Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold246
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: 866086
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.32
Warning! 37936 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:758362 original size:36 final size:36
Alignment explanation
Indices: 758309--758431 Score: 180
Period size: 36 Copynumber: 3.5 Consensus size: 36
758299 AAAAAAGAAA
758309 GAAAACACGAAGA-TTTTGAAACACGAGAATTTTTTT
1 GAAAACACGAA-ATTTTTGAAACACGAGAATTTTTTT
*
758345 GAAAACACGAAATTTTTGAAACACG-GAA-ATTTTT
1 GAAAACACGAAATTTTTGAAACACGAGAATTTTTTT
* * *
758379 GGAAACATGAAAATTTTGAAACACGAGAATTTTTTT
1 GAAAACACGAAATTTTTGAAACACGAGAATTTTTTT
758415 GAAAACACGAAATTTTT
1 GAAAACACGAAATTTTT
758432 TTAAAAGAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
34 27 0.36
35 7 0.09
36 42 0.55
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (36 bp):
GAAAACACGAAATTTTTGAAACACGAGAATTTTTTT
Found at i:758432 original size:18 final size:17
Alignment explanation
Indices: 758309--758431 Score: 119
Period size: 17 Copynumber: 7.0 Consensus size: 17
758299 AAAAAAGAAA
758309 GAAAACACGAAGA-TTTT
1 GAAAACACGAA-ATTTTT
758326 G-AAACACGAGAATTTTTTT
1 GAAAACACGA-AA--TTTTT
758345 GAAAACACGAAATTTTT
1 GAAAACACGAAATTTTT
758362 G-AAACACGGAAATTTTT
1 GAAAACAC-GAAATTTTT
* * *
758379 GGAAACATGAAAATTTT
1 GAAAACACGAAATTTTT
758396 G-AAACACGAGAATTTTTTT
1 GAAAACACGA-AA--TTTTT
758415 GAAAACACGAAATTTTT
1 GAAAACACGAAATTTTT
758432 TTAAAAGAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 22
0.78 0.03 0.19
Matches are distributed among these distances:
16 22 0.24
17 34 0.37
18 5 0.05
19 14 0.15
20 16 0.18
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (17 bp):
GAAAACACGAAATTTTT
Found at i:758437 original size:18 final size:17
Alignment explanation
Indices: 758322--758432 Score: 118
Period size: 16 Copynumber: 6.2 Consensus size: 17
758312 AACACGAAGA
758322 TTTTGAAACACGAGAATTT
1 TTTTGAAACACGA-AA-TT
758341 TTTTGAAAACACGAAA-T
1 TTTTG-AAACACGAAATT
758358 TTTTGAAACACGGAAATT
1 TTTTGAAACAC-GAAATT
* * *
758376 TTTGGAAACATGAAA-A
1 TTTTGAAACACGAAATT
758392 TTTTGAAACACGAGAATTT
1 TTTTGAAACACGA-AA-TT
758411 TTTTGAAAACACGAAATT
1 TTTTG-AAACACGAAATT
758429 TTTT
1 TTTT
758433 TAAAAGAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
16 17 0.22
17 16 0.20
18 16 0.20
19 14 0.18
20 16 0.20
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:759041 original size:19 final size:19
Alignment explanation
Indices: 759017--759063 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
759007 TGCTATTCTG
759017 GGCTTGCTGGAC-TGGATCA
1 GGCTTGCTGGACTTGGA-CA
*
759036 GGCTTGCTGGGCTTGGACA
1 GGCTTGCTGGACTTGGACA
*
759055 GGCCTGCTG
1 GGCTTGCTG
759064 CCTTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.11, C:0.23, G:0.40, T:0.26
Consensus pattern (19 bp):
GGCTTGCTGGACTTGGACA
Found at i:759080 original size:17 final size:17
Alignment explanation
Indices: 759058--759094 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
759048 TTGGACAGGC
759058 CTGCTGCCTTTTTTCTG
1 CTGCTGCCTTTTTTCTG
* *
759075 CTGCTGCTTTTTTTTTG
1 CTGCTGCCTTTTTTCTG
759092 CTG
1 CTG
759095 GTTGTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.19, T:0.57
Consensus pattern (17 bp):
CTGCTGCCTTTTTTCTG
Found at i:759234 original size:6 final size:6
Alignment explanation
Indices: 759218--759281 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
759208 GATATTATTT
* * *
759218 TTTTTC TTTTTTC TTTTTC TTTGTC TTCTTTC TTTTTC TTCTT- TTCTTC
1 TTTTTC -TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC
* *
759267 TTCTTC TTCTTC TTT
1 TTTTTC TTTTTC TTT
759282 GGGCCGAACC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
5 5 0.10
6 35 0.69
7 11 0.22
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:759259 original size:3 final size:3
Alignment explanation
Indices: 759228--759280 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
759218 TTTTTCTTTT
* *
759228 TTC TTT TTC TT- TGTC TTC TTTC TTT TTC TTC TT- TTC TTC TTC TTC
1 TTC TTC TTC TTC T-TC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC
759273 TTC TTC TT
1 TTC TTC TT
759281 TGGGCCGAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.07
3 35 0.83
4 4 0.10
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:759263 original size:33 final size:32
Alignment explanation
Indices: 759218--759281 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
759208 GATATTATTT
*
759218 TTTTTCTTTTTTCTTTTTCTT-TGTCTTCTTTC
1 TTTTTCTTTTTTCTTCTTCTTCT-TCTTCTTTC
759250 TTTTTCTTCTTTTCTTCTTCTTCTTCTTCTTT
1 TTTTTCTT-TTTTCTTCTTCTTCTTCTTCTTT
759282 GGGCCGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 8 0.28
33 20 0.69
34 1 0.03
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (32 bp):
TTTTTCTTTTTTCTTCTTCTTCTTCTTCTTTC
Found at i:759825 original size:29 final size:30
Alignment explanation
Indices: 759786--759857 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
759776 ATTTTGGGGT
759786 AAAAGTGTAATTT-TAGGAAA-A-TATAGGGCC
1 AAAA-TGTAATTTCTA-GAAAGATTA-AGGGCC
*
759816 AAAATGTAATTTCTAGAAAGCTTAAGGGCC
1 AAAATGTAATTTCTAGAAAGATTAAGGGCC
*
759846 CAAATGTAATTT
1 AAAATGTAATTT
759858 ACAAATTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 12 0.32
30 23 0.62
31 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (30 bp):
AAAATGTAATTTCTAGAAAGATTAAGGGCC
Found at i:762968 original size:24 final size:25
Alignment explanation
Indices: 762904--762971 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
762894 TCATAACCAA
* * *
762904 ATACAGATGCATATC-TAGATTCAT
1 ATACAGATGCAGATCACAGATTCAG
* *
762928 ATACAAATACAGA-CACAGATTCAG
