Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold267
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: 2306539
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:700387 original size:26 final size:26
Alignment explanation
Indices: 700300--700387 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
700290 ATGTGGGCTT
*
700300 TGAAAGGCGTCTTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** *
700326 TGAAAGGTG-CCACCAACTTGTGTAGG-C
1 TGAAAGGCGTCCTGC-TCTT-TG-AGGAC
700353 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
700381 TGAAAGG
1 TGAAAGG
700388 TGCCACCAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
25 2 0.04
26 18 0.39
27 6 0.13
28 6 0.13
29 11 0.24
30 3 0.07
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:700627 original size:120 final size:119
Alignment explanation
Indices: 700259--700887 Score: 755
Period size: 120 Copynumber: 5.4 Consensus size: 119
700249 GTGTATCTTA
* * ** *
700259 CTCTTAGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT----GA-AAGGCGTCTTGCTCTT
1 CTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTT
* *
700319 TGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT----G-AAAGGCGTCCTG
65 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* * *
700369 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTT---A-AG-AGGTGTCCTGCTCTT
1 CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTT
*
700429 TGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
65 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
700479 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTGCTCT
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCCTGCTCT
* *
700544 TTGAGGACT-AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* * * * *
700599 CTCTTTGACGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCT
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCCTGCTCT
*
700664 TTGAGGACTG-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTG
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTG
* * * *
700720 CTCTGTGAGGACTAGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTGCTCT
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCCTGCTCT
** *
700785 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTA
64 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
**
700841 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
700888 CGTCCTGCTT
Statistics
Matches: 459, Mismatches: 39, Indels: 33
0.86 0.07 0.06
Matches are distributed among these distances:
110 126 0.27
111 8 0.02
114 4 0.01
115 24 0.05
116 22 0.05
119 3 0.01
120 138 0.30
121 110 0.24
122 24 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (119 bp):
CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
Found at i:700667 original size:61 final size:59
Alignment explanation
Indices: 700259--700887 Score: 733
Period size: 55 Copynumber: 10.8 Consensus size: 59
700249 GTGTATCTTA
* * ** * *
700259 CTCTTAGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT----G-AAAGGCGTCTTG
1 CTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* * *
700314 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT----G-AAAGGCGTCCTG
1 CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* * **
700369 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGAGCTTT--AAG---AGGTGTCCTG
1 CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
700424 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCATCCTG
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* *
700479 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCGTCCTG
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTG
* * *
700540 CTCTTTGAGGACT-AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
1 CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
* * *
700599 CTCTTTGACGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTG
** *
700660 CTCTTTGAGGACTGAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGGCATCCTG
1 CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCATCCTG
* *
700720 CTCTGTGAGGACTAGAAAATGCCACCAACTTGTGTGGGATTTAAAAGGAAAAGGCATCCTG
1 CTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCATCCTG
*
700781 CTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTA
1 CTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
**
700841 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
700888 CGTCCTGCTT
Statistics
Matches: 513, Mismatches: 42, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
53 1 0.00
55 181 0.35
56 4 0.01
57 1 0.00
59 62 0.12
60 131 0.26
61 133 0.26
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (59 bp):
CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
Found at i:705606 original size:33 final size:33
Alignment explanation
Indices: 705564--705626 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
705554 TAGCCAAACT
* *
705564 TGTATCGATACAC-CAAAGTATGTATCGATATAA
1 TGTATCGATACACAAAAAAT-TGTATCGATATAA
705597 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
705627 CATTGGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATATAA
Found at i:711812 original size:13 final size:13
Alignment explanation
Indices: 711794--711832 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
711784 ACATTTTTCT
*
711794 TTGTATTGATACA
1 TTGTATCGATACA
711807 TTGTATCGATACA
1 TTGTATCGATACA
*
711820 CTGTATCGATACA
1 TTGTATCGATACA
