
162 284 1.00
163 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (162 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAATATCGTTGAGTAAAGGATTAATTGCCTAACTGTGCATTTGAAAGAAAAGTGTCAATT
ATGCAAGTTAGATGAACGATTAAATACCGTTG
Found at i:849130 original size:90 final size:90
Alignment explanation
Indices: 848988--849315 Score: 326
Period size: 90 Copynumber: 3.6 Consensus size: 90
848978 AATGATATAT
* *
848988 AAAGGCATGAAAGGATGCCATAAATGAAACAT--ATAATAGTGTATTA-AAGGCATGAAAATATG
1 AAAGGCATGAAAGGATGCCATAAAT-AAA-ATGCATAATAGTGCATTATAA-GCATGAAAGTATG
* * * *
849050 CCATAAATGAAATGTATAAT-AGTGTATA
63 CCATAATTGAAATGCAT-ATGGGTGCATA
* ** *
849078 AAAGGCATGAAAGGATGCCATAAATAAAATGTATAATAGTGCATTATCGGCATGAAAGGATGCCA
1 AAAGGCATGAAAGGATGCCATAAATAAAATGCATAATAGTGCATTATAAGCATGAAAGTATGCCA
*
849143 TAATTGAAATGCATATGGGTGCATT
66 TAATTGAAATGCATATGGGTGCATA
** * * * * * *
849168 ATCGACATGAAAGGATTCCATAATTGAAATGCGT-ATGGGTGCATTATCAA-CATGAAAGTATGC
1 AAAGGCATGAAAGGATGCCATAAATAAAATGCATAAT-AGTGCATTAT-AAGCATGAAAGTATGC
*
849231 CATAATTGAAATGCATATGGGTGCATT
64 CATAATTGAAATGCATATGGGTGCATA
** * *
849258 ATCGGTATGAAAGGATGCCATAAATAAAAAATGCATAATGGTGCATTATAAGCATGAA
1 AAAGGCATGAAAGGATGCCATAAAT--AAAATGCATAATAGTGCATTATAAGCATGAA
849316 TGGATTCTCT
Statistics
Matches: 200, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
88 2 0.01
89 7 0.04
90 164 0.82
91 2 0.01
92 23 0.12
93 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (90 bp):
AAAGGCATGAAAGGATGCCATAAATAAAATGCATAATAGTGCATTATAAGCATGAAAGTATGCCA
TAATTGAAATGCATATGGGTGCATA
Found at i:849153 original size:45 final size:45
Alignment explanation
Indices: 848991--849320 Score: 292
Period size: 45 Copynumber: 7.3 Consensus size: 45
848981 GATATATAAA
* * **
848991 GGCATGAAAGGATGCCATAAATGAAA--CATATAATAGTGTATTAAA
1 GGCATGAAAGGATGCCATAAATGAAATGCATAT--GAGTGCATTATC
** * * * **
849036 GGCATGAAAATATGCCATAAATGAAATGTATAAT-AGTGTATAAAA
1 GGCATGAAAGGATGCCATAAATGAAATGCAT-ATGAGTGCATTATC
* *
849081 GGCATGAAAGGATGCCATAAATAAAATGTATAAT-AGTGCATTATC
1 GGCATGAAAGGATGCCATAAATGAAATGCAT-ATGAGTGCATTATC
* *
849126 GGCATGAAAGGATGCCATAATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATGAAATGCATATGAGTGCATTATC
* * * * *
849171 GACATGAAAGGATTCCATAATTGAAATGCGTATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATGAAATGCATATGAGTGCATTATC
** * * *
849216 AACATGAAAGTATGCCATAATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATGAAATGCATATGAGTGCATTATC
* * *
849261 GGTATGAAAGGATGCCATAAATAAAAAATGCATAATG-GTGCATTATA
1 GGCATGAAAGGATGCCATAAAT--GAAATGCAT-ATGAGTGCATTATC
* *
849308 AGCATGAATGGAT
1 GGCATGAAAGGAT
849321 TCTCTCAATG
Statistics
Matches: 246, Mismatches: 32, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
44 2 0.01
45 210 0.85
47 29 0.12
48 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.27
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAAATGAAATGCATATGAGTGCATTATC
Found at i:853558 original size:81 final size:81
Alignment explanation
Indices: 853420--853965 Score: 716
Period size: 81 Copynumber: 6.8 Consensus size: 81
853410 CTATTCCAAA
* * *
853420 AGTAAAAGATTGATGGCCTAGCTGTGCATTTGGCAAAAAGGAGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
853485 CAATTAAATACCGTTG
66 CGATTAAATACCGTTG
* * *
853501 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTTAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
853566 CGATTAAATACCGTTG
66 CGATTAAATACCGTTG
* * * *
853582 AGTAAAAGATTAATGGCCTAGCTATGCATTTGGTAGAAAGGTGTTAATTATGCCAGTTTGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
853647 CGGTTAAAAACCGTTG
66 CGATTAAATACCGTTG
** * ** * *
853663 AGTAAAAGATTAACAGTCTAAATGTGCATTTGGAAGAAAGGTGTCCATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
853728 CGATTAAATATCGTTG
66 CGATTAAATACCGTTG
* * *
853744 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAAGTGTTAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
853809 CGGTTAAATACCGTAG
66 CGATTAAATACCGTTG
* ** * * * *
853825 AGTAAACGATTAATGGCCTAGCTGTTTATTTGGCCGAAAGGGGTCAATTATGCTAGTTAGATGAG
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* **
853890 CGGTTAAATATTGTTG
66 CGATTAAATACCGTTG
* * * * *
853906 GGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAAAAAAGTGTCAATTAT-CAAGTTAGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
853966 AGAAAGGCTA
Statistics
Matches: 402, Mismatches: 63, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
80 8 0.02
81 394 0.98
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CGATTAAATACCGTTG
Found at i:854102 original size:22 final size:22
Alignment explanation
Indices: 854076--854147 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
854066 ATAATAATGT
*
854076 ATAAAAGGTATGAAAGGATGCC
1 ATAAAAGGAATGAAAGGATGCC
* * *
854098 ATAAAAGAAATGTATAA-TAGTG-T
1 ATAAAAGGAATG-A-AAGGA-TGCC
*
854121 ATAAAAGGCATGAAAGGATGCC
1 ATAAAAGGAATGAAAGGATGCC
854143 ATAAA
1 ATAAA
854148 TGAAATGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 4 0.11
22 17 0.46
23 12 0.32
24 4 0.11
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.21
Consensus pattern (22 bp):
ATAAAAGGAATGAAAGGATGCC
Found at i:854153 original size:45 final size:45
Alignment explanation
Indices: 854028--854236 Score: 231
Period size: 45 Copynumber: 4.6 Consensus size: 45
854018 GATATAAATG
** *
854028 GTATATAAAGGCATGAAAGGATGCCATAAATGAAACATATAATAAT
1 GTATA-AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT
* *
854074 GTATAAAAGGTATGAAAGGATGCCATAAAAGAAATGTATAATAGT
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT
854119 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT
* * *** * * * *
854164 GCATTATCTGCATGAAAGGATGCCATAATTAAAATGCAT-ATGGTT
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAG-T
* * **
854209 GCATTATCGGCATGAAAGGATGCCATAA
1 GTATAAAAGGCATGAAAGGATGCCATAA
854237 TTAAAATGCA
Statistics
Matches: 145, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 3 0.02
45 137 0.94
46 5 0.03
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (45 bp):
GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGT
Found at i:854179 original size:90 final size:89
Alignment explanation
Indices: 854028--854441 Score: 255
Period size: 90 Copynumber: 4.6 Consensus size: 89
854018 GATATAAATG
** * * * ** *
854028 GTATATAAAGGCATGAAAGGATGCCATAAATGAAACATATAATAATGTATAAAAGGTATGAAAGG
1 GTATA-AAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGCAT-TATCGCATGAAAGG
*
854093 ATGCCATAA-AAGAAATGTATAATAG-T
64 ATGCCATAATAA-AAATGCAT-ATAGTT