1 ATACAGATGCAGATCACAGATTCAG
762952 ATACAGATGCA-ATCACAGAT
1 ATACAGATGCAGATCACAGAT
762972 CCTACCCCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.06
24 33 0.94
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (25 bp):
ATACAGATGCAGATCACAGATTCAG
Found at i:764441 original size:89 final size:89
Alignment explanation
Indices: 764338--764515 Score: 338
Period size: 89 Copynumber: 2.0 Consensus size: 89
764328 TCAAGGATAG
*
764338 GGATTAAGACAAAAATAACATAAATTCAAGGGAAAGATTCAAACCCAAAACCTCACAGACACAAG
1 GGATTAAGACAAAAATAACAAAAATTCAAGGGAAAGATTCAAACCCAAAACCTCACAGACACAAG
764403 CACAACACCTATCCATTGAACCAA
66 CACAACACCTATCCATTGAACCAA
*
764427 GGATTAAGACAAAAATAACAAAAATTCAAGGGAAAGATTCAAACCCAAAGCCTCACAGACACAAG
1 GGATTAAGACAAAAATAACAAAAATTCAAGGGAAAGATTCAAACCCAAAACCTCACAGACACAAG
764492 CACAACACCTATCCATTGAACCAA
66 CACAACACCTATCCATTGAACCAA
764516 ATTAACTTAC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.49, C:0.25, G:0.12, T:0.14
Consensus pattern (89 bp):
GGATTAAGACAAAAATAACAAAAATTCAAGGGAAAGATTCAAACCCAAAACCTCACAGACACAAG
CACAACACCTATCCATTGAACCAA
Found at i:773283 original size:22 final size:22
Alignment explanation
Indices: 773244--773285 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
773234 ATTTATAAAG
*
773244 TTTAAAAAATGTCATTAAATTA
1 TTTAAAAAATATCATTAAATTA
773266 TTTAAAAAA-ATCATTTAAAT
1 TTTAAAAAATATCA-TTAAAT
773286 CATTAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAAAATATCATTAAATTA
Found at i:775809 original size:68 final size:68
Alignment explanation
Indices: 775700--775835 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
775690 AGGGTTTTCT
*
775700 ACATAAAATCTGTGTGATCTTATTGTTTTTCTTTTTCTTATTACTTTGCGATCATTCTACCGCCA
1 ACATAAAATCTGTGTGATCTTATTGTTTTTCTTTTTCTTATTACTTTGCAATCATTCTACCGCCA
775765 TTA
66 TTA
775768 ACATAAAATCTGTGTGATCTTATTGTTTTTCTTTTTCTTATTACTTTGCAATCATTCTACCGCCA
1 ACATAAAATCTGTGTGATCTTATTGTTTTTCTTTTTCTTATTACTTTGCAATCATTCTACCGCCA
775833 TTA
66 TTA
775836 TTAATATTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.10, T:0.49
Consensus pattern (68 bp):
ACATAAAATCTGTGTGATCTTATTGTTTTTCTTTTTCTTATTACTTTGCAATCATTCTACCGCCA
TTA
Found at i:777098 original size:21 final size:21
Alignment explanation
Indices: 777074--777113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
777064 TTCAATAACC
777074 AAATGTTCACACAAACAGATA
1 AAATGTTCACACAAACAGATA
**
777095 AAATGTTCTGACAAACAGA
1 AAATGTTCACACAAACAGA
777114 CGTATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATGTTCACACAAACAGATA
Found at i:777795 original size:40 final size:40
Alignment explanation
Indices: 777737--777812 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
777727 ATGGTCGTTT
777737 GCCCTAGCCGTGTAGAGGCCTACACGC-CTATGTGGACGTG
1 GCCCTAGCCGTGTAGAGGCCTACACGCTC-ATGTGGACGTG
* *
777777 GCCCTGGCCGTGTGGAGGCCTACACGCTCATGTGGA
1 GCCCTAGCCGTGTAGAGGCCTACACGCTCATGTGGA
777813 TGAGACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (40 bp):
GCCCTAGCCGTGTAGAGGCCTACACGCTCATGTGGACGTG
Found at i:782635 original size:42 final size:42
Alignment explanation
Indices: 782561--782646 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
782551 GACACTTAAT
** * * ** *
782561 TTTTCCAAAAATTGACAGAGACACGGTTTAAAATAGTCCACA
1 TTTTCCAAAAATCAACAAAGACACAGCCTAAAACAGTCCACA
*
782603 TTTTCCAAAAATCAACAAAGACACAGCCTAAAACAGTTCACA
1 TTTTCCAAAAATCAACAAAGACACAGCCTAAAACAGTCCACA
782645 TT
1 TT
782647 CGAAACCTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (42 bp):
TTTTCCAAAAATCAACAAAGACACAGCCTAAAACAGTCCACA
Found at i:785184 original size:6 final size:6
Alignment explanation
Indices: 785168--785211 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
785158 AGTCCATTTG
* *
785168 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
785212 CTTAGTCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:787113 original size:30 final size:30
Alignment explanation
Indices: 787079--787136 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
787069 CTGGGCATTT
787079 CCACACGGGCT-GGCCACATGCCCATGTGAG
1 CCACACGGGCTAGG-CACATGCCCATGTGAG
* *
787109 CCACAGGGGCTAGGCACATGTCCATGTG
1 CCACACGGGCTAGGCACATGCCCATGTG
787137 CCAGCCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.16
Consensus pattern (30 bp):
CCACACGGGCTAGGCACATGCCCATGTGAG
Found at i:789789 original size:7 final size:8
Alignment explanation
Indices: 789772--789801 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
789762 ACATTATCAA
789772 TTTATTTT
1 TTTATTTT
789780 TTTATTTT
1 TTTATTTT
789788 TTTATTTGT
1 TTTATTT-T
789797 TTTAT
1 TTTAT
789802 ACTTGCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (8 bp):
TTTATTTT
Found at i:791739 original size:15 final size:15
Alignment explanation
Indices: 791719--791747 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
791709 TGAATTTAAA
791719 ATTCAAAATAATTGT
1 ATTCAAAATAATTGT
791734 ATTCAAAATAATTG
1 ATTCAAAATAATTG
791748 CAAAGGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (15 bp):
ATTCAAAATAATTGT
Found at i:793623 original size:32 final size:32
Alignment explanation
Indices: 793587--793671 Score: 89
Period size: 36 Copynumber: 2.5 Consensus size: 32
793577 ATGCAGACTT
* *
793587 TGTGGGTAGGCCGTGTGAAATCATGCAAATCG
1 TGTGGGTAGGCCGTGTGAAATAATGCAAACCG
* *
793619 TGTGGGTCACACGGTCGTGTGAAATAATGCAGACCG
1 TGTGGGT---A-GGCCGTGTGAAATAATGCAAACCG
*
793655 TGTGGGTAGACCGTGTG
1 TGTGGGTAGGCCGTGTG
793672 GACCACACGG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
32 14 0.33
33 1 0.02
35 1 0.02
36 27 0.63
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.25
Consensus pattern (32 bp):
TGTGGGTAGGCCGTGTGAAATAATGCAAACCG