711833 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:711996 original size:20 final size:20
Alignment explanation
Indices: 711953--711998 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
711943 AAATCTTTTG
711953 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
711974 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
711994 CAAAA
1 CAAAA
711999 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:714420 original size:13 final size:13
Alignment explanation
Indices: 714402--714427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
714392 ACACCAAATT
714402 ATGTATCGATACA
1 ATGTATCGATACA
714415 ATGTATCGATACA
1 ATGTATCGATACA
714428 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:714425 original size:33 final size:33
Alignment explanation
Indices: 714383--714447 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
714373 TAGCCAAACT
* *
714383 TGTATCGATACAC-CAAATTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
714416 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
714448 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:717394 original size:28 final size:28
Alignment explanation
Indices: 717347--717400 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
717337 ATATTTTGGA
* * *
717347 GATAATAACGGGGTTGGAGTGTCCCCTT
1 GATAATAACGGGGCTAGAGTATCCCCTT
717375 GATAATAACGGGGCTAGAGTATCCCC
1 GATAATAACGGGGCTAGAGTATCCCC
717401 GGTTGTGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (28 bp):
GATAATAACGGGGCTAGAGTATCCCCTT
Found at i:717750 original size:52 final size:51
Alignment explanation
Indices: 717576--717797 Score: 212
Period size: 52 Copynumber: 4.3 Consensus size: 51
717566 GAAATAACGA
* * * **
717576 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTCGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTT-GGAAATAAAACCGG
* * * * * * * *
717628 AGTTGCAGTATCCCCGACTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGA-TTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * *
717680 GGTTAGG-GTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTT-GGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * *
717732 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
717783 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
717798 TCGGAGGTAA
Statistics
Matches: 138, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
51 41 0.30
52 80 0.58
53 17 0.12
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:717787 original size:51 final size:52
Alignment explanation
Indices: 717662--717797 Score: 159
Period size: 51 Copynumber: 2.6 Consensus size: 52
717652 AAAATTGGTG
* * * * * *
717662 TTTTGAAAATAAAATCGGGGTTAGG-GTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACCGGGGTT-GGAGTATCCCCGATTATGGAAAAATCAATA
* * *
717714 TTTTAGCAATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATA
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATA
*
717765 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCC
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
717798 TCGGAGGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
51 40 0.56
52 31 0.44
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (52 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATA
Found at i:720360 original size:34 final size:33
Alignment explanation
Indices: 720314--720380 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
720304 AACTTCCTAG
* *
720314 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCAATACAAAGAA-AAATGTATCGATACA
*
720348 ATGTATCAATACACAGAAAAATGTATCGATACA
1 ATGTATCAATACAAAGAAAAATGTATCGATACA
720381 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (33 bp):
ATGTATCAATACAAAGAAAAATGTATCGATACA
Found at i:720422 original size:13 final size:13
Alignment explanation
Indices: 720404--720455 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
720394 AGCTTCCTAA
720404 CGATACATTGTAT
1 CGATACATTGTAT
720417 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
720436 CGATACATTGTAT
1 CGATACATTGTAT
720449 CGATACA
1 CGATACA
720456 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:720436 original size:19 final size:19
Alignment explanation
Indices: 720412--720497 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
720402 AACGATACAT
720412 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
720431 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
720444 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
* ** *
720463 TGTATTGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
720484 TGTATCGATACAAA
1 TGTATCGATACAAA
720498 TTATTGGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
13 11 0.21
14 1 0.02
16 2 0.04
18 1 0.02
19 22 0.42
20 3 0.06
21 12 0.23
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:720445 original size:32 final size:32
Alignment explanation
Indices: 720404--720476 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
720394 AGCTTCCTAA
720404 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
720436 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
720468 TGATACATT
1 CGATACATT
720477 TACTGAATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:721150 original size:40 final size:42
Alignment explanation
Indices: 721106--721202 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
721096 CCACTTTTCA
*
721106 AGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCTTGCTCCTTG
* * * *
721146 AGGACCAAGGAAGAGAAGAAAAGGAAAGTGTCTTGCTTCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCCTTG
*
721188 AGAACAAAGTGAAAA
1 AGGACAAAG-GAAAA
721203 AGAGTATGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
40 13 0.29
41 4 0.09
42 24 0.53
43 4 0.09
ACGTcount: A:0.43, C:0.11, G:0.28, T:0.18
Consensus pattern (42 bp):
AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCTTGCTCCTTG
Found at i:721732 original size:60 final size:58
Alignment explanation
Indices: 721294--722239 Score: 927
Period size: 55 Copynumber: 16.3 Consensus size: 58
721284 AATAAAGTGT
* * *
721294 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT---GA-AAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGC
*
721349 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT---GA-AAGGC
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGC
*
721404 ATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AG--GTG-
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG-GC
* ** *
721460 -TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---GA-AAGGT
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGC
* ** * * * * * *
721514 GTCCAACTCTTTGGGGACTGAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAGGC
* *
721575 ATTCTGCTTTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAG--GTG-
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG-GC
* **
721631 -TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGC
* * * * *
721691 GTCCTGCTGTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGC
721750 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAG--GTG-
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG-GC
**
721806 -TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGC
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGC
* * * * *
721866 GTCCTGCTATTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGC
721925 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAG--GTG-
1 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAG-GC
** *
721981 -TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGT
1 ATCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGC
* * * *
722041 GTCCTGCT-TTTCGAGAACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTT-GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGAGAAGGC
** * *
722100 ATCCTGCTCTTTG-GAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAG-GACT-GAAGGTGCCACCAACTTGTGTGGGCTTT--AAAGAGAAGGC
722161 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AGGAACAGGC
1 ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGA-G-A-AGGC
722221 ATCCTGCTCTTTGAGGACT
1 ATCCTGCTCTTTGAGGACT
722240 AAAAAGCGGA
Statistics
Matches: 755, Mismatches: 79, Indels: 109
0.80 0.08 0.12
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 303 0.40
56 5 0.01
57 12 0.02
58 25 0.03
59 69 0.09
60 220 0.29
61 116 0.15
62 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (58 bp):
ATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGC
Found at i:721800 original size:175 final size:174
Alignment explanation
Indices: 721295--722239 Score: 1309
Period size: 175 Copynumber: 5.4 Consensus size: 174
721285 ATAAAGTGTA
* * *
721295 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTT-----GAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCGTCCT
* * * *
721354 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTT----G-AAAGGCATCTTGCTCT
65 GCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCT
*
721414 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
129 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * **
721460 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GAAAGGTGTCCAA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCGTCCTG
* * * * *
721520 CTCTTTGGGGACTGAAAAGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAAGCATTCTGCTTT
66 CTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCCTGCTCT
721585 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
129 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
721631 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCGTCCT
*
721696 GCTGTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTT
65 GCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTT
721761 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
721806 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCGTCCT
*
721871 GCTATTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTT
65 GCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTT
721936 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
721981 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGA-AAGGCGTCCT
* *
722046 GCT-TTTCGAGAACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTGCTCT
65 GCTCTTT-GAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCT
* * **
722110 TTG-GAGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
129 TTGAG-GACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT---AAG---AGGTG
** * *
722162 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACAGGCATCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAA-AGGCGTCCT
722226 GCTCTTTGAGGACT
65 GCTCTTTGAGGACT
722240 AAAAAGCGGA
Statistics
Matches: 711, Mismatches: 45, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
165 85 0.12
166 4 0.01
170 1 0.00
171 102 0.14
174 4 0.01
175 389 0.55