854119 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGCATTATCTGCATGAAAGGA
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGCATTATC-GCATGAAAGGA
* *
854184 TGCCATAATTAAAATGCATATGGTT
65 TGCCATAATAAAAATGCATATAGTT
* * ** * * * *
854209 GCATTATCGGCATGAAAGGATGCCATAATTAAAATGCAT-ATGGGTGCATTATCGACATGAAAGG
1 GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAAT-AGTGCATTATCG-CATGAAAGG
* * *
854273 ATGCCATAATTGAAAA-GCATATGGGT
64 ATGCCATAA-TAAAAATGCATATAGTT
* * ** * * * * * *
854299 GCATTATCGGCATGAATA-GATTCCATAATTGAAATGCAT-ATGGGTGTATTATCAGAATGAAAG
1 GTATAAAAGGCATGAA-AGGATGCCATAAATGAAATGTATAAT-AGTGCATTATC-GCATGAAAG
* * ** * *
854362 GTTTCCATAATTGAAATGCATATGGGT
63 GATGCCATAATAAAAATGCATATAGTT
* * ** * * * * *
854389 GCATTATCGGCATGAAAGGATTCTATAAATAAAAATGCATAATGGTGCATTAT
1 GTATAAAAGGCATGAAAGGATGCCATAAAT-GAAATGTATAATAGTGCATTAT
854442 AAGCATTAAT
Statistics
Matches: 278, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
89 12 0.04
90 234 0.84
91 30 0.11
92 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.28
Consensus pattern (89 bp):
GTATAAAAGGCATGAAAGGATGCCATAAATGAAATGTATAATAGTGCATTATCGCATGAAAGGAT
GCCATAATAAAAATGCATATAGTT
Found at i:854229 original size:135 final size:135
Alignment explanation
Indices: 854085--854441 Score: 346
Period size: 135 Copynumber: 2.6 Consensus size: 135
854075 TATAAAAGGT
* * *
854085 ATGAAAGGATGCCATAA-AAGAAATGTATAAT-AGTGTATAAAAGGCATGAAAGGATGCCATAAA
1 ATGAAAGGATGCCATAATAA-AAATGCAT-ATGAGTGCATAAAAGACATGAAAGGATGCCATAAA
* * * *
854148 TGAAATGTATAAT-AGTGCATTATCTGCATGAA-AGGATGCCATAATTAAAATGCATATGGTTGC
64 TGAAAAGCAT-ATGAGTGCATTATCGGCATGAATA-GATGCCATAATTAAAATGCATATGGGTGC
* *
854211 ATTATCGGC
127 ATTATCAGA
* * * ** *
854220 ATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTG
1 ATGAAAGGATGCCATAATAAAAATGCATATGAGTGCATAAAAGACATGAAAGGATGCCATAAATG
* * * *
854285 AAAAGCATATGGGTGCATTATCGGCATGAATAGATTCCATAATTGAAATGCATATGGGTGTATTA
66 AAAAGCATATGAGTGCATTATCGGCATGAATAGATGCCATAATTAAAATGCATATGGGTGCATTA
854350 TCAGA
131 TCAGA
* * ** * * ** * * * *
854355 ATGAAAGGTTTCCATAATTGAAATGCATATGGGTGCATTATCGGCATGAAAGGATTCTATAAATA
1 ATGAAAGGATGCCATAATAAAAATGCATATGAGTGCATAAAAGACATGAAAGGATGCCATAAATG
854420 AAAATGCATAATG-GTGCATTAT
66 AAAA-GCAT-ATGAGTGCATTAT
854442 AAGCATTAAT
Statistics
Matches: 189, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
134 4 0.02
135 167 0.88
136 15 0.08
137 3 0.02
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (135 bp):
ATGAAAGGATGCCATAATAAAAATGCATATGAGTGCATAAAAGACATGAAAGGATGCCATAAATG
AAAAGCATATGAGTGCATTATCGGCATGAATAGATGCCATAATTAAAATGCATATGGGTGCATTA
TCAGA
Found at i:854237 original size:45 final size:45
Alignment explanation
Indices: 854127--854441 Score: 395
Period size: 45 Copynumber: 7.0 Consensus size: 45
854117 GTGTATAAAA
* * * *
854127 GGCATGAAAGGATGCCATAAATGAAATGTATAAT-AGTGCATTATC
1 GGCATGAAAGGATGCCATAATTAAAATGCAT-ATGGGTGCATTATC
* *
854172 TGCATGAAAGGATGCCATAATTAAAATGCATATGGTTGCATTATC
1 GGCATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATC
854217 GGCATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATC
*
854262 GACATGAAAGGATGCCATAATTGAAAA-GCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATT-AAAATGCATATGGGTGCATTATC
* * *
854307 GGCATGAATA-GATTCCATAATTGAAATGCATATGGGTGTATTATC
1 GGCATGAA-AGGATGCCATAATTAAAATGCATATGGGTGCATTATC
* * * * *
854352 AGAATGAAAGGTTTCCATAATTGAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATC
* * *
854397 GGCATGAAAGGATTCTATAAATAAAAATGCATAAT-GGTGCATTAT
1 GGCATGAAAGGATGCCAT-AATTAAAATGCAT-ATGGGTGCATTAT
854442 AAGCATTAAT
Statistics
Matches: 240, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
44 6 0.03
45 206 0.86
46 26 0.11
47 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAATTAAAATGCATATGGGTGCATTATC
Found at i:856290 original size:16 final size:17
Alignment explanation
Indices: 856258--856295 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
856248 ACATATTCAT
856258 TAATATAAATCAATAAA
1 TAATATAAATCAATAAA
856275 TAATA-AAAT-AAGTAAA
1 TAATATAAATCAA-TAAA
856291 TAATA
1 TAATA
856296 CTTGTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
TAATATAAATCAATAAA
Found at i:858459 original size:118 final size:116
Alignment explanation
Indices: 858293--858759 Score: 448
Period size: 118 Copynumber: 4.0 Consensus size: 116
858283 TATCCGGAGA
*
858293 GGGAGAAA-AAGTTCATAATGATAAGAACTTATTCAA-ATTTTCTTCAAATCCATCACAAAAGGA
1 GGGA-AAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTC-TCAAATCCATCACAAAAGGA
858356 GGTGGATCAACATTTCCAATGAAGGGATTCATAATGAGGAA-AACTCGTCCAATG
64 GGTGGATCAACATTTCCAATGAA-GGATTCATAATGA-GAAGAACTCGTCCAATG
* * * * *
858410 GGAAATAAGAAGCTCATAATGATAAGAACGTATTCAACATTTTCTCAAATCCATCACAAAAAGAG
1 GGGAA-AAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAG
* * *
858475 GTGGATCAACATTTCTAATGAAATTG-TTCATAATGAGAAGAACTCATCCGAA-G
65 GTGGATCAACATTTCCAATG-AA-GGATTCATAATGAGAAGAACTCGTCC-AATG
* * * * * * * * * *
858528 GGGAAGAAGAAATTCATTATGAGAAGAACTTGTTCAACCTTTACTCCAATCCATCGCAGAAGAAT
1 GGGAA-AAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAG
* ** * * *
858593 GTTGATCAACATTTTTAATGAAGGAGTTCATGATGAGAAGAACTTGAT-CGATG
65 GTGGATCAACATTTCCAATGAAGGA-TTCATAATGAGAAGAACTCG-TCCAATG
* * *
858646 AGGGAAAA-AAGTTCATAATGAGGAA-AACTTATTCAACATTTTATCAAATCCATCACAGAATGA
1 -GGGAAAAGAAGTTCATAATGA-GAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGA
* * * * *
858709 GGTGGATCAATATTTTCAATGTAAAG-TTCATAATGATAAGAACTCATCCAA
64 GGTGGATCAACATTTCCAATG-AAGGATTCATAATGAGAAGAACTCGTCCAA
858760 AGAGGCAAAG
Statistics
Matches: 285, Mismatches: 51, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
115 1 0.00
116 20 0.07
117 69 0.24
118 178 0.62
119 17 0.06
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (116 bp):
GGGAAAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAGG
TGGATCAACATTTCCAATGAAGGATTCATAATGAGAAGAACTCGTCCAATG
Found at i:858906 original size:2 final size:2
Alignment explanation
Indices: 858899--858923 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
858889 ACTTAAACGA
858899 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
858924 ATGTCATTAA
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:860387 original size:118 final size:116
Alignment explanation
Indices: 860216--860682 Score: 412
Period size: 118 Copynumber: 4.0 Consensus size: 116
860206 TATCCGGAGA
*
860216 GGGAGAAA-AAGTTCATAATGAGAAGAACTTATTCAA-ATTTTCTTCAAATCCATCACAAAAGGA
1 GGGAAAAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTC-TCAAATCCATCACAAAAGGA