Found at i:798374 original size:23 final size:23
Alignment explanation
Indices: 798347--798397 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
798337 AGATTTTTCT
* *
798347 TAAATATTATTATTAAATAATTC
1 TAAATATTATCACTAAATAATTC
798370 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATTC
*
798393 AAAAT
1 TAAAT
798398 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATTC
Found at i:798423 original size:18 final size:18
Alignment explanation
Indices: 798402--798440 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
798392 CAAAATTTAA
798402 AAATTAAAAATTAAATTT
1 AAATTAAAAATTAAATTT
* *
798420 AAATTAGAGATTAAATTT
1 AAATTAAAAATTAAATTT
798438 AAA
1 AAA
798441 CTAATTACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATTAAAAATTAAATTT
Found at i:800456 original size:17 final size:17
Alignment explanation
Indices: 800425--800475 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
800415 AACTTTACAA
*
800425 TTATTAATT-TAAAATT
1 TTATAAATTATAAAATT
*
800441 TTATAAATTATAAAATA
1 TTATAAATTATAAAATT
* * *
800458 ATATAAATAAAAAAATT
1 TTATAAATTATAAAATT
800475 T
1 T
800476 CATTTTAGGA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 8 0.30
17 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:801266 original size:2 final size:2
Alignment explanation
Indices: 801259--801291 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
801249 ATAGAATGAT
801259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
801292 TAAAAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:813728 original size:36 final size:36
Alignment explanation
Indices: 813681--813751 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
813671 AATAAACAGG
813681 AGTATTCACCAACAAGATTATCATGGACTACCAAGA
1 AGTATTCACCAACAAGATTATCATGGACTACCAAGA
813717 AGTATTCACCAACAAGATTATCATGGACTACCAAG
1 AGTATTCACCAACAAGATTATCATGGACTACCAAG
813752 GCAATTTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (36 bp):
AGTATTCACCAACAAGATTATCATGGACTACCAAGA
Found at i:816711 original size:617 final size:618
Alignment explanation
Indices: 815508--816783 Score: 2041
Period size: 617 Copynumber: 2.1 Consensus size: 618
815498 AATAAAAAGT
* *
815508 ATATTTGATT-AAAAT--AAAAATATATTTAATATATAATTCGGGCCGGCACGACCCGGCTCTGG
1 ATATTTGATTAAAAATAAAAAAATATATTTAATATATAATTCGAGCCGGCACGACCCGGCTCAGG
* * * *
815570 CCAAAAAAGTCTTACCCGAGGCCCAGCCTGTTTTCTAAACGGGCCTCTTTTTTTCCCAAACCCAT
66 CCAAAAAAGTATTACCCAAAGCCCAGCCTGTTTTCTAAACAGGCCTCTTTTTTTCCCAAACCCAT
* *
815635 ATTTCGAGCCTATATTTTTACCCGAACCCTTCCATTTTTTGGATGGGCCGTCGGGCCGAGCCGGG
131 ATTTCGAGCCTATATTTTTACCCGAACCCTCCCATTTTTTGGA-GGGCCGTCGGGCCGAGCCAGG
** * *
815700 TAACCCAACCCATGATCACCTCTACCATCATTGCGCCAATCTCTGCCAAATCAGTATCGTTTGCT
195 TAACCCAACCCATGATCACCTCTACCATCACCGCGCCAATCTCTGCCAAATCAATATCATTTGCT
*
815765 GCTACTGGACCTGAAAATAAAGCTTTTGCGACTCCCTCCTTATCTCTCAAGACACCTCCACAGCC
260 GCTACTGGACCTGAAAATAAAGCTCTTGCGACTCCCTCCTTATCTCTCAAGACACCTCCACAGCC
* * *
815830 TGCTCTATCCCCGTTTGCAATCCCACAAACATTGAACTTTAAGCATCCATGCGGAGGAGGGTGCT
325 TGCTCTATCCCCATTTGCAATCCCACAAACATTGAACTTTAAGCATCCATGCAGAGGAGGGTGCC
* *
815895 ATATCAATGCAGTTGGTTTGGAATTTAATTAAATCAATCCTACACCTATTCGGACATATCCACCA
390 ATACCAATGCAGCTGGTTTGGAATTTAATTAAATCAATCCTACACCTATTCGGACATATCCACCA
* * *
815960 AAAGTTCTCCTGCAACATTAATTCATCGTAAACAAATATAATCCAGATGAAATTTTAGACCCGTT
455 AAAGTTCTCCTACAACATTAATTCATCATAAACAAATATAATCCAGATGAAATTTTAGACCCATT
816025 TTATAGGTCCGAGCCCGGACTGACCCGAAATATGGGCCTAAAAATTTGTCCAAGTCCGGCCAGAA
520 TTATAGGTCCGAGCCCGGACTGACCCGAAATATGGGCCTAAAAATTTGTCCAAGTCCGGCCAGAA
816090 AGAAAATTACTAAGC-CAGA-GCCCGACCCGGCCC
585 AGAAAATTACTAAGCTC-GACGCCCGACCCGGCCC
*
816123 ATATTTGATTAAAAATAAAAAATATATATTTAATATATAATTCGAGCCGGCACGGCCCGGCTCAG
1 ATATTTGATTAAAAATAAAAAA-ATATATTTAATATATAATTCGAGCCGGCACGACCCGGCTCAG
816188 GCCAAAAAAGTATTACCCAAAGCCCAGCCTG-TTTCTAAACAGGCCTCGTTTTTTTCCCAAACCC
65 GCCAAAAAAGTATTACCCAAAGCCCAGCCTGTTTTCTAAACAGGCCTC-TTTTTTTCCCAAACCC
* * *
816252 ATATTTCGGGCCTATATTTTTACTCGAACCCTCCCATTTTTTGG-GCGGCCGTC-GGCCGGGCCA
129 ATATTTCGAGCCTATATTTTTACCCGAACCCTCCCATTTTTTGGAG-GGCCGTCGGGCCGAGCCA
* * * *
816315 GGTAGCCTAACCCATGATCACCTCTACCATCACCGTGCCACTCTCTGCCAAATCAATATCATTTG
193 GGTAACCCAACCCATGATCACCTCTACCATCACCGCGCCAATCTCTGCCAAATCAATATCATTTG
816380 CTGCTACTGGACCTGAAAATAAAGCTCTTGCGACTCCCTCCTTATCTCTCAAGACACCTCCACAG
258 CTGCTACTGGACCTGAAAATAAAGCTCTTGCGACTCCCTCCTTATCTCTCAAGACACCTCCACAG
* *
816445 CTTGCTCTATCCTCATTTGCAATCCCACAAACATTGAACTTTAAGCATCCATGCAGAGGAGGGTG
323 CCTGCTCTATCCCCATTTGCAATCCCACAAACATTGAACTTTAAGCATCCATGCAGAGGAGGGTG
816510 CCATACCAATGCAGCTGGTTTGGAATTTAATTAAATCAATCCTACACCTATTCGGACATATCCAC
388 CCATACCAATGCAGCTGGTTTGGAATTTAATTAAATCAATCCTACACCTATTCGGACATATCCAC
* *
816575 CAAAATTTCTCCTACAACATTAATTCATCATAAACAAATATAATCCAGATGAAATTTTAGGCCCA
453 CAAAAGTTCTCCTACAACATTAATTCATCATAAACAAATATAATCCAGATGAAATTTTAGACCCA
* * * *
816640 TTTTATAGGTCTGAGTCCGGCCTGACCTGAAATATGGGCCTAAAAATTTGTCCAAG-CCTGGCCC
518 TTTTATAGGTCCGAGCCCGGACTGACCCGAAATATGGGCCTAAAAATTTGTCCAAGTCC-GG-CC
* * *
816704 A-AAAGAAAATTGCTAAGCTCGACCGGCCGGCCCGGCCC
581 AGAAAGAAAATTACTAAGCTCGA-CGCCCGACCCGGCCC
*
816742 ATATTTAATTAAAAATAAAAAAATATATTTAATATATAATTC
1 ATATTTGATTAAAAATAAAAAAATATATTTAATATATAATTC
816784 AGATTAAAAG
Statistics
Matches: 609, Mismatches: 41, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
615 10 0.02
616 7 0.01
617 385 0.63
618 50 0.08
619 157 0.26
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (618 bp):
ATATTTGATTAAAAATAAAAAAATATATTTAATATATAATTCGAGCCGGCACGACCCGGCTCAGG
CCAAAAAAGTATTACCCAAAGCCCAGCCTGTTTTCTAAACAGGCCTCTTTTTTTCCCAAACCCAT
ATTTCGAGCCTATATTTTTACCCGAACCCTCCCATTTTTTGGAGGGCCGTCGGGCCGAGCCAGGT