176 31 0.04
177 20 0.03
178 3 0.00
179 1 0.00
180 48 0.07
181 23 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (174 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGGCGTCCTG
CTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTT
GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:723219 original size:14 final size:14
Alignment explanation
Indices: 723197--723233 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
723187 CTTAAGCAGA
723197 TTTTTCTTTT-TTT
1 TTTTTCTTTTGTTT
723210 TTTTTGCTTTTGTTT
1 TTTTT-CTTTTGTTT
723225 TTTTT-TTTT
1 TTTTTCTTTT
723234 AGAAAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 5 0.23
15 8 0.36
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTGTTT
Found at i:735791 original size:20 final size:22
Alignment explanation
Indices: 735761--735803 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
735751 TGATTTCCTA
*
735761 TGTGAATGTATCGCTACA-ATT
1 TGTGAATGTATCGATACATATT
735782 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
735803 T
1 T
735804 CAAAATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:735881 original size:19 final size:20
Alignment explanation
Indices: 735838--735889 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
735828 TACAAGCCAA
*
735838 TGTATCGATACAATTTTTGG
1 TGTATCGATACAATCTTTGG
735858 TGTATCGATAC-ATACTTT-G
1 TGTATCGATACAAT-CTTTGG
735877 TGTATCGATACAA
1 TGTATCGATACAA
735890 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATCTTTGG
Found at i:736789 original size:22 final size:21
Alignment explanation
Indices: 736758--736801 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 21
736748 TTATAGATCA
736758 AAAAATCAAAGTACAATGCAAAT
1 AAAAATCAAAGT-CAA-GCAAAT
736781 AAAAA-CAAAGTCAAGCAAAT
1 AAAAATCAAAGTCAAGCAAAT
736801 A
1 A
736802 CATTAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 3 0.14
22 6 0.29
23 5 0.24
ACGTcount: A:0.64, C:0.14, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAATCAAAGTCAAGCAAAT
Found at i:737968 original size:21 final size:20
Alignment explanation
Indices: 737939--737981 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
737929 GGCTAGTGTG
*
737939 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
737960 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
737980 GG
1 GG
737982 TGGGTGCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:738440 original size:13 final size:13
Alignment explanation
Indices: 738422--738460 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
738412 ATAATCCCCC
*
738422 TGTATCGATACAG
1 TGTATCGATACAA
738435 TGTATCGATACAA
1 TGTATCGATACAA
738448 TGTATCGATACAA
1 TGTATCGATACAA
738461 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:742358 original size:22 final size:20
Alignment explanation
Indices: 742309--742360 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
742299 ATCATGCAAG
742309 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCTAAT
**
742330 TCATTATTTTCATTAGCTAAAT
1 TTTTTATTTTC-TTAGCT-AAT
742352 TTTTTATTT
1 TTTTTATTT
742361 CAACTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 10 0.40
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCTAAT
Found at i:742958 original size:12 final size:12
Alignment explanation
Indices: 742943--742976 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
742933 TCCGAGTCAC
742943 CATCTTCATCAA
1 CATCTTCATCAA
*
742955 CATCTTCATCAT
1 CATCTTCATCAA
*
742967 CTTCTTCATC
1 CATCTTCATC
742977 CTTGATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCTTCATCAA
Found at i:744534 original size:21 final size:21
Alignment explanation
Indices: 744491--744536 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
744481 TGATTTCCCA
*
744491 TGTGAATGTATCGATACAATT
1 TGTGAATGTATCAATACAATT
744512 TGTG-ATGTATCAATAC-ATT
1 TGTGAATGTATCAATACAATT
*
744531 TTTGAA
1 TGTGAA
744537 AATGTAGCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 12 0.55
21 4 0.18
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (21 bp):
TGTGAATGTATCAATACAATT
Found at i:744556 original size:10 final size:10
Alignment explanation
Indices: 744541--744575 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
744531 TTTGAAAATG
744541 TAGCCGTTAC
1 TAGCCGTTAC
744551 TAGCCGTTAC
1 TAGCCGTTAC
744561 TAGCCGTTAC
1 TAGCCGTTAC
*
744571 AAGCC
1 TAGCC
744576 AATGTATCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:744616 original size:13 final size:13
Alignment explanation
Indices: 744598--744623 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
744588 CAATTTTTGG
744598 TGTATCGATACAT
1 TGTATCGATACAT
744611 TGTATCGATACAT
1 TGTATCGATACAT
744624 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:744620 original size:33 final size:32
Alignment explanation
Indices: 744578--744641 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
744568 TACAAGCCAA
*
744578 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTT-GTGTATCGATACAT
744611 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
744642 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:744638 original size:32 final size:33
Alignment explanation
Indices: 744578--744641 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
744568 TACAAGCCAA
*
744578 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
744611 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
744642 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:745840 original size:52 final size:51