860279 GGTGGATCAACATTTCCAATGAAGGGATTCATAATGAGGAA-AACTCGTCCAAT
65 GGTGGATCAACATTTCCAATGAA-GGATTCATAATGA-GAACAACTCGTCCAAT
* * * * * *
860332 GGGAAATAAGAAGCTCATGATGATAAGAACGTATTCAACAATTTCTCAAATCCATCACAAAAAGA
1 GGGAAA-AAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGA
* * *
860397 GGTGGATCAACATTTCTAATGAAATGG-TTCATAATGAGAAGAACTCATCCGAA-
65 GGTGGATCAACATTTCCAATG-AA-GGATTCATAATGAGAACAACTCGTCC-AAT
* * * * * * * * * *
860450 GGGCAAGAAGAAATTCATTATGAGAAGAACTTGTTCAACCTTTACTCCAATCCATCGCAGAAGAA
1 GGG-AAAAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGA
* * ** * * *
860515 TGTTGATCAACATTTTTAATGAAGGAGTTCATGATGAGAACAACTTGAT-CGAT
65 GGTGGATCAACATTTCCAATGAAGGA-TTCATAATGAGAACAACTCG-TCCAAT
* * * * *
860568 GAGGGAAAA-AAGTTCATAATGAGGAA-AACATATTCAACATTTTATCAAATCCATCACAGAATG
1 G-GGAAAAAGAAGTTCATAATGA-GAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGG
* * * * * *
860631 AGGTGGATCAATATTTTCAATGTAAAG-TTCATAATGATAAGAACTCATCCAA
64 AGGTGGATCAACATTTCCAATG-AAGGATTCATAATGAGAACAACTCGTCCAA
860683 AGGAGCAAAG
Statistics
Matches: 279, Mismatches: 57, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
115 1 0.00
116 24 0.09
117 65 0.23
118 173 0.62
119 16 0.06
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (116 bp):
GGGAAAAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAG
GTGGATCAACATTTCCAATGAAGGATTCATAATGAGAACAACTCGTCCAAT
Found at i:862306 original size:118 final size:116
Alignment explanation
Indices: 862135--862601 Score: 457
Period size: 118 Copynumber: 4.0 Consensus size: 116
862125 TATCTAGAGA
862135 GGGAGAAA-AAGTTCATAATGAGAAGAACTTATTCAA-ATTTTCTTCAAATCCATCACAAAAGGA
1 GGGA-AAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTC-TCAAATCCATCACAAAAGGA
862198 GGTGGATCAACATTTCCAATGAAGGGATTCATAATGAGGAA-AACTCGTCCAATG
64 GGTGGATCAACATTTCCAATGAA-GGATTCATAATGA-GAAGAACTCGTCCAATG
* * * * * *
862252 GGAAATAAGAAGCTCATGATGATAAGAACGTATTCAACATTTTCTCAAATCCATCACAAAAAGAG
1 GGGAA-AAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAG
* *
862317 GTGGATCAACATTTCTAATGAAATGG-TTCATAATGAGAAGAACTCATCCGAA-G
65 GTGGATCAACATTTCCAATG-AA-GGATTCATAATGAGAAGAACTCGTCC-AATG
* * * * * * * * * *
862370 GGGAAGAAGAAATTCATTATGAGAAGAACTTGTTCAACCTTTACTCCAATCCATCGCAGAAGAAT
1 GGGAA-AAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAG
* ** * * *
862435 GTTGATCAACATTTTTAATGAAGGAGTTCATGATGAGAAGAACTTGAT-CGATG
65 GTGGATCAACATTTCCAATGAAGGA-TTCATAATGAGAAGAACTCG-TCCAATG
* * *
862488 AGGGAAAA-AAGTTCATAATGAGGAA-AACTTATTCAACATTTTATCAAATCCATCACAGAATGA
1 -GGGAAAAGAAGTTCATAATGA-GAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGA
* * * * *
862551 GGTGGATCAATATTTTCAATGTAAAG-TTCATAATGATAAGAACTCATCCAA
64 GGTGGATCAACATTTCCAATG-AAGGATTCATAATGAGAAGAACTCGTCCAA
862602 AGGAGCAAAG
Statistics
Matches: 285, Mismatches: 51, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
115 1 0.00
116 21 0.07
117 69 0.24
118 176 0.62
119 18 0.06
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (116 bp):
GGGAAAAGAAGTTCATAATGAGAAGAACTTATTCAACATTTTCTCAAATCCATCACAAAAGGAGG
TGGATCAACATTTCCAATGAAGGATTCATAATGAGAAGAACTCGTCCAATG
Found at i:866318 original size:81 final size:81
Alignment explanation
Indices: 866232--867191 Score: 1156
Period size: 81 Copynumber: 11.9 Consensus size: 81
866222 CCCAAAGGCA
* ** * * * * *
866232 TTTAACCTTTCATCTAACTTACATGATTGATACTTTTATGCCAAATGCACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* *
866297 CTTTTACTAAACAGTC
66 CTTTTACTCAACGGTC
* * * *
866313 TTTAACCGTTAATCTAACTGGCATAATTAACACCTTTCTGCCAAATGCACAGTTAGGTCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* *
866378 CTTTTACTAAACGATC
66 CTTTTACTCAACGGTC
*
866394 TTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
*
866459 CTTTTACTCAACTGTC
66 CTTTTACTCAACGGTC
* * *
866475 TTTAACCGTTCATCTAACTGGCATAATTTG-CACATTTCTGTCAAGTGCACAGCTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGGCATAA-TTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTA
* **
866539 TCTTTTACTTAACTATC
65 TCTTTTACTCAACGGTC
* * * * * * *
866556 TTTAACCGTTCATCTAATTGACATAATTGACACATTTCTTCCAAGTGCACAACTAGGACATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
866621 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** * * *
866637 TTTAACAATTCATCTAACTAGCAAAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* *
866702 CATTTACTCAACAGTC
66 CTTTTACTCAACGGTC
* * * *
866718 TTTAACCATTCATCTAACTGGCATAATTGGCACCTTCCTGCCAATTGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
*
866783 CTTTTACTCTACGGTC
66 CTTTTACTCAACGGTC
* * *
866799 TTTAACCGTTCATCTAACTGGCATAATTTACACCTTTCTTCCAAGTGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* *
866864 CTTTTGCTCAATGGTC
66 CTTTTACTCAACGGTC
* * * * * * *
866880 TTTAACCATTCATTTAACTGG-AGTAATTGACATCTGTCTACCAAGTGCACATCTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGGCA-TAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTA
* * *
866944 TCTCTTCCTCAACGGCC
65 TCTTTTACTCAACGGTC
** * * * *
866961 TTTAATTGTTCATCTAGCTGGCATAATTGACACATTTCTGCCAAGTGCACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
867026 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
* * *
867042 TTTAACCGTTCATCTAACT-GCATAATTGACACCTTTCTTCCAAATGCACAACTAGGCCCTTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
867106 CTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** ** * * * * * * *
867122 TTTAATTGTAAATCTAACTGGAATAATT-A-ACATCTCTGTCAAATGCGCAGTTAGGCCTATTAA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC-ATTTA
867185 TCTTTTA
65 TCTTTTA
867192 TTTTAAACCA
Statistics
Matches: 758, Mismatches: 115, Indels: 13
0.86 0.13 0.01
Matches are distributed among these distances:
79 21 0.03
80 87 0.11
81 646 0.85
82 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
CTTTTACTCAACGGTC
Found at i:867458 original size:55 final size:55
Alignment explanation
Indices: 867390--867596 Score: 258
Period size: 55 Copynumber: 3.8 Consensus size: 55
867380 ACATATATTT
* *
867390 CCCATACGAAAATTCATACACGTAGTATGGATTTCTTAGTTTTACACACATAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTACACACATAGTG
* * * **
867445 CCCGTAC-AGAAATTCATACACTTAGTAAGAAATTCTTAGTTTT--GTACATAGTG
1 CCCATACGA-AAATTCATACACTTAGTATGAATTTCTTAGTTTTACACACATAGTG
* * * *
867498 TCCATACGAAAATTTATACACTTAGTATGAATTTCTTAGTTTTACACACAAAATG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTACACACATAGTG
* *
867553 GCCATACGAAAATTCATACACTTAGTATGTATTTCTTAAGTTTT
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTT-AGTTTT