AACCCAACCCATGATCACCTCTACCATCACCGCGCCAATCTCTGCCAAATCAATATCATTTGCTG
CTACTGGACCTGAAAATAAAGCTCTTGCGACTCCCTCCTTATCTCTCAAGACACCTCCACAGCCT
GCTCTATCCCCATTTGCAATCCCACAAACATTGAACTTTAAGCATCCATGCAGAGGAGGGTGCCA
TACCAATGCAGCTGGTTTGGAATTTAATTAAATCAATCCTACACCTATTCGGACATATCCACCAA
AAGTTCTCCTACAACATTAATTCATCATAAACAAATATAATCCAGATGAAATTTTAGACCCATTT
TATAGGTCCGAGCCCGGACTGACCCGAAATATGGGCCTAAAAATTTGTCCAAGTCCGGCCAGAAA
GAAAATTACTAAGCTCGACGCCCGACCCGGCCC
Found at i:818084 original size:40 final size:38
Alignment explanation
Indices: 818023--818137 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 38
818013 CCCATATTTA
818023 ATTAAAAATAAAAAA-ATATATTTAATATATAATTCAG
1 ATTAAAAATAAAAAATATATATTTAATATATAATTCAG
* * *
818060 ATTAAAAGTCCAAAAAATATATATTTAATAAAAAGTATATT-TG
1 ATTAAAAAT--AAAAAATATATATTTAAT--ATA-TA-ATTCAG
818103 ATTAAAAAT-AAAAATATATATTTAATATATAATTC
1 ATTAAAAATAAAAAATATATATTTAATATATAATTC
818138 GGGCCGGCAC
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
36 3 0.05
37 10 0.15
38 2 0.03
39 6 0.09
40 28 0.43
42 2 0.03
43 11 0.17
44 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (38 bp):
ATTAAAAATAAAAAATATATATTTAATATATAATTCAG
Found at i:818127 original size:20 final size:19
Alignment explanation
Indices: 818072--818127 Score: 53
Period size: 23 Copynumber: 2.8 Consensus size: 19
818062 TAAAAGTCCA
818072 AAAAATATATATTT--AAT
1 AAAAATATATATTTAAAAT
*
818089 AAAAAGTATATTTGATTAAAAAT
1 AAAAA-TATA--T-ATTTAAAAT
818112 AAAAATATATATTTAA
1 AAAAATATATATTTAA
818128 TATATAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 5 0.16
20 2 0.06
21 3 0.10
22 4 0.13
23 8 0.26
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAAATATATATTTAAAAT
Found at i:823911 original size:14 final size:14
Alignment explanation
Indices: 823869--823917 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
823859 GAGTCTAATT
823869 AAAATTTTAATT-A
1 AAAATTTTAATTAA
**
823882 AAAATTAAAAGTTTAA
1 AAAATTTTAA--TTAA
823898 AAAATTTTAATTAA
1 AAAATTTTAATTAA
823912 AAAATT
1 AAAATT
823918 AAAAGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 8 0.28
14 10 0.34
15 2 0.07
16 9 0.31
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
AAAATTTTAATTAA
Found at i:827794 original size:16 final size:16
Alignment explanation
Indices: 827773--827813 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
827763 AATAATGGAA
827773 ATATATAAAAACATGT
1 ATATATAAAAACATGT
**
827789 ATATATAAAAGTATGT
1 ATATATAAAAACATGT
827805 ATATATAAA
1 ATATATAAA
827814 TTAAAGAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (16 bp):
ATATATAAAAACATGT
Found at i:827859 original size:33 final size:32
Alignment explanation
Indices: 827822--827893 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 32
827812 AATTAAAGAG
827822 TATATA-AAAAGTATAGAATTACGTATATATATA
1 TATATAGAAAAGTA-AGAA-TACGTATATATATA
* *
827855 TATATATGAAAATTAAGAATATGTATATATATA
1 TATATA-GAAAAGTAAGAATACGTATATATATA
827888 TATATA
1 TATATA
827894 TGTATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 25 0.71
34 4 0.11
35 6 0.17
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (32 bp):
TATATAGAAAAGTAAGAATACGTATATATATA
Found at i:829921 original size:41 final size:41
Alignment explanation
Indices: 829878--830399 Score: 170
Period size: 44 Copynumber: 12.2 Consensus size: 41
829868 CTTTAAGAAA
* * *
829878 ATAAAATCTGATGCGATCTGCTCTACTGCAACTTCAGAGAA
1 ATAAGATCTGATGCGATCTGCTCCACTGCAACTTCAGAGAG
* * *** * *
829919 ATAAGATTTGCGGTTTTAATCAGCTCCACTGCAACTTCAGGGAG
1 ATAAGA--T-CTGATGCGATCTGCTCCACTGCAACTTCAGAGAG
* * * *
829963 ATAGGAT-TGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATCTGA----TGCGATCTGCTCCACTGCAACTTCAGAGAG
*
830007 ATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAG
1 ATAAGATCT-GATGCGATCTGCTCCACTGCAACTTCAGAGAG
*** * * *
830048 ATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAGAGAG
1 ATAAGATC--TGA-TGCGATCTGCTCCACTGCAACTTCAGAGAG
* * * *
830092 ATAGGAT-TGGTTTCTTCTG-TCTGCTCCACTGTAACTTCAGAGAG
1 ATAAGATCT-G---ATGC-GATCTGCTCCACTGCAACTTCAGAGAG
*** * ** * *
830136 ATAAGATCTGTGATTTTAATCCGCTTTACTGTAACTTTAGAGAG
1 ATAAGATC--TGA-TGCGATCTGCTCCACTGCAACTTCAGAGAG
* * * *
830180 ATAGGAT-TGGTTTCTTCTG-TCTGCTCCACTG----TTCAGGGAG
1 ATAAGATCT-G---ATGC-GATCTGCTCCACTGCAACTTCAGAGAG
*
830220 ATAAGA-CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAG
1 ATAAGATCT-GATGCGATCTGCTCCACTGCAACTTCAGAGAG
*** ** * *
830261 ATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAGAGAG
1 ATAAGATC--TGA-TGCGATCTGCTCCACTGCAACTTCAGAGAG
* * * * * *
830305 ATAGGAT-TGGTTTCGTTTGTCTGCTCCACTACAACTTCAGGGAG
1 ATAAGATCT-GATGCG---ATCTGCTCCACTGCAACTTCAGAGAG
* * *
830349 ATAAGA-CTAGATACGATCTGCTCTACTGCAACTTTAGAGAG
1 ATAAGATCT-GATGCGATCTGCTCCACTGCAACTTCAGAGAG
830390 ATAAGATCTG
1 ATAAGATCTG
830400 CGATTTTCAA
Statistics
Matches: 355, Mismatches: 82, Indels: 88
0.68 0.16 0.17
Matches are distributed among these distances:
36 1 0.00
37 13 0.04
40 16 0.05
41 84 0.24
42 8 0.02
43 5 0.01
44 224 0.63
45 2 0.01
46 1 0.00
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (41 bp):
ATAAGATCTGATGCGATCTGCTCCACTGCAACTTCAGAGAG
Found at i:829989 original size:44 final size:44
Alignment explanation
Indices: 829893--830351 Score: 176
Period size: 44 Copynumber: 10.7 Consensus size: 44
829883 ATCTGATGCG
* * * *
829893 ATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTG-CGGTT-TT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGA-TTGAC--TTCTTCT
* *
829937 ATCAGCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACTTCTTCT
* ** * *
829981 ATCTGCTCCACTGCAACTTCAGGGAGATA--A--GACTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACT-TCTTCT
* * *