Alignment explanation
Indices: 745770--745990 Score: 228
Period size: 51 Copynumber: 4.3 Consensus size: 51
745760 GAAATAACGA
* * * * *
745770 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTAGAAATAAAACCGG
* * * * *
745822 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTAAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTAGAAATAAAACCGG
* * *
745874 GGTTGG-GTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTAGAAATAAAACCGG
* *** * * *
745925 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
745976 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
745991 TCGGAGGTAA
Statistics
Matches: 140, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
51 81 0.58
52 49 0.35
53 10 0.07
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGG
Found at i:745984 original size:262 final size:264
Alignment explanation
Indices: 745660--746157 Score: 781
Period size: 262 Copynumber: 1.9 Consensus size: 264
745650 TCGGAAATAA
*
745660 CGGGGTTGGAGTATCCCCAAATATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAAATATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
745725 CCCCTCGGAGGTAACGCGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCAATG-AATAACGAGGTTGGAGTATCCCCGATTG
745790 TG-AAAAATTGGTG-TTTTTGGAAATAAAATCAG-AGTTGGAGTATCCCCGATTA-AAGGAAAAT
130 TGAAAAAATTGGTGTTTTTTGGAAATAAAATC-GTAGTTGGAGTATCCCCGATTATAA-GAAAAT
* * *
745851 TGGCGTTTTAAAAATAAAACCGGGGTTGGG-TATCCCCGATTGTGGAAAAATTAGTGTTTTAGCA
193 TAGCGTCTTAAAAATAAAACCAGGGTTGGGATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCA
745915 ATAAAAC
258 ATAAAAC
* *
745922 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAAATATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
745987 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCAATGAATAACGAGGTTGGAGTATCCCCGATTGT
* *
746052 GAAAAAATTGGTGTTTTTTTGGAAGTAAAATCGTAGTTGGAGTATCCCCGATTATTAGAAAATTA
131 GAAAAAATTGGTG-TTTTTTGGAAATAAAATCGTAGTTGGAGTATCCCCGATTATAAGAAAATTA
* * *
746117 GTGTCTTGAAAATAAAATCAGGGTTGGGATATCCCCGATTG
195 GCGTCTTAAAAATAAAACCAGGGTTGGGATATCCCCGATTG
746158 CGGAGAATTG
Statistics
Matches: 214, Mismatches: 16, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
261 27 0.13
262 107 0.50
263 1 0.00
264 66 0.31
265 13 0.06
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.28
Consensus pattern (264 bp):
CGGGGTTGGAGTATCCCCAAATATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCAATGAATAACGAGGTTGGAGTATCCCCGATTGT
GAAAAAATTGGTGTTTTTTGGAAATAAAATCGTAGTTGGAGTATCCCCGATTATAAGAAAATTAG
CGTCTTAAAAATAAAACCAGGGTTGGGATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATA
AAAC
Found at i:745987 original size:103 final size:104
Alignment explanation
Indices: 745770--745990 Score: 252
Period size: 103 Copynumber: 2.1 Consensus size: 104
745760 GAAATAACGA
* * * *
745770 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATCC
*** *
745835 CCGATTAAAGGAAAATTGGCGTTTTAAAAATAAAACCGG
66 CCGATTAAAGGAAAATCAACATTTTAAAAATAAAACCGG
* * *
745874 GGTTGG-GTATCCCCGATTGTGGAAAAATTAGTG-TTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATC
* * ** *
745937 CCCGATT--ATGAGAAATCAATATTTTGGAAATAAAGCCGG
65 CCCGATTAAAGGA-AAATCAACATTTTAAAAATAAAACCGG
745976 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
745991 TCGGAGGTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
101 3 0.03
102 25 0.26
103 53 0.54
104 17 0.17
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (104 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAACCAGAGTTGGAGTATCC
CCGATTAAAGGAAAATCAACATTTTAAAAATAAAACCGG
Found at i:746036 original size:27 final size:28
Alignment explanation
Indices: 745973--746048 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
745963 GAAATAAAGC
***
745973 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
* *
746001 CGAGGTTGGAGTATCCCCGATGA-TTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
746028 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
746049 TGTGAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAGGTAA
Found at i:748611 original size:19 final size:20
Alignment explanation
Indices: 748587--748640 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
748577 AGCGATACAT
*
748587 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
748606 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
748627 TGTATCGATACAAA
1 TGTATCGATACAAA
748641 TTATTGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:748700 original size:21 final size:21
Alignment explanation
Indices: 748676--748752 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
748666 ATTGGGACCT
* *
748676 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
748697 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
748718 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
*
748739 TATATCGATACATT
1 TGTATCGATACATT
748753 TGGATAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 47 0.94
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:749007 original size:49 final size:50
Alignment explanation
Indices: 748932--749037 Score: 169
Period size: 49 Copynumber: 2.1 Consensus size: 50
748922 GTGTCTACAA
*
748932 ATACATTTAGGGTTTTACCCAGATGTATCGATACATTGTTCATTGTATCG
1 ATACATTTAGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCG
* * *
748982 ATACATTTTGGG-TTTACCCAGATGTATCGATACATTTTTCAATGTATTG