867597 TGCACGCTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 44 0.34
54 2 0.02
55 76 0.59
56 6 0.05
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (55 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTACACACATAGTG
Found at i:867589 original size:108 final size:109
Alignment explanation
Indices: 867391--867596 Score: 299
Period size: 108 Copynumber: 1.9 Consensus size: 109
867381 CATATATTTC
* * * *
867391 CCATACGAAAATTCATACACGTAGTATGGATTTCTTAGTTTTACACACATAGTGCCCGTACAGAA
1 CCATACGAAAATTCATACACGTAGTATGAATTTCTTAGTTTTACACACAAAATGCCCATACAGAA
867456 ATTCATACACTTAGTAAGAAATTCTT-AGTTTTGTACATAGTGT
66 ATTCATACACTTAGTAAGAAATTCTTAAGTTTTGTACATAGTGT
* * *
867499 CCATACGAAAATTTATACACTTAGTATGAATTTCTTAGTTTTACACACAAAATGGCCATAC-GAA
1 CCATACGAAAATTCATACACGTAGTATGAATTTCTTAGTTTTACACACAAAATGCCCATACAG-A
* * *
867563 AATTCATACACTTAGTATGTATTTCTTAAGTTTT
65 AATTCATACACTTAGTAAGAAATTCTTAAGTTTT
867597 TGCACGCTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 1 0.01
108 79 0.92
109 6 0.07
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (109 bp):
CCATACGAAAATTCATACACGTAGTATGAATTTCTTAGTTTTACACACAAAATGCCCATACAGAA
ATTCATACACTTAGTAAGAAATTCTTAAGTTTTGTACATAGTGT
Found at i:869834 original size:12 final size:11
Alignment explanation
Indices: 869817--869895 Score: 59
Period size: 12 Copynumber: 6.5 Consensus size: 11
869807 ATCTCTCATC
869817 TTTTTTCTTTGT
1 TTTTTTCTTT-T
869829 TTTTTTCTTTT
1 TTTTTTCTTTT
*
869840 TCTTTTCCTTTTT
1 T-TTTTTC-TTTT
869853 ATTCTTCTTCTTTT
1 -TT-TT-TTCTTTT
*
869867 TTTTTCCTTTT
1 TTTTTTCTTTT
*
869878 TTTCCTTCTTTCT
1 TTT-TTTCTTT-T
869891 TTTTT
1 TTTTT
869896 AATTTCTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
11 11 0.20
12 23 0.43
13 11 0.20
14 7 0.13
15 2 0.04
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:869839 original size:18 final size:17
Alignment explanation
Indices: 869818--869878 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
869808 TCTCTCATCT
869818 TTTTTCTTTGTTTTTTTC
1 TTTTTCTTT-TTTTTTTC
869836 TTTTTCTTTTCCTTTTTATTC
1 TTTTTC-TTT--TTTTT-TTC
* *
869857 TTCTTCTTTTTTTTTCC
1 TTTTTCTTTTTTTTTTC
869874 TTTTT
1 TTTTT
869879 TTCCTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 3 0.08
20 8 0.22
21 8 0.22
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTTC
Found at i:869841 original size:6 final size:6
Alignment explanation
Indices: 869818--869878 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
869808 TCTCTCATCT
* * * *
869818 TTTTTC TTTGTT- TTTTTC TTTTTC TTTTCC TTTTTA TTCTTC TTCTTTT
1 TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC
869867 TTTTTCC TTTTT
1 TTTTT-C TTTTT
869879 TTCCTTCTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
5 2 0.05
6 30 0.70
7 11 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:869857 original size:21 final size:20
Alignment explanation
Indices: 869828--869866 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
869818 TTTTTCTTTG
*
869828 TTTTTTTCTTTTTCTTTTCC
1 TTTTTTTCTTCTTCTTTTCC
869848 TTTTTATTCTTCTTCTTTT
1 TTTTT-TTCTTCTTCTTTT
869867 TTTTTCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTCTTCTTTTCC
Found at i:869873 original size:26 final size:27
Alignment explanation
Indices: 869832--869895 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
869822 TCTTTGTTTT
869832 TTTCTTTTTCTTTTCCTTTTTATT-CTTC
1 TTTCTTTTT-TTTTCCTTTTT-TTCCTTC
869860 -TTCTTTTTTTTTCCTTTTTTTCCTTC
1 TTTCTTTTTTTTTCCTTTTTTTCCTTC
869886 TTTCTTTTTT
1 TTTCTTTTTT
869896 AATTTCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 2 0.06
26 15 0.44
27 17 0.50
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTCTTTTTTTTTCCTTTTTTTCCTTC
Found at i:873109 original size:24 final size:24
Alignment explanation
Indices: 873075--873121 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
873065 GTCTTCCTGA
873075 TGATGTATAAAACATCTATGTACG
1 TGATGTATAAAACATCTATGTACG
*
873099 TGATGTGTAAAACATCTATGTAC
1 TGATGTATAAAACATCTATGTAC
873122 AATGCCATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (24 bp):
TGATGTATAAAACATCTATGTACG
Found at i:874502 original size:29 final size:29
Alignment explanation
Indices: 874470--874536 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
874460 AAATTACCAT
* * *
874470 TTTGGTC-CCTAAACTTTCAAAGTTTATAC
1 TTTGGTCACC-AAACTTTAAAAATTTATAA
874499 TTTGGTCACCAAACTTTAAAAATTTATAA
1 TTTGGTCACCAAACTTTAAAAATTTATAA
874528 TTTGGTCAC
1 TTTGGTCAC
874537 TCACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (29 bp):
TTTGGTCACCAAACTTTAAAAATTTATAA
Found at i:877454 original size:81 final size:81
Alignment explanation
Indices: 877368--878221 Score: 1154
Period size: 81 Copynumber: 10.5 Consensus size: 81
877358 CATTTAACAT
* * * *
877368 TTCATCTAACTTGCATGATTGACACTTTTCTGCCAAATGCACAACTAGACCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
877433 CAACGGTCTTTAACCG
66 CAACGGTCTTTAACCG
** * * * * *
877449 TTCATCTATTTGGCATAATTGGCACCATTATGCCAAATGCACAGCTAGGTCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
*
877514 CAACGGTTTTTAACCG
66 CAACGGTCTTTAACCG
* * *
877530 TTCATCTTAACTGGCATAATTGAAAACTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
1 TTCATC-TAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTAC
*
877595 TCAACGGTCTTTAACTG
65 TCAACGGTCTTTAACCG
* * ** * * *
877612 TTCATCTAACT-GCATAATTGGCACCTTTCTACCAAATAAACAGCTAGGTCATTTGTCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
*
877676 CAACGATCTTTAACCG
66 CAACGGTCTTTAACCG
* *
877692 TTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
**
877757 CAACGGTCTTTAACTA
66 CAACGGTCTTTAACCG
* * *
877773 TTCATCTAACTGGCATAATTGACACCTCTTTTGCTAAGTGCACAACTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCT-TTCTGCCAAATGCACAACTAGGCCATTTATCTTTTAC
* *
877838 TCAATGGTCTTTAACCA
65 TCAACGGTCTTTAACCG
* * * *
877855 TTCATCTAACTGGCATAACTAACACCTTTTTGCCAAGTGCACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
* *
877920 CAACAGTCTTTAGCCG
66 CAACGGTCTTTAACCG
* * *
877936 TTCATCTAACTGACATAATTGACACCTTTCTGCCAAGTGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
* *
878001 CGATGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* *
878017 TTTATCTAACTGGCATAATTCG-CACCTTTCTGCCAAGTGCACAACTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATT-GACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTAC
* * *
878081 TCGACGATCTTTAACCA
65 TCAACGGTCTTTAACCG
* * * *
878098 TTCATCTAACTGGCATAATTTACACCTTTCTGCCAAATGCAGAACTAGGCCCTTTATCTTTTACG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