830022 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGA-TT-TT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGA--T-TGACTTCTTCT
* * * **
830066 ATCCGCTCTACTGCAACTTTAGAGAGATAGGATTGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACTTCTTCT
* * * *
830110 GTCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTGA-TT-TT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGA--T-TGACTTCTTCT
* ** * * **
830154 ATCCGCTTTACTGTAACTTTAGAGAGATAGGATTGGTTTCTTCT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACTTCTTCT
* * ** * *
830198 GTCTGCTCCACTG----TTCAGGGAGATA--A--GACTGGATGCG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACT-TCTTCT
* * *
830235 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGA-TT-TT-A
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGA--T-TGACTTCTTCT
** * * **
830279 ATCCACTCTACTGTAACTTCAGAGAGATAGGATTGGTTTCGTT-T
1 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACTTC-TTCT
* * *
830323 GTCTGCTCCACTACAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGAGAGATA
830352 AGACTAGATA
Statistics
Matches: 312, Mismatches: 68, Indels: 70
0.69 0.15 0.16
Matches are distributed among these distances:
36 2 0.01
37 13 0.04
38 1 0.00
40 14 0.04
41 46 0.15
42 12 0.04
43 11 0.04
44 198 0.63
45 4 0.01
46 3 0.01
47 4 0.01
48 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGACTTCTTCT
Found at i:830093 original size:129 final size:129
Alignment explanation
Indices: 829887--830141 Score: 384
Period size: 129 Copynumber: 2.0 Consensus size: 129
829877 AATAAAATCT
* * *
829887 GATGCGATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGCGGTTTTAATCAGCTCCACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAAATAAGATCTACGATTTTAATCAGCTCCACTGCA
* *
829952 ACTTCAGGGAGATAGGATTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTG
66 ACTTCAGAGAGATAGGATTGACTTCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGACTG
* * * *
830016 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCA
1 GATGCGATCTGCTCTACTGCAACTTCAGAGAAATAAGATCTACGATTTTAATCAGCTCCACTGCA
* ** * *
830081 ACTTTAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTGTAACTTCAGAGAGATAAGA
66 ACTTCAGAGAGATAGGATTGACTTCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGA
830142 TCTGTGATTT
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 112 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTACTGCAACTTCAGAGAAATAAGATCTACGATTTTAATCAGCTCCACTGCA
ACTTCAGAGAGATAGGATTGACTTCTTCTATCTGCTCCACTGCAACTTCAGAGAGATAAGACTG
Found at i:830136 original size:88 final size:88
Alignment explanation
Indices: 830023--830211 Score: 333
Period size: 88 Copynumber: 2.1 Consensus size: 88
830013 CTGGATGCGA
* *
830023 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAG
1 TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAG
830088 AGAGATAGGATTGGTTTCTTCTG
66 AGAGATAGGATTGGTTTCTTCTG
* * *
830111 TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTTACTGTAACTTTAG
1 TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAG
830176 AGAGATAGGATTGGTTTCTTCTG
66 AGAGATAGGATTGGTTTCTTCTG
830199 TCTGCTCCACTGT
1 TCTGCTCCACTGT
830212 TCAGGGAGAT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (88 bp):
TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAG
AGAGATAGGATTGGTTTCTTCTG
Found at i:830260 original size:125 final size:126
Alignment explanation
Indices: 830111--830411 Score: 453
Period size: 125 Copynumber: 2.4 Consensus size: 126
830101 GTTTCTTCTG
* * * * *
830111 TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTTACTGTAACTTTAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAG
* * *
830176 AGAGATAGGATTGGTTTC-TTCTGTCTGCTCCACT-GTTCAGGGAGATAAGACTGGATGCGA
66 AGAGATAGGATTGGTTTCGTT-TGTCTGCTCCACTACTTCAGGGAGATAAGACTAGATACGA
830236 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAG
830301 AGAGATAGGATTGGTTTCGTTTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAGATACGA
66 AGAGATAGGATTGGTTTCGTTTGTCTGCTCCACT---ACTTCAGGGAGATAAGACTAGATACGA
* *
830365 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGCGATTTTCAATC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTT-AATC
830412 TGTTTAACTG
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
125 91 0.57
126 2 0.01
129 63 0.39
130 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (126 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAG
AGAGATAGGATTGGTTTCGTTTGTCTGCTCCACTACTTCAGGGAGATAAGACTAGATACGA
Found at i:830277 original size:213 final size:214
Alignment explanation
Indices: 829894--830354 Score: 683
Period size: 213 Copynumber: 2.1 Consensus size: 214
829884 TCTGATGCGA
* * * *
829894 TCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGCGGTTTTAATCAGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAATCAGCTCCACTGCAACTTCAG
*
829959 GGAGATAGGATTGACTTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGAT
66 AGAGATAGGATTGACTTCTTCTATCTGCTCCACTG--A-TTCAGGGAGATAAGACTGGATGCGAT
* *
830024 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCGCTCTACTGCAACTTTAGA
128 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCACTCTACTGCAACTTCAGA
830089 GAGATAGGATTGGTTTC-TTCTG
193 GAGATAGGATTGGTTTCGTT-TG
* * * ** * *
830111 TCTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTTTACTGTAACTTTAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAATCAGCTCCACTGCAACTTCAG
** *
830176 AGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTG-TTCAGGGAGATAAGACTGGATGCGATCTG
66 AGAGATAGGATTGACTTCTTCTATCTGCTCCACTGATTCAGGGAGATAAGACTGGATGCGATCTG
* *
830240 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCTACTGTAACTTCAGAGAG
131 CTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCACTCTACTGCAACTTCAGAGAG
830305 ATAGGATTGGTTTCGTTTG
196 ATAGGATTGGTTTCGTTTG
* *
830324 TCTGCTCCACTACAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
830355 CTAGATACGA
Statistics
Matches: 221, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
213 134 0.61
214 2 0.01
217 85 0.38
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (214 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCGATTTTAATCAGCTCCACTGCAACTTCAG
AGAGATAGGATTGACTTCTTCTATCTGCTCCACTGATTCAGGGAGATAAGACTGGATGCGATCTG
CTCTACTGCAACTTCAGAGAGATAAGATCTATGATTTTAATCCACTCTACTGCAACTTCAGAGAG
ATAGGATTGGTTTCGTTTG
Found at i:830952 original size:296 final size:300
Alignment explanation
Indices: 830449--831011 Score: 740
Period size: 296 Copynumber: 1.9 Consensus size: 300
830439 GATTCACCAC
* *
830449 CGTAGCTTCAATCTGTTCTACTGCATCGCCTGAAAAGTAAGATTCGCCGTCGTGACTTCAATCTA
1 CGTAGCTTCAATCTGTTCTACTGCATCGCCTGAAAAGTAAGATCCGCCGTCGTGACCTCAATCTA
* * ** * *
830514 TTTTAATTGCCATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATATGTTCCTCTGCATCGC
66 TTTAAATTGCAATGTCGGGGAAGTGAGACCCACCATCGTAGCTTCAATATGTTCCGCTGCATCGC
* * * * * *
830579 TGGGAAATAAGATTCGCCGTTGGGACTTTAATCTTTTAACTTGCAATATCGGGGAAGTGAGATTC
131 TGGGAAATAAGATCCACCGTTGGGACCTCAATCTTTTAAATTACAATATCGGGGAAGTGAGATTC
* * *
830644 CCCGTTGTAGCTTCAATCTGTTCCACTGCATCGCTT-GGAAGTAAGATCCGCCGTTGCGGCCTCA
196 CCCGTCGTAGCTTCAATCTGTTCCACTACATCGCTTGGGAAGTAAGATCCGCCGTTGCAGCCTCA
830708 ATCTTTTAAATTGCAGTTTTGGGGAAGTGAGATTCGCTGT
261 ATCTTTTAAATTGCAGTTTTGGGGAAGTGAGATTCGCTGT
* * * * * * *
830748 CGTATCTTCAATCTGTTCTGCTGCATCGCTTG-GAAGTAAGATCCGGCGTTGTGCCCTCAATCT-
1 CGTAGCTTCAATCTGTTCTACTGCATCGCCTGAAAAGTAAGATCCGCCGTCGTGACCTCAATCTA
* * *
830811 TTTAAATTGCAATGTC-GGGAAGTGAGACCCGCCATTGTAGCTTCAATTTGTTCCGCTGCATCGC
66 TTTAAATTGCAATGTCGGGGAAGTGAGACCCACCATCGTAGCTTCAATATGTTCCGCTGCATCGC
* * *
830875 TTGGAAGTAAGATCCACCGTTGTGG-CCTCAATCTTTTAAATTACAATGTCGGGGAAGTGAGATT
131 TGGGAAATAAGATCCACCGTTG-GGACCTCAATCTTTTAAATTACAATATCGGGGAAGTGAGATT
* * ** * * * *
830939 CGCCGTCGTAGCTTCAATCTGTTCCGCTACATTTCTTGGGAAGTAAGATTCGCTGTTGTAGCTTC
195 CCCCGTCGTAGCTTCAATCTGTTCCACTACATCGCTTGGGAAGTAAGATCCGCCGTTGCAGCCTC
831004 AATCTTTT
260 AATCTTTT
831012 TAACTACCGA
Statistics
Matches: 224, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
296 124 0.55
297 46 0.21
298 25 0.11
299 29 0.13
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (300 bp):
CGTAGCTTCAATCTGTTCTACTGCATCGCCTGAAAAGTAAGATCCGCCGTCGTGACCTCAATCTA
TTTAAATTGCAATGTCGGGGAAGTGAGACCCACCATCGTAGCTTCAATATGTTCCGCTGCATCGC
TGGGAAATAAGATCCACCGTTGGGACCTCAATCTTTTAAATTACAATATCGGGGAAGTGAGATTC
CCCGTCGTAGCTTCAATCTGTTCCACTACATCGCTTGGGAAGTAAGATCCGCCGTTGCAGCCTCA
ATCTTTTAAATTGCAGTTTTGGGGAAGTGAGATTCGCTGT
Found at i:831078 original size:95 final size:95
Alignment explanation
Indices: 830946--831676 Score: 1120
Period size: 95 Copynumber: 7.7 Consensus size: 95
830936 ATTCGCCGTC
* * *** * * *
830946 GTAGCTTCAATCTGTTCCGCTACATTTCTTGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
831011 TTAACTACCGAGGAAGCAAGATCCGTTGTT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
* * * *
831041 GTAGCTTCAATATGTTCCACTGCAACATTAAGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
831106 TTAACTGTCGGGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
831136 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
*
831201 TTAACTGCCGAGGAAGCAAGATCCGCTATT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
* * * * *
831231 GTAGCTTCAACCTGTTCCACTGCAACACTAAGAAAGTAAGATCCACTATTGTAGCTTCAATCTTC
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
831296 TTAACTGCTGAGGAAGCAAGATCTGCTGTT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
*
831326 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTATAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* * *
831391 TTAACTTCCAAGGAAGCAAGATCCGCTATT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
* * * *
831421 GTAGCTTCAATCTGTTCCACTGCAACACTAAGAAAGTAAGATCCACTGTTGCAGCTTCAATCTTC
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
831486 TTAACTGCTGAGGAAGCAAGATCTGCTGTT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
* *
831516 GTAGCTTCAATCTGTTCAACTGCAACACTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
831581 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGAGGAAGCAAGATCCGCTGTT
* *
831611 GTAGCTTCAATCTGTTCCACTGTAACACTAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
831676 T
66 T
831677 AATTGCAATG
Statistics
Matches: 572, Mismatches: 64, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 572 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (95 bp):
GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
TTAACTGCCGAGGAAGCAAGATCCGCTGTT
Found at i:831899 original size:100 final size:98
Alignment explanation
Indices: 830450--832083 Score: 817
Period size: 95 Copynumber: 16.7 Consensus size: 98
830440 ATTCACCACC
* * * * * * *
830450 GTAGCTTCAATCTGTTCTACTGCATC-GCCTGAAAAGTAAGATTCGCCGTCGTGACTTCAATCTA
1 GTAGCTTCAATCTGTTCCACTGCA-CAG-CAGGAAAGTAAGATTCACCGTTGTGGCCTCAATC--
* * * * *
830514 TTTTAATTGCCATGTCGGGGAAGTGAGATTCACCGTC
62 TTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * * * *
830551 GTAGCTTCAATATGTTCCTCTGCATC-GCTGGGAAA-TAAGATTCGCCGTTG-GGACTTTAATCT
1 GTAGCTTCAATCTGTTCCACTGCA-CAGC-AGGAAAGTAAGATTCACCGTTGTGG-CCTCAATCT
* * * *
830613 TTTAACTTGCAATATCGGGGAAGTGAGATTCCCCGTT
63 TTTAA-TTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * *
830650 GTAGCTTCAATCTGTTCCACTGCATC-GCTTGG-AAGTAAGATCCGCCGTTGCGGCCTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCA-CAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * * ** *