1 ATACATTTAGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCG
749031 ATACATT
1 ATACATT
749038 CAGGCATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 41 0.79
50 11 0.21
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (50 bp):
ATACATTTAGGGTTTTACCCAGATGTATCGATACATTGTTCAATGTATCG
Found at i:751090 original size:21 final size:21
Alignment explanation
Indices: 751064--751140 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
751054 AAATTATCCA
751064 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
751085 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
751106 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
751127 AATGTATCGATACA
1 AATGTATCGATACA
751141 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:751215 original size:13 final size:13
Alignment explanation
Indices: 751197--751221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
751187 GCACATGTTT
751197 TGTATCGATACAA
1 TGTATCGATACAA
751210 TGTATCGATACA
1 TGTATCGATACA
751222 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:751232 original size:32 final size:32
Alignment explanation
Indices: 751178--751240 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
751168 TTCAACAATT
* * *
751178 TGTATCGATGCACATGTTTTGTATCGATACAA
1 TGTATCGATACACAAGTATTGTATCGATACAA
*
751210 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACACAAGTATTGTATCGATACA
751241 TAATTAGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACACAAGTATTGTATCGATACAA
Found at i:753733 original size:51 final size:53
Alignment explanation
Indices: 753669--753799 Score: 178
Period size: 51 Copynumber: 2.5 Consensus size: 53
753659 AGTTTCTCAA
* * * *
753669 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
753720 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
753774 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
753800 CCCGTTATTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
50 2 0.03
51 34 0.49
53 9 0.13
54 21 0.30
55 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:753808 original size:51 final size:49
Alignment explanation
Indices: 753666--753811 Score: 152
Period size: 51 Copynumber: 2.9 Consensus size: 49
753656 TTGAGTTTCT
* * *
753666 CAATTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTCTTCACAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAACAC
* *
753717 TAATT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTCTTC-ACAATCGGGGATACTCCAACTCCG--TTTATTTCC--AAAACAC
*
753770 CAATTTCTTCACAATCGGGGATACTCCAACCCCG-TTATTTCC
1 CAA-TTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCC
753812 GAGGCGATAC
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
50 2 0.02
51 44 0.54
53 9 0.11
54 24 0.29
55 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (49 bp):
CAATTCTTCACAATCGGGGATACTCCAACTCCGTTTATTTCCAAAACAC
Found at i:753931 original size:52 final size:50
Alignment explanation
Indices: 753817--754035 Score: 217
Period size: 52 Copynumber: 4.2 Consensus size: 50
753807 TTTCCGAGGC
* * * *
753817 GATACTCCAACCCCGACTTTATTTCTAAAATATTC-ATTTTTCATAATCGGG
1 GATACTCCAACCCTGACTTTA-TTCTAAAACA-CCAATTTTTCACAATCGGG
** *
753868 GATACTCCAACCCTGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGG
1 GATACTCCAACCCTGACTTTATT-CTAAAACACCAATTTTT-CACAATCGGG
* **
753920 GATACTCCAACCCT-ACTTTATTTTCAAAACACCAATTTTTCGTTTAATCGGG
1 GATACTCCAACCCTGACTTTATTCT-AAAACACCAATTTTTC--ACAATCGGG
* * * *
753972 GATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAG
1 GATACTCCAACCCTGACTTTA-TT-CTAAAACACCAATTTTTCACAATCGGG
754024 GATACTCCAACC
1 GATACTCCAACC
754036 TCGTTATTTC
Statistics
Matches: 138, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
50 4 0.03
51 51 0.37
52 60 0.43
53 5 0.04
54 18 0.13
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.34
Consensus pattern (50 bp):
GATACTCCAACCCTGACTTTATTCTAAAACACCAATTTTTCACAATCGGG
Found at i:755530 original size:131 final size:129
Alignment explanation
Indices: 755292--755617 Score: 465
Period size: 131 Copynumber: 2.5 Consensus size: 129
755282 ATTTTTCATC
* * *
755292 TCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCAGGGATACTCCA
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCATAATCAGGGATACTCTA
* * * *
755357 ATCCCTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCATAA
66 ATCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAA
* * * *
755421 TCGGGAATACTCCAACCCCAATTTTATTTTTGAAACACCAATATTTTCATAATCGGGGATACTCT
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAAT-TTTTCATAATCAGGGATACTCT
* * *
755486 AATCCTATTATTTCCGAGGGGATACTCTAACCTCGATTTTATTTCTAAAATATTGATTTCTCACA
65 AATCC-ATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACA
755551 A
129 A
* * *
755552 TCGGGGATACTCCAACCGCTATTTTATTTCTAAAACACCAATTTTTCACT-ATTAGGGATACTCT
1 TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCA-TAATCAGGGATACTCT
755616 AA
65 AA
755618 CCCCGGCCTT
Statistics
Matches: 173, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
129 37 0.21
130 45 0.26
131 91 0.53
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (129 bp):
TCGGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCATAATCAGGGATACTCTA
ATCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAA
Found at i:755610 original size:51 final size:51
Alignment explanation
Indices: 755504--755665 Score: 146
Period size: 51 Copynumber: 3.2 Consensus size: 51
755494 TATTTCCGAG