*
878163 CAACAGTCTTTAACCG
66 CAACGGTCTTTAACCG
* * *
878179 TTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGCACA
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACA
878222 GTTAAGCCTA
Statistics
Matches: 680, Mismatches: 88, Indels: 10
0.87 0.11 0.01
Matches are distributed among these distances:
80 70 0.10
81 465 0.68
82 145 0.21
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:878501 original size:55 final size:54
Alignment explanation
Indices: 878441--878654 Score: 268
Period size: 55 Copynumber: 3.9 Consensus size: 54
878431 ACATGTATTT
*
878441 CCCATACGAAAATTCTGATACTTAGTATAGATTTCTTAGTTTTGCACACATAGTG
1 CCCATACGAAAATTCT-ACACTTAGTATAGATTTCTTAGTTTTGCACACATAGTG
*
878496 CCCATACGAAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACACATAGTG
1 CCCATACGAAAATTC-TACACTTAGTATAGATTTCTTAGTTTTGCACACATAGTG
* * * * * *
878551 TCCATACGGAAATTCAAACACTTAGTA-CGAATTTCTTAGTTTTTCACACAAAGTG
1 CCCATACGAAAATTC-TACACTTAGTATAG-ATTTCTTAGTTTTGCACACATAGTG
* *
878606 CCCATACGAAAATTTATACACTTAGTACAGATTTCTTAAGTTTTTGCAC
1 CCCATACGAAAA-TTCTACACTTAGTATAGATTTCTT-AG-TTTTGCAC
878655 GCTTAGTACA
Statistics
Matches: 139, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.01
55 125 0.90
56 6 0.04
57 7 0.05
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (54 bp):
CCCATACGAAAATTCTACACTTAGTATAGATTTCTTAGTTTTGCACACATAGTG
Found at i:880475 original size:46 final size:45
Alignment explanation
Indices: 880425--881091 Score: 559
Period size: 46 Copynumber: 14.9 Consensus size: 45
880415 GAACAAACAC
* * *
880425 AAATGCATAACAGTGCATTATCAGCATGAAATGATCCCACAAATGA
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAATGA
* * *
880471 AAATGCATAACGGTACATTATCGGCAT-AGAAGGATGCCATAAAAGA
1 AAATGCATAACGGTGCATTATC-GCATGA-AAGGATGCCACAAATGA
* * * *
880517 AAATGCATAAGGGTGCATTATCGGCAAGAAA-AATGACACAAATGA
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAATGA
* * * **
880562 AAATGTATAACGGTGCATTATCGATATGAAAGGATGCCATAAACAA
1 AAATGCATAACGGTGCATTATCG-CATGAAAGGATGCCACAAATGA
* * *
880608 AAATGCATAACGGTGAATTAT--C--G---GCATGCCACAAATAA
1 AAATGCATAACGGTGCATTATCGCATGAAAGGATGCCACAAATGA
* *
880646 AAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAATGA
1 AAATGCATAACGGTGCATTATCG-CATGAAAGGATGCCACAAATGA
** * * *
880692 AAATGCATAACATTGCATTATCGAATTTAAAGGATGCC-CAAACGA
1 AAATGCATAACGGTGCATTATCGCA-TGAAAGGATGCCACAAATGA
*
880737 AAATGCATAA-----C---AT-GCATGAAAGGATGCCACAAATAA
1 AAATGCATAACGGTGCATTATCGCATGAAAGGATGCCACAAATGA
* * * **
880773 AAATGCATAATGGTGCATTATCAGCGTGAAAGGATGCCATAAACAA
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAATGA
* **
880819 AAATGCATAACGGTGCATTATCGGCATGAATGGATGCCATTAATGA
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAATGA
* * * *
880865 AAAAGCATAATGGTGCATTATCGACATGAAAGGATGCCAAAAATTA
1 AAATGCATAACGGTGCATTATCG-CATGAAAGGATGCCACAAATGA
* * *
880911 AAATGCATAACGATGCATAATCGGCATGAAAGGATACCACAAAT-A
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAATGA
*
880956 TAAATGCATAACGGTGCATTATCAG-AGTG-AAGGGTGCCACAAATGA
1 -AAATGCATAACGGTGCATTATC-GCA-TGAAAGGATGCCACAAATGA
* * * * * * **
881002 AAATGCATAACAGTGAATTATCTACTTGAAAAGATACCACAAACAAA
1 AAATGCATAACGGTGCATTATC-GCATGAAAGGATGCCACAAA-TGA
* *
881049 AAATGCATAATGGTGCATTATCGACATGAAAGAATGCCACAAA
1 AAATGCATAACGGTGCATTATCG-CATGAAAGGATGCCACAAA
881092 CAAAAATGTA
Statistics
Matches: 500, Mismatches: 88, Indels: 65
0.77 0.13 0.10
Matches are distributed among these distances:
35 11 0.02
36 17 0.03
37 2 0.00
38 31 0.06
40 1 0.00
41 3 0.01
43 1 0.00
44 3 0.01
45 91 0.18
46 303 0.61
47 37 0.07
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (45 bp):
AAATGCATAACGGTGCATTATCGCATGAAAGGATGCCACAAATGA
Found at i:880637 original size:38 final size:38
Alignment explanation
Indices: 880595--880673 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
880585 ATATGAAAGG
* * *
880595 ATGCCATAAACAAAAATGCATAACGGTGAATTATCGGC
1 ATGCCACAAACAAAAATGCATAACAGTGAATTATCGAC
* *
880633 ATGCCACAAATAAAAATGCATAACAGTGCATTATCGAC
1 ATGCCACAAACAAAAATGCATAACAGTGAATTATCGAC
880671 ATG
1 ATG
880674 AAAGGATGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (38 bp):
ATGCCACAAACAAAAATGCATAACAGTGAATTATCGAC
Found at i:880712 original size:84 final size:84
Alignment explanation
Indices: 880553--880714 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 84
880543 AGAAAAATGA
* * * * * *
880553 CACAAATGAAAATGTATAACGGTGCATTATCGATATGAAAGGATGCCATAAACAAAAATGCATAA
1 CACAAATAAAAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAACAAAAATGCATAA
*
880618 CGGTGAATTATCGGCATGC
66 CAGTGAATTATCGGCATGC
**
880637 CACAAATAAAAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAATGAAAATGCATAA
1 CACAAATAAAAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAACAAAAATGCATAA
* *
880702 CATTGCATTATCG
66 CAGTGAATTATCG
880715 AATTTAAAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 67 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (84 bp):
CACAAATAAAAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAACAAAAATGCATAA
CAGTGAATTATCGGCATGC
Found at i:880794 original size:81 final size:82
Alignment explanation
Indices: 880670--880829 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 82
880660 GCATTATCGA
* * * *
880670 CATGAAAGGATGACACAAATGAAAATGCATAACATTGCATTATC-GAATTTAAAGGATGCC-CAA
1 CATGAAAGGATGACACAAATAAAAATGCATAACAGTGCATTATCAG-AGTGAAAGGATGCCACAA
*
880733 ACGAAAATGCATAACATG
65 ACAAAAATGCATAACATG
* ** * *
880751 CATGAAAGGATGCCACAAATAAAAATGCATAATGGTGCATTATCAGCGTGAAAGGATGCCATAAA
1 CATGAAAGGATGACACAAATAAAAATGCATAACAGTGCATTATCAGAGTGAAAGGATGCCACAAA
880816 CAAAAATGCATAAC
66 CAAAAATGCATAAC
880830 GGTGCATTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 50 0.75
82 17 0.25
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (82 bp):
CATGAAAGGATGACACAAATAAAAATGCATAACAGTGCATTATCAGAGTGAAAGGATGCCACAAA
CAAAAATGCATAACATG
Found at i:880822 original size:127 final size:128
Alignment explanation
Indices: 880500--881012 Score: 443
Period size: 127 Copynumber: 3.9 Consensus size: 128
880490 ATCGGCATAG
* * * *
880500 AAGGATGCCATAAA-AGAAAATGCATAAGGGTGCATTATCGGCAAGAAA-AATGACACAAATGAA
1 AAGGATGCCACAAATA-AAAATGCATAACGGTGCATTATC-GCATGAAAGGATGACACAAATGAA
* * * *
880563 AATGTATAACGGTGCATTATCGATATGAAAGGATGCCATAAACAAAAATGCATAACGGTGAATTA
64 AATGCATAACGGTGCATTATCGATATGAAAGGATGCCACAAACAAAAATGCATAACGATGAATGA
** *
880628 TCGGCATGCCACAAATAAAAATGCATAACAGTGCATTATCGACATGAAAGGATGACACAAATGAA