830713 TTAAATTGCAGTTTTGGGGAAGTGAGATTCGCTGTC
64 TT-AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* ** * * ** *
830749 GTATCTTCAATCTGTTCTGCTGCATC-GCTTGG-AAGTAAGATCCGGCGTTGTGCCCTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCA-CAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* **
830812 TTAAATTGCAATGTC-GGGAAGTGAGACCCGCCATT
64 TT-AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * *
830847 GTAGCTTCAATTTGTTCCGCTGCATC-GCTTGG-AAGTAAGATCCACCGTTGTGGCCTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCA-CAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * *
830910 TTAAATTACAATGTCGGGGAAGTGAGATTCGCCGTC
64 TT-AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * *** * * * * * *
830946 GTAGCTTCAATCTGTTCCGCTACATTTCTTGGGAAGTAAGATTCGCTGTTGTAGCTTCAATC-TT
1 GTAGCTTCAATCTGTTCCACTGCACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTT
** * * * ***
831010 T--TT--AACTACCGAGGAAGCAAGATCCGTTGTT
65 TAATTGCAA-TGTCGGGGAAGCGAGATTCGCCATT
* ** * * *** * *
831041 GTAGCTTCAATATGTTCCACTGCAACATTAAGAAAGTAAGATCCGTTGTTGTAGCTTCAATC-TT
1 GTAGCTTCAATCTGTTCCACTGC-ACAGCAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTT
* * **
831105 T--TT--AACTGTCGGGGAAGCAAGATCCGCTGTT
65 TAATTGCAA-TGTCGGGGAAGCGAGATTCGCCATT
* * * * *
831136 GTAGCTTCAATCTGTTCCACTGCAACA-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC-T
1 GTAGCTTCAATCTGTTCCACTGC-ACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * * *
831199 TT--TT--AACTGCCGAGGAAGCAAGATCCGCTATT
64 TTAATTGCAA-TGTCGGGGAAGCGAGATTCGCCATT
* * * ** * *
831231 GTAGCTTCAACCTGTTCCACTGCAACA-CTAAGAAAGTAAGATCCACTATTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGC-ACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * **
831295 CTTAACTGC----T-GAGGAAGCAAGA-TCTGCTGTT
64 -TTAATTGCAATGTCGGGGAAGCGAGATTC-GCCATT
* * * * * *
831326 GTAGCTTCAATCTGTTCCACTGCAACA-CTAGGAAAGTAAGATCCGCTGTTATAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGC-ACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATC-T
* * * *
831390 TTTAACTTCCAA------GGAAGCAAGATCCGCTATT
63 TTTAA-TTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * ** *
831421 GTAGCTTCAATCTGTTCCACTGCAACA-CTAAGAAAGTAAGATCCACTGTTGCAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGC-ACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * **
831485 CTTAACTGC----T-GAGGAAGCAAGA-TCTGCTGTT
64 -TTAATTGCAATGTCGGGGAAGCGAGATTC-GCCATT
* * *** * *
831516 GTAGCTTCAATCTGTTCAACTGCAACA-CTAGGAAAGTAAGATCCGTTGTTGTAGCTTCAATC-T
1 GTAGCTTCAATCTGTTCCACTGC-ACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* * * * **
831579 TT--TT--AACTGCCGAGGAAGCAAGATCCGCTGTT
64 TTAATTGCAA-TGTCGGGGAAGCGAGATTCGCCATT
* * * * *
831611 GTAGCTTCAATCTGTTCCACTGTAACA-CTAGGAAAGTAAGATCCACTGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTG-CACAGC-AGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* *
831675 TTAATTGCAATGTCGGGGAAGTGAGATTCGCCGTT
64 TTAATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * ** **
831710 GTAGCTTTAATTTGTTCCACTGCACAGCCTGTGAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
1 GTAGCTTCAATCTGTTCCACTGCACAGCAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
831775 AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
66 AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * *
831808 GTAGCTTCAATCTGTTCCACGGCATC-GTATGGAAAAGTAAGGTTCGCCGTTGTGGCCTCAATCT
1 GTAGCTTCAATCTGTTCCACTGCA-CAGCA-GG-AAAGTAAGATTCACCGTTGTGGCCTCAATCT
* * * *
831872 TTTAATTGCAATGTCAGGGG-AGTGAGATTAGCCGTC
63 TTTAATTGCAATGTC-GGGGAAGCGAGATTCGCCATT
* * * ** * *
831908 GTAGCTTCAATCTGTTTCACTACACCGCCAGGGAAAGTAAGATTTGCTGTTGTGGCCTCAGTCTT
1 GTAGCTTCAATCTGTTCCACTGCACAG-CA-GGAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
* **
831973 TTAATTTGCAATGTCGGGGAAGCAAGATTTACCATT
64 TTAA-TTGCAATGTCGGGGAAGCGAGATTCGCCATT
* * * * *
832009 GTGGCTTCAATCTTTTCCGCTGCACTGCCAGAGAAAGTAAGATTTACCGTTGTGGCCTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCACAG-CAG-GAAAGTAAGATTCACCGTTGTGGCCTCAATCTT
*
832074 TGAATTGCAA
64 TTAATTGCAA
832084 ACTATGGTTT
Statistics
Matches: 1297, Mismatches: 184, Indels: 105
0.82 0.12 0.07
Matches are distributed among these distances:
91 1 0.00
93 2 0.00
94 9 0.01
95 540 0.42
96 14 0.01
97 2 0.00
98 181 0.14
99 265 0.20
100 171 0.13
101 112 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (98 bp):
GTAGCTTCAATCTGTTCCACTGCACAGCAGGAAAGTAAGATTCACCGTTGTGGCCTCAATCTTTT
AATTGCAATGTCGGGGAAGCGAGATTCGCCATT
Found at i:831918 original size:49 final size:48
Alignment explanation
Indices: 831658--831920 Score: 190
Period size: 49 Copynumber: 5.3 Consensus size: 48
831648 AAGATCCACT
831658 GTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCC
1 GTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGG-AGTGAGATTCGCC
* * * * * * * *
831707 GTTGTAGCTTTAAT-TTGTTCCACTGCACA-GCCTGTGAGTAAGATTCACC
1 GTTGTAGCTTCAATCTT-TT-AATTGCA-ATGTCGGGGAGTGAGATTCGCC
* * *
831756 GTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCC
1 GTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGG-AGTGAGATTCGCC
* ** ** * ** * *
831805 ATTGTAGCTTCAATCTGTTCCACGGC-ATCGTATGGAAAAGTAAGGTTCGCC
1 GTTGTAGCTTCAATCT-TTTAATTGCAAT-GT-CGG-GGAGTGAGATTCGCC
* * *
831856 GTTGTGGCCTCAATCTTTTAATTGCAATGTCAGGGGAGTGAGATTAGCC
1 GTTGTAGCTTCAATCTTTTAATTGCAATGTC-GGGGAGTGAGATTCGCC
*
831905 GTCGTAGCTTCAATCT
1 GTTGTAGCTTCAATCT
831921 GTTTCACTAC
Statistics
Matches: 154, Mismatches: 48, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
47 1 0.01
48 11 0.07
49 87 0.56
50 27 0.18
51 28 0.18
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (48 bp):
GTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGGAGTGAGATTCGCC
Found at i:833422 original size:8 final size:8
Alignment explanation
Indices: 833409--833439 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
833399 TTTTACTTTC
833409 CATTTTTT
1 CATTTTTT
833417 CA-TTTTT
1 CATTTTTT
833424 CATTTTTT
1 CATTTTTT
833432 CATTTTTT
1 CATTTTTT
833440 TTGTTCGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (8 bp):
CATTTTTT
Found at i:833427 original size:15 final size:15
Alignment explanation
Indices: 833409--833438 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
833399 TTTTACTTTC
833409 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
833424 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
833439 TTTGTTCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:834263 original size:10 final size:9
Alignment explanation
Indices: 834243--834297 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
834233 TTGGCATCTC
834243 TTTT-TTCT
1 TTTTATTCT
834251 TTTT-TTCCT
1 TTTTATT-CT
834260 TTTTATTC-
1 TTTTATTCT
834268 -TTT-TTCT
1 TTTTATTCT
834275 TTTTATTCTT
1 TTTTATTC-T
834285 TTTTATTCT
1 TTTTATTCT
834294 TTTT
1 TTTT
834298 TCTTTCTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.07
7 3 0.07
8 9 0.22
9 15 0.37
10 11 0.27
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTATTCT
Found at i:834269 original size:25 final size:26
Alignment explanation
Indices: 834241--834302 Score: 101
Period size: 25 Copynumber: 2.5 Consensus size: 26
834231 CCTTGGCATC
834241 TCTTTTTTCTTTTT-TTCCTTTTTAT
1 TCTTTTTTCTTTTTATTCCTTTTTAT
*
834266 TC-TTTTTCTTTTTATTCTTTTTTAT
1 TCTTTTTTCTTTTTATTCCTTTTTAT
834291 TCTTTTTTCTTT
1 TCTTTTTTCTTT
834303 CTAAATCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 11 0.32
25 14 0.41
26 9 0.26
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.81
Consensus pattern (26 bp):
TCTTTTTTCTTTTTATTCCTTTTTAT
Found at i:834287 original size:15 final size:16
Alignment explanation
Indices: 834252--834287 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
834242 CTTTTTTCTT
834252 TTTTTCCTTTTTATTC
1 TTTTTCCTTTTTATTC
834268 TTTTT-CTTTTTATTC
1 TTTTTCCTTTTTATTC
834283 TTTTT
1 TTTTT
834288 TATTCTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCCTTTTTATTC
Found at i:834298 original size:10 final size:10
Alignment explanation
Indices: 834274--834298 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
834264 ATTCTTTTTC
834274 TTTTTATTCT
1 TTTTTATTCT
834284 TTTTTATTCT
1 TTTTTATTCT
834294 TTTTT
1 TTTTT
834299 CTTTCTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTCT
Found at i:838774 original size:2 final size:2
Alignment explanation
Indices: 838715--838755 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
838705 AAAATTAAGA
* * *
838715 AT AT GT AT AT AC AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
838756 AGGTGTAGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:843110 original size:30 final size:29
Alignment explanation
Indices: 843074--843158 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 29
843064 ATCCGTATTT
*
843074 ATGGAAAATCAAATATATGGTTATCAAATA
1 ATGGAAAATCAAAGATATGG-TATCAAATA
*
843104 ATGGAAAGTCAAAGATATAGGTATCAAATA
1 ATGGAAAATCAAAGATAT-GGTATCAAATA
* *
843134 TTAGAAAATCAAAGATATGGGTATC
1 ATGGAAAATCAAAGATAT-GGTATC
843159 GAGATATTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (29 bp):
ATGGAAAATCAAAGATATGGTATCAAATA
Found at i:849044 original size:81 final size:81
Alignment explanation
Indices: 848950--849121 Score: 344
Period size: 81 Copynumber: 2.1 Consensus size: 81
848940 CGATGATAAA
848950 GATATGGCAACTTAGGCTAATTTTGGTAACTAATCTTAGAAGATAGAGAGAATCATATCTTGTAA
1 GATATGGCAACTTAGGCTAATTTTGGTAACTAATCTTAGAAGATAGAGAGAATCATATCTTGTAA
849015 AGATTAGATTAGATTT
66 AGATTAGATTAGATTT
849031 GATATGGCAACTTAGGCTAATTTTGGTAACTAATCTTAGAAGATAGAGAGAATCATATCTTGTAA
1 GATATGGCAACTTAGGCTAATTTTGGTAACTAATCTTAGAAGATAGAGAGAATCATATCTTGTAA
849096 AGATTAGATTAGATTT
66 AGATTAGATTAGATTT
849112 GATATGGCAA
1 GATATGGCAA
849122 ATCTTGTAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (81 bp):
GATATGGCAACTTAGGCTAATTTTGGTAACTAATCTTAGAAGATAGAGAGAATCATATCTTGTAA
AGATTAGATTAGATTT
Found at i:854121 original size:30 final size:30
Alignment explanation
Indices: 854048--854123 Score: 75
Period size: 30 Copynumber: 2.4 Consensus size: 30
854038 AATTAATTGT
854048 TTTTAATTATTCTTTTATTTTAAAAATATATA
1 TTTTAA-TATT-TTTTATTTTAAAAATATATA
* *
854080 TTTCTATTATTTTTTA-TTT-AAAATGTAATAA
1 TTT-TAATATTTTTTATTTTAAAAATAT-AT-A
854111 TTTTAATATTTTT
1 TTTTAATATTTTT
854124 AAAAAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 6 0.16
30 14 0.37
31 9 0.24
32 7 0.18
33 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTAATATTTTTTATTTTAAAAATATATA
Found at i:854611 original size:18 final size:18
Alignment explanation
Indices: 854569--854619 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
854559 TCCAATGATT
*
854569 ATTTTATGT-AAAGATATA
1 ATTTTA-GTAAAAGAAATA
854587 ATATTTAGTAAAAGAAATA
1 AT-TTTAGTAAAAGAAATA
854606 ATTTTA-TAAAAGAA
1 ATTTTAGTAAAAGAA
854620 TACAACCGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.27
18 8 0.27
19 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (18 bp):
ATTTTAGTAAAAGAAATA
Found at i:863080 original size:22 final size:20
Alignment explanation
Indices: 863043--863087 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
863033 TGTTTAAATC
* *
863043 AATTTAAAGCATGATTTGTTTA
1 AATTTAAAGAAAGA-TTG-TTA
863065 AATTTAAAGAAAGATTGTTA
1 AATTTAAAGAAAGATTGTTA
863085 AAT
1 AAT
863088 CAATTTTCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (20 bp):
AATTTAAAGAAAGATTGTTA
Done.