* * *** *
755504 GGGATACTCTAACCTCGATTTTATTTCTAAAATATTGATTTCTCACAATCG
1 GGGATACTCTAACCGCGATTTTATTTCTAAAACACCAATTTCTCACAATCA
* * * * *
755555 GGGATACTCCAACCGCTATTTTATTTCTAAAACACCAATTTTTCACTATTA
1 GGGATACTCTAACCGCGATTTTATTTCTAAAACACCAATTTCTCACAATCA
* *** * * *
755606 GGGATACTCTAACCCCGGCCTTATTTCTAAAGCATCAACTTTC-CACAATCG
1 GGGATACTCTAACCGCGATTTTATTTCTAAAACACCAA-TTTCTCACAATCA
755657 GGGATACTC
1 GGGATACTC
755666 CTACCCTGTT
Statistics
Matches: 87, Mismatches: 23, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
51 84 0.97
52 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGATACTCTAACCGCGATTTTATTTCTAAAACACCAATTTCTCACAATCA
Found at i:758165 original size:49 final size:50
Alignment explanation
Indices: 758099--758232 Score: 126
Period size: 52 Copynumber: 2.6 Consensus size: 50
758089 TTTGAAAAGA
* * *
758099 AAATGTATCGATTCATTTTTATCGTATCGATACATTCTGGG-TTTGATCT
1 AAATGTATCAATACATTTTTATCGTATCGATACATTCTGGGTTTTGACCT
** * * *
758148 AAATGTATCAATACATTTTTCATTATATCAATATATTTTGGGTTTTTGACCT
1 AAATGTATCAATACATTTTT-ATCGTATCGATACATTCTGGG-TTTTGACCT
* * * *
758200 AAATGTATCTATATATTCTTTAACGTATTGATA
1 AAATGTATCAATACATT-TTTATCGTATCGATA
758233 TATCTAGTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
49 18 0.27
50 16 0.24
52 29 0.44
53 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (50 bp):
AAATGTATCAATACATTTTTATCGTATCGATACATTCTGGGTTTTGACCT
Found at i:762034 original size:54 final size:54
Alignment explanation
Indices: 761968--762102 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
761958 TTGGAGATGG
*
761968 TGGGGTTGGAGTATCCCTAGAGATGAAGAATTTGATATTGTAGAAGTAAAAAAA
1 TGGGGTTAGAGTATCCCTAGAGATGAAGAATTTGATATTGTAGAAGTAAAAAAA
* * *
762022 TGGGGTTAGAGTATCCCTAAAGATAAAGAATTTGGTATTGTAGAAGTAAAAAAA
1 TGGGGTTAGAGTATCCCTAGAGATGAAGAATTTGATATTGTAGAAGTAAAAAAA
**
762076 AAGGGTTAGAGTATCCTCTCAGAGATG
1 TGGGGTTAGAGTATCC-CT-AGAGATG
762103 GGGGTTGGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 64 0.90
55 2 0.03
56 5 0.07
ACGTcount: A:0.39, C:0.07, G:0.27, T:0.27
Consensus pattern (54 bp):
TGGGGTTAGAGTATCCCTAGAGATGAAGAATTTGATATTGTAGAAGTAAAAAAA
Found at i:762114 original size:26 final size:24
Alignment explanation
Indices: 762078--762126 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
762068 TAAAAAAAAA
762078 GGGTTAGAGTATCCTCTCAGAGATGG
1 GGGTTAGAGTATCC-CTCA-AGATGG
*
762104 GGGTTGGAGTATCCCTCAAGATG
1 GGGTTAGAGTATCCCTCAAGATG
762127 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 4 0.18
26 13 0.59
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (24 bp):
GGGTTAGAGTATCCCTCAAGATGG
Found at i:783124 original size:15 final size:16
Alignment explanation
Indices: 783093--783125 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
783083 ACATATAATA
783093 ATAAATATTAATATTT
1 ATAAATATTAATATTT
*
783109 ATAAAT-TTATTATTT
1 ATAAATATTAATATTT
783124 AT
1 AT
783126 TTATTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAAATATTAATATTT
Found at i:784858 original size:95 final size:94
Alignment explanation
Indices: 784704--784934 Score: 320
Period size: 95 Copynumber: 2.4 Consensus size: 94
784694 GGAATGTTCA
* * * *
784704 CTCGGAAGAATAGAGTTGGAATGTCCCCGACAATAATATTTTAGGCGAAAACAATAAGTATCTTG
1 CTCGGAAGAAT-GAGTTGGAATATCCCCGACAATGATATTTTAGGCAAAAACAAAAAGTATCTTG
* *
784769 ACAAGTTTAAAAACAAGGTTGGAGTATCCT
65 ACAAGTTTAAAAACAAGGTTGAAGTATCCC
* * * *
784799 CTCGGAAGAATGATATTGGAGTATCCCCAACAATGATATTTTAGGCAAAAATAAAAAGTATCTTG
1 CTCGGAAGAATGA-GTTGGAATATCCCCGACAATGATATTTTAGGCAAAAACAAAAAGTATCTTG
*
784864 ACAAGTTTAAAAACGAGGTTGAAGTATCCC
65 ACAAGTTTAAAAACAAGGTTGAAGTATCCC
*
784894 CTCGAAAGAATGAGGTTGGAATAT-CCCGACAATGATATTTT
1 CTCGGAAGAATGA-GTTGGAATATCCCCGACAATGATATTTT
784935 TGTATTTAAT
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
94 18 0.15
95 101 0.85
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (94 bp):
CTCGGAAGAATGAGTTGGAATATCCCCGACAATGATATTTTAGGCAAAAACAAAAAGTATCTTGA
CAAGTTTAAAAACAAGGTTGAAGTATCCC
Found at i:787132 original size:20 final size:20
Alignment explanation
Indices: 787107--787157 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
787097 AAATTCCCAG
787107 ATGTATCGATACAATG-ATCA
1 ATGTATCGATACAATGAAT-A
*
787127 ATGTATCGATACATTGAATA
1 ATGTATCGATACAATGAATA
787147 ATGTATCGATA
1 ATGTATCGATA
787158 TATTTCCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGAATA
Found at i:794875 original size:3 final size:3
Alignment explanation
Indices: 794862--794892 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
794852 GTTACTTAGC
794862 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
794893 AGGTCCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:796180 original size:2 final size:2
Alignment explanation
Indices: 796173--796200 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
796163 GGAAAACTTC
796173 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
796201 CAAGAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:798393 original size:21 final size:20
Alignment explanation
Indices: 798363--798406 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
798353 TTTAACATTT
798363 TATTAATA-TTAATACTATAA
1 TATTAATATTTAATA-TATAA
*
798383 TATTATATATTTATTATATAA
1 TATTA-ATATTTAATATATAA
798404 TAT
1 TAT
798407 AAATTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTAATATTTAATATATAA
Found at i:799227 original size:34 final size:35
Alignment explanation