1 AAGG-ATGCCACAAATAAAAATGCATAACGGTGCATTATCG-CATGAAAGGATGACACAAATGAA
** * * *
880693 AATGCATAACATTGCATTATCGA-ATTTAAAGGATGCC-CAAACGAAAATGCATAAC-ATGCATG
64 AATGCATAACGGTGCATTATCGATA-TGAAAGGATGCCACAAACAAAAATGCATAACGATGAATG
880755 A
128 A
* * * * **
880756 AAGGATGCCACAAATAAAAATGCATAATGGTGCATTATCAGCGTGAAAGGATGCCATAAACAAAA
1 AAGGATGCCACAAATAAAAATGCATAACGGTGCATTATC-GCATGAAAGGATGACACAAATGAAA
** * * ** *
880821 ATGCATAACGGTGCATTATCGGCATGAATGGATGCCATTAATGAAAAA-GCATAATGGTGCATTA
65 ATGCATAACGGTGCATTATCGATATGAAAGGATGCCA-CAAACAAAAATGCATAA-----C--GA
880885 TCGACATGA
122 T-GA-ATGA
* * * *
880894 AAGGATGCCAAAAATTAAAATGCATAACGATGCATAATCGGCATGAAAGGAT-ACCACAAAT-AT
1 AAGGATGCCACAAATAAAAATGCATAACGGTGCATTATC-GCATGAAAGGATGA-CACAAATGA-
* * **
880957 AAATGCATAACGGTGCATTATCAGA-GTG-AAGGGTGCCACAAATGAAAATGCATAAC
63 AAATGCATAACGGTGCATTATC-GATATGAAAGGATGCCACAAACAAAAATGCATAAC
881013 AGTGAATTAT
Statistics
Matches: 309, Mismatches: 53, Indels: 42
0.76 0.13 0.10
Matches are distributed among these distances:
127 81 0.26
128 18 0.06
129 59 0.19
130 46 0.15
132 1 0.00
133 1 0.00
136 8 0.03
137 16 0.05
138 78 0.25
139 1 0.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.21
Consensus pattern (128 bp):
AAGGATGCCACAAATAAAAATGCATAACGGTGCATTATCGCATGAAAGGATGACACAAATGAAAA
TGCATAACGGTGCATTATCGATATGAAAGGATGCCACAAACAAAAATGCATAACGATGAATGA
Found at i:882850 original size:12 final size:13
Alignment explanation
Indices: 882833--882862 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
882823 CATACTTATT
882833 ATAAATT-AAAAA
1 ATAAATTAAAAAA
882845 ATAAATTAAAAAA
1 ATAAATTAAAAAA
882858 ATAAA
1 ATAAA
882863 AAATCAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAATTAAAAAA
Found at i:889356 original size:72 final size:72
Alignment explanation
Indices: 889221--889365 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 72
889211 CATTAAAATG
* *
889221 GGGCCCACTGAATTACAATATTTTCGAGTCTTTTAATAAAAAATGATGTTTAAAAATATTTTTTA
1 GGGCCCACTGAATTACAATATTTTCGAGTCTTTAAATAAAAAATGATATTTAAAAATATTTTTTA
889286 ATTATTA
66 ATTATTA
* *
889293 GGGCCCACTGAATTACCATATTTTCGAGTGTTTGAAATAAAAAAAT-ATATTTAAAAATATTTTT
1 GGGCCCACTGAATTACAATATTTTCGAGTCTTT-AAAT-AAAAAATGATATTTAAAAATATTTTT
889357 TAATTATTA
64 TAATTATTA
889366 AACTTAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
72 31 0.46
73 29 0.43
74 7 0.10
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.41
Consensus pattern (72 bp):
GGGCCCACTGAATTACAATATTTTCGAGTCTTTAAATAAAAAATGATATTTAAAAATATTTTTTA
ATTATTA
Found at i:894619 original size:18 final size:19
Alignment explanation
Indices: 894596--894631 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
894586 ATGACCAACA
*
894596 AAATCGTAA-GCGATCTCT
1 AAATCGCAACGCGATCTCT
894614 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
894632 CAGTATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:894959 original size:19 final size:19
Alignment explanation
Indices: 894858--894962 Score: 102
Period size: 19 Copynumber: 5.2 Consensus size: 19
894848 TATTTTGGAT
* *
894858 TTTTCACTATCGCAACACT
1 TTTTAACTATCGCAACACA
* *
894877 TTTTTACTATCGCAACAAAACGT
1 TTTTAACTATCGCAAC---AC-A
*
894900 TTTTCAAACTTTCGCAACACA
1 TTTT--AACTATCGCAACACA
894921 TTTTAACTATCGCAACACA
1 TTTTAACTATCGCAACACA
*
894940 TTTTAACTATCGCAATACA
1 TTTTAACTATCGCAACACA
894959 TTTT
1 TTTT
894963 TCAAAATCGC
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 51 0.69
21 4 0.05
22 4 0.05
23 5 0.07
25 10 0.14
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (19 bp):
TTTTAACTATCGCAACACA
Found at i:904881 original size:2 final size:2
Alignment explanation
Indices: 904876--904901 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
904866 ATTTTTTTAA
904876 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
904902 TAAAACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:905752 original size:20 final size:20
Alignment explanation
Indices: 905723--905778 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
905713 TTGATTCACG
*
905723 GAATATAAGATTACCAATAC
1 GAATAAAAGATTACCAATAC
* * **
905743 GAATAAAAGATTATCAGTGG
1 GAATAAAAGATTACCAATAC
905763 GAATAAAAGATTACCA
1 GAATAAAAGATTACCA
905779 GGGAATAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (20 bp):
GAATAAAAGATTACCAATAC
Found at i:905784 original size:18 final size:19
Alignment explanation
Indices: 905743--905785 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
905733 TTACCAATAC
*
905743 GAATAAAAGATTATCAGTGG
1 GAATAAAAGATTACCAG-GG
905763 GAATAAAAGATTACCA-GG
1 GAATAAAAGATTACCAGGG
905781 GAATA
1 GAATA
905786 GGATTATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
20 15 0.68
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (19 bp):
GAATAAAAGATTACCAGGG
Found at i:908931 original size:13 final size:14
Alignment explanation
Indices: 908907--908936 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
908897 TTTAGTAATT
908907 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
908921 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
908934 TTA
1 TTA
908937 CTCTCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:909613 original size:18 final size:18
Alignment explanation
Indices: 909590--909630 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
909580 AGGCATTTGA
909590 TCCTCTGGTCATACTTGT
1 TCCTCTGGTCATACTTGT
* *
909608 TCCTCTGGTTATGCTTGT
1 TCCTCTGGTCATACTTGT
909626 TCCTC
1 TCCTC
909631 GTGCTATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.29, G:0.17, T:0.46
Consensus pattern (18 bp):
TCCTCTGGTCATACTTGT
Found at i:911228 original size:21 final size:20
Alignment explanation
Indices: 911200--911246 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
911190 TATAACAGAA
*
911200 CCCTCAGGGGGTATCGATTC
1 CCCTCAGGGGGAATCGATTC
*
911220 CCCTACAGGGGGAATCGGTTC
1 CCCT-CAGGGGGAATCGATTC
911241 CCCTCA
1 CCCTCA
911247 AAGGGGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.21
Consensus pattern (20 bp):
CCCTCAGGGGGAATCGATTC
Found at i:911251 original size:22 final size:21
Alignment explanation
Indices: 911205--911263 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
911195 CAGAACCCTC
* * *
911205 AGGGGGTATCGATTCCCCTAC
1 AGGGGGAATCGGTTCCCCTAA
911226 AGGGGGAATCGGTTCCCCTCAA
1 AGGGGGAATCGGTTCCCCT-AA
*
911248 A-GGGGAATTGGTTCCC
1 AGGGGGAATCGGTTCCC
911264 TCTGCACCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.22
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCCTAA
Found at i:920384 original size:20 final size:18
Alignment explanation
Indices: 920338--920399 Score: 124
Period size: 18 Copynumber: 3.4 Consensus size: 18
920328 AGATGCTGCT
920338 ACTGATCTCTCAGTTTGA
1 ACTGATCTCTCAGTTTGA
920356 ACTGATCTCTCAGTTTGA
1 ACTGATCTCTCAGTTTGA
920374 ACTGATCTCTCAGTTTGA
1 ACTGATCTCTCAGTTTGA
920392 ACTGATCT
1 ACTGATCT
920400 ATCTCCAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (18 bp):
ACTGATCTCTCAGTTTGA
Found at i:922195 original size:55 final size:55
Alignment explanation
Indices: 922129--922261 Score: 207
Period size: 55 Copynumber: 2.5 Consensus size: 55
922119 TGGTTTTGTA
922129 CACATA-A-TGCCAATACGAAAATTCATAAAATCATTATGAATTTCGTGAGGTTG
1 CACATATAGTGCCAATACGAAAATTCATAAAATCATTATGAATTTCGTGAGGTTG
* * *
922182 CACATATAGTGCCAATATGGAAATTCATAAACTCATTATGAATTTCGTGAGGTTG
1 CACATATAGTGCCAATACGAAAATTCATAAAATCATTATGAATTTCGTGAGGTTG
* *
922237 CACACATAGTGCCAATACAAAAATT
1 CACATATAGTGCCAATACGAAAATT
922262 TACAACATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
53 6 0.08
54 1 0.01
55 64 0.90
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (55 bp):
CACATATAGTGCCAATACGAAAATTCATAAAATCATTATGAATTTCGTGAGGTTG
Found at i:923929 original size:21 final size:20
Alignment explanation
Indices: 923884--923933 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
923874 CCTCAACCTT
923884 GTATCGATACCTCCACATCA
1 GTATCGATACCTCCACATCA
* *
923904 ATATCGATACTACTTCA-ATCA
1 GTATCGATAC--CTCCACATCA
923925 GTATCGATA
1 GTATCGATA
923934 TTGTTCATCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (20 bp):
GTATCGATACCTCCACATCA
Found at i:928351 original size:31 final size:31
Alignment explanation
Indices: 928316--928380 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
928306 ACAATACAAG
* *
928316 CCCCAATATTTAGT-TCGTTTGCAATATGGTC
1 CCCCAACATTTAGTCT-GTTTGCAATATGCTC
928347 CCCCAACATTTAGTCTGTTTGCAATATGCTC
1 CCCCAACATTTAGTCTGTTTGCAATATGCTC
928378 CCC
1 CCC
928381 GGCCGTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (31 bp):
CCCCAACATTTAGTCTGTTTGCAATATGCTC
Found at i:928985 original size:59 final size:59
Alignment explanation
Indices: 928893--929012 Score: 222
Period size: 59 Copynumber: 2.0 Consensus size: 59
928883 GATTTTCGAA
*
928893 CAGATGATCAAAAATTATGAAATCCCAAACAGCACATTCACCTCTCAGTCTCTTTCACT
1 CAGATGATCAAAAATAATGAAATCCCAAACAGCACATTCACCTCTCAGTCTCTTTCACT
*
928952 CAGATGATCAAATATAATGAAATCCCAAACAGCACATTCACCTCTCAGTCTCTTTCACT
1 CAGATGATCAAAAATAATGAAATCCCAAACAGCACATTCACCTCTCAGTCTCTTTCACT
929011 CA
1 CA
929013 CATGCACTCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (59 bp):
CAGATGATCAAAAATAATGAAATCCCAAACAGCACATTCACCTCTCAGTCTCTTTCACT
Found at i:930412 original size:31 final size:31
Alignment explanation
Indices: 930377--930444 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
930367 TCAAATGGTC
** *
930377 GGGGACCATATTGCAAATGGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
*
930408 GGGGATCATATTGCAAACAGACTAAATATTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
930439 GGGGAC
1 GGGGAC
930445 TGTATTGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATATTG
Found at i:939725 original size:200 final size:197
Alignment explanation
Indices: 939334--940255 Score: 894
Period size: 200 Copynumber: 4.7 Consensus size: 197
939324 TATACCCATA
* * * ***
939334 TATA-AAGTATCGATACTTGTAATTTTGAAACCTATTACTTTAAA-ATAATAGGTAAATATATGT
1 TATACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGA-AATAGGTAAATTTACAA
* * * * *
939397 TCATAAC-GTAAAAATCTACCGGTTGAATAATAATAGGCGTAAAAATAAAGTATCGATAC-ATAT
65 TGAAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTAT-T
* * * **
939460 AAATATGTATCGATACTTTTAATCCAATATGCATCTCAAACCATTTGCACACAAAAAGTATCGAT
129 ATATAAGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCAC-GGAAAAGTATCGAT
939525 ACACG
193 ACACG
* * *
939530 TATAGCAGGTATCAATACTTATAATTTTGAAACCTATTTCTTTAAAGAAAAAGGTAAATTTACAA
1 TATA-CAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTTACAA
* * * * * *
939595 TGAAAATGATAAAAAATCTATCGGTTTAATGATAATATGTGTAAACATAATGTATCGATACTTAT
65 TGAAAACGGT-AAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-TAT
* * * * *
939660 TATATAAGTATCGATACTTGTATTCCAATATTCAGCACAAACAATTTGCACGGAAAAGTATCGAT
128 TATATAAGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCACGGAAAAGTATCGAT
939725 ACACG
193 ACACG
*
939730 TATCACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAA
1 TAT-ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTTACAA
* * * * *
939795 TGTAAACGGTAAAAATTTATCGGTTTAATGATAATAGGCGTAAACATAAAGTATTGATACGATT-
65 TGAAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTATTA
* * * * * *
939859 TGTACATGTATCGATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCATGGACAAAGTTTCGA
130 TATA-A-GTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCACGGA-AAAGTATCGA
*
939923 TACATG
192 TACACG
* **
939929 TATAACAAGTATCAATACTTATAATTTTGAAA-CGATTACTTTAAAGTTATAGGTAAATTTACAA
1 TAT-ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTTACAA
** *
939993 TGTCAACGGTAAAAGTCTACCGGTTTAATGATAATAGGCG------T-AA--AT-G---------
65 TGAAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTATTA
* * * * ** * **
940039 TAT-AGTATCGCTACTTTTAGTCCAGTATGCTTTGCAAACAATTTACACCCAGAAAGTATCGATA
130 TATAAGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCACGGA-AAAGTATCGATA
940103 CACG
194 CACG
* * ** *
940107 TATCATAAGTATCGATACTGT-TAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACA
1 TAT-ACAAGTATCAATACT-TATAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTTACA
* *
940171 ATGTAAACGGTAAAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTATCGATACT-TT
64 ATGAAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTATT
* *
940235 TTGTATAGATATCGATACTTT
129 ATATA-AG-TATCGATACTTT
940256 CGATATAAAA
Statistics
Matches: 607, Mismatches: 84, Indels: 66
0.80 0.11 0.09
Matches are distributed among these distances:
177 28 0.05
178 51 0.08
179 68 0.11
180 2 0.00
185 1 0.00
186 2 0.00
188 3 0.00
189 3 0.00
191 2 0.00
192 1 0.00
196 4 0.01
197 5 0.01
198 136 0.22
199 118 0.19
200 137 0.23
201 44 0.07
202 2 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (197 bp):
TATACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGAAATAGGTAAATTTACAAT
GAAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTATTAT
ATAAGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCACGGAAAAGTATCGATACA
CG
Found at i:939939 original size:199 final size:197
Alignment explanation
Indices: 939269--940255 Score: 950
Period size: 199 Copynumber: 5.1 Consensus size: 197
939259 TGATATATGC
* * * * * * * * * * *
939269 ATCGATACTTTTATTCTAATATGGATATAAAAAAATTTGCCCACAACAAAGTATCTATACCCATA
1 ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGC-A-AAAGTATCGATACACGTA
* * * *
939334 TATA-AAGTATCGATACTTGTAATTTTGAAACCTATTACTTTAAAATAATAGGTAAA--TA-TAT
64 TA-ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAAT
* * * *
939395 GTTCATAAC-GTAAAAATCTACCGGTTGAATAATAATAGGCGTAAAAATAAAGTATCGATACATA
128 G-T-A-AACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATT
** *
939459 TAAATATGT
190 TGTACA-GT
* * *
939468 ATCGATACTTTTAATCCAATATGCATCTCAAACCATTTGCACACAAAAAGTATCGATACACGTAT
1 ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGC-AAAAGTATCGATACACGTAT
* * * * * *
939533 AGCAGGTATCAATACTTATAATTTTGAAACCTATTTCTTTAAAGAAAAAGGTAAATTTACAATGA
65 AACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGT
* * * * * *
939598 AAATGATAAAAAATCTATCGGTTTAATGATAATATGTGTAAACATAATGTATCGATACTTATTAT
130 AAACGGT-AAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC--ATT-T
*
939663 ATA-AGT
191 GTACAGT
* * * * * * *
939669 ATCGATACTTGTATTCCAATATTCAGCACAAACAATTTGCACGGAAAAGTATCGATACACGTATC
1 ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAGTATCGATACACGTATA
939734 ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
66 ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
* * *
939799 AACGGTAAAAATTTATCGGTTTAATGATAATAGGCGTAAACATAAAGTATTGATACGATTTGTAC
131 AACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-ATTTGTAC
939864 ATGT
195 A-GT
* * * * * *
939868 ATCGATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCATGGACAAAGTTTCGATACATGTAT
1 ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCA-AAAGTATCGATACACGTAT
* *
939932 AACAAGTATCAATACTTATAATTTTGAAA-CGATTACTTTAAAGTTATAGGTAAATTTACAATGT
65 AACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGT
* *
939996 CAACGGTAAAAGTCTACCGGTTTAATGATAATAGGCG------T-AA--AT-G-T--A----T--
130 AAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATTTGTAC
940042 AGT
195 AGT
* * * ** * *
940045 ATCGCTACTTTTAGTCCAGTATGCTTTGCAAACAATTTACACCCAGAAAGTATCGATACACGTAT
1 ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCA-AAAGTATCGATACACGTAT
* * * **
940110 CATAAGTATCGATACTGT-TAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATG
65 AACAAGTATCAATACT-TATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATG
* *
940174 TAAACGGTAAAAATCTACCGATTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTTGT
129 TAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-ATTTGT
*
940239 ATAGAT
193 ACAG-T
940245 ATCGATACTTT
1 ATCGATACTTT
940256 CGATATAAAA
Statistics
Matches: 657, Mismatches: 95, Indels: 71
0.80 0.12 0.09
Matches are distributed among these distances:
177 28 0.04
178 51 0.08
179 68 0.10
180 1 0.00
184 1 0.00
185 1 0.00
186 2 0.00
187 1 0.00
188 3 0.00
189 3 0.00
190 1 0.00
191 2 0.00
192 1 0.00
197 4 0.01
198 148 0.23
199 156 0.24
200 139 0.21
201 41 0.06
202 3 0.00
203 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (197 bp):
ATCGATACTTTTAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAGTATCGATACACGTATA
ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
AACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATTTGTACA
GT
Found at i:940029 original size:198 final size:197
Alignment explanation
Indices: 939316--940231 Score: 943
Period size: 198 Copynumber: 4.7 Consensus size: 197
939306 TGCCCACAAC
* * * * * *
939316 AAAGTATCTATACCCATATATA-AAGTATCGATACTTGTAATTTTGAAACCTATTACTTTAAAAT
1 AAAGTATCGATACACGTATA-ACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGT
* * * *
939380 AATAGGTAAA--TA-TATGTTCATAAC-GTAAAAATCTACCGGTTGAATAATAATAGGCGTAAAA
65 AATAGGTAAATTTACAATG-T-A-AACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAAC
* * *
939441 ATAAAGTATCGATACATATAAATATGTATCGATACTTTTAATCCAATATGCATCTCAAACCATTT
127 ATAAAGTATCGATACATTTATA-ATGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTT
**
939506 GCACACAA
191 GCAC-GGA
* * * *
939514 AAAGTATCGATACACGTATAGCAGGTATCAATACTTATAATTTTGAAACCTATTTCTTTAAAGAA
1 AAAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTA
* * * * * * *
939579 AAAGGTAAATTTACAATGAAAATGATAAAAAATCTATCGGTTTAATGATAATATGTGTAAACATA
66 ATAGGTAAATTTACAATGTAAACGGT-AAAAATCTACCGGTTTAATGATAATAGGCGTAAACATA
* * * * * *
939644 ATGTATCGATACTTATTATATAA-GTATCGATACTTGTATTCCAATATTCAGCACAAACAATTTG
130 AAGTATCGATAC--ATT-TATAATGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTG
939708 CACGGA
192 CACGGA
*
939714 AAAGTATCGATACACGTATCACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTA
1 AAAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTA
* *
939779 ATAGGTAAATTTACAATGTAAACGGTAAAAATTTATCGGTTTAATGATAATAGGCGTAAACATAA
66 ATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAA
* * * * *
939844 AGTATTGATACGATTTGTACATGTATCGATACTTTTAGTCCAGTATGCTTCTC-AACAATTTGCA
131 AGTATCGATAC-ATTTATA-ATGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCA
*
939908 TGGA
194 CGGA
* * *
939912 CAAAGTTTCGATACATGTATAACAAGTATCAATACTTATAATTTTGAAA-CGATTACTTTAAAGT
1 -AAAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGT
* * *
939976 TATAGGTAAATTTACAATGTCAACGGTAAAAGTCTACCGGTTTAATGATAATAGGCG------T-
65 AATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATA
* * * * ** *
940034 AA--AT-G-------TAT-A-GTATCGCTACTTTTAGTCCAGTATGCTTTGCAAACAATTTACAC
130 AAGTATCGATACATTTATAATGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCAC
**
940087 CCA
195 GGA
* * * **
940090 GAAAGTATCGATACACGTATCATAAGTATCGATACTGT-TAATTTCAAAACCTATTACTTTAAAG
1 -AAAGTATCGATACACGTATAACAAGTATCAATACT-TATAATTTTGAAACCTATTACTTTAAAG
*
940154 TAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGATTTAATGATAATAGGCGTAAACAT
64 TAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACAT
940219 AAAGTATCGATAC
129 AAAGTATCGATAC
940232 TTTTTGTATA
Statistics
Matches: 603, Mismatches: 86, Indels: 63
0.80 0.11 0.08
Matches are distributed among these distances:
177 28 0.05
178 51 0.08
179 68 0.11
180 2 0.00
185 1 0.00
186 2 0.00
188 3 0.00
189 3 0.00
191 2 0.00
192 1 0.00
197 3 0.00
198 148 0.25
199 116 0.19
200 128 0.21
201 41 0.07
202 3 0.00
203 3 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (197 bp):
AAAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTTGAAACCTATTACTTTAAAGTA
ATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAA
AGTATCGATACATTTATAATGTATCGATACTTTTAATCCAATATGCATCTCAAACAATTTGCACG
GA
Done.