Indices: 799186--799251 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
799176 CCTTACAACA
* *
799186 CTATCTTTT-CGAAGGCAAAAATAGAACCTCTTCT
1 CTATCTTTTACAAAAGCAAAAATAGAACCTCTTCT
* *
799220 CTATCTTTTACAAAAGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAAGCAAAAATAGAACCTCT
799252 CAATTACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
CTATCTTTTACAAAAGCAAAAATAGAACCTCTTCT
Found at i:799879 original size:146 final size:146
Alignment explanation
Indices: 799693--800001 Score: 467
Period size: 146 Copynumber: 2.1 Consensus size: 146
799683 TTGGGCTCAA
* * * *
799693 TGTATCGATACAATTCAATTATGAACAGTGGTAGGGTAGCTACTGCCAATTGCATCTATCGATAT
1 TGTATCGAAACAATTCAATTATGAACAGTGGTAGGGTAGCTACTGCCAAGTACATCTATCGATAC
** *
799758 ATTTTATGGTGTATCAATATAAAGAACATGTATCGATACAATATATCGATACTAAGCAATATGTA
66 ATTTTATGGTACATCAATAAAAAGAACATGTATCGATACAATATATCGATACTAAGCAATATGTA
*
799823 TCAATATATCTAGGTG
131 TCAATACATCTAGGTG
* *
799839 TGTATCGAAATAATTCAATTATGAACAGTGGTAGGGTAGCTATTGCCAAGTACATCTATCGATAC
1 TGTATCGAAACAATTCAATTATGAACAGTGGTAGGGTAGCTACTGCCAAGTACATCTATCGATAC
* *
799904 ATTTTATGGTACATCGATAAAAAGAACATGTATCGATACAATGTATCGATACTAAGCAATATGTA
66 ATTTTATGGTACATCAATAAAAAGAACATGTATCGATACAATATATCGATACTAAGCAATATGTA
* * *
799969 TCGATACATTTGGGTG
131 TCAATACATCTAGGTG
*
799985 TGTATCGATAC-ATTCAA
1 TGTATCGAAACAATTCAA
800002 GGGTTTTGAC
Statistics
Matches: 146, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
145 6 0.04
146 140 0.96
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (146 bp):
TGTATCGAAACAATTCAATTATGAACAGTGGTAGGGTAGCTACTGCCAAGTACATCTATCGATAC
ATTTTATGGTACATCAATAAAAAGAACATGTATCGATACAATATATCGATACTAAGCAATATGTA
TCAATACATCTAGGTG
Found at i:799949 original size:13 final size:13
Alignment explanation
Indices: 799931--799955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
799921 TAAAAAGAAC
799931 ATGTATCGATACA
1 ATGTATCGATACA
799944 ATGTATCGATAC
1 ATGTATCGATAC
799956 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:805773 original size:20 final size:20
Alignment explanation
Indices: 805750--805804 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
805740 ACACGCTCCT
805750 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
805770 ATGTATCGATACAATTCGTA
1 ATGTATCGATACAATTCATA
* *
805790 ATGTGTTGATACAAT
1 ATGTATCGATACAAT
805805 GCATTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:805992 original size:92 final size:92
Alignment explanation
Indices: 805852--806152 Score: 386
Period size: 92 Copynumber: 3.2 Consensus size: 92
805842 TACAATTTAC
* * * *
805852 CATGTATTGATACAATTCAATTATGAACAGTGGTAGGTAGCAACTGCCAATTGCATCTATCGATA
1 CATGTATCGATACAATGCAATTATGAATAGTGGTAGGTAGCTACTGCCAATTGCATCTATCGATA
*
805917 CATTTTATAGTGTATCAATACAAAGAA
66 CATTTTATGGTGTATCAATACAAAGAA
* *
805944 CATGTATCGATACAATGCAATTATGAATAATGGTAGGTAGCTACTGCCAATTGCATCTATTGATA
1 CATGTATCGATACAATGCAATTATGAATAGTGGTAGGTAGCTACTGCCAATTGCATCTATCGATA
*
806009 CATTTTATGGTGTATCGATACAAAGAA
66 CATTTTATGGTGTATCAATACAAAGAA
* * * *
806036 CATGTATCAATACATCTGAGTATGTAATTATGAATAGTGGTAGCGTAGCTACTGTCAATTGTATC
1 CATGTATCGAT--A-C--A--ATGCAATTATGAATAGTGGTAG-GTAGCTACTGCCAATTGCATC
* *
806101 TATCTATACATTTTATGGTGTATCAATACAAAAAA
58 TATCGATACATTTTATGGTGTATCAATACAAAGAA
* *
806136 TAAGTATCGATACAATG
1 CATGTATCGATACAATG
806153 TATCTATCTA
Statistics
Matches: 181, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
92 94 0.52
93 3 0.02
94 1 0.01
95 2 0.01
97 2 0.01
98 1 0.01
99 20 0.11
100 58 0.32
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (92 bp):
CATGTATCGATACAATGCAATTATGAATAGTGGTAGGTAGCTACTGCCAATTGCATCTATCGATA
CATTTTATGGTGTATCAATACAAAGAA
Found at i:806156 original size:56 final size:56
Alignment explanation
Indices: 806095--806212 Score: 236
Period size: 56 Copynumber: 2.1 Consensus size: 56
806085 TACTGTCAAT
806095 TGTATCTATCTATACATTTTATGGTGTATCAATACAAAAAATAAGTATCGATACAA
1 TGTATCTATCTATACATTTTATGGTGTATCAATACAAAAAATAAGTATCGATACAA
806151 TGTATCTATCTATACATTTTATGGTGTATCAATACAAAAAATAAGTATCGATACAA
1 TGTATCTATCTATACATTTTATGGTGTATCAATACAAAAAATAAGTATCGATACAA
806207 TGTATC
1 TGTATC
806213 GATACTAAGC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (56 bp):
TGTATCTATCTATACATTTTATGGTGTATCAATACAAAAAATAAGTATCGATACAA
Found at i:809813 original size:20 final size:20
Alignment explanation
Indices: 809783--809823 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
809773 CTTTGATTGA
809783 TCTTGTGTTTTGTG-TTAAT
1 TCTTGTGTTTTGTGCTTAAT
809802 TCTTGATGTTTTGTGCTTAAT
1 TCTTG-TGTTTTGTGCTTAAT
809823 T
1 T
809824 ATTCCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 9 0.45
21 6 0.30
ACGTcount: A:0.12, C:0.07, G:0.20, T:0.61
Consensus pattern (20 bp):
TCTTGTGTTTTGTGCTTAAT
Found at i:811964 original size:25 final size:22
Alignment explanation
Indices: 811928--811975 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
811918 ACATTAGGAA
*
811928 AGAAAAAGGGGAGAGAAAGTTTAT
1 AGAAAAAAGGGAGAG--AGTTTAT
811952 AGAAAAACAGGGAGAGAGTTTAT
1 AGAAAAA-AGGGAGAGAGTTTAT
811975 A
1 A
811976 AATTCGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.50, C:0.02, G:0.31, T:0.17
Consensus pattern (22 bp):
AGAAAAAAGGGAGAGAGTTTAT
Found at i:812595 original size:20 final size:18
Alignment explanation
Indices: 812570--812640 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 18
812560 AACCCTTATT
812570 TGTATCGATACATATGCAGA
1 TGTATCGATACAT-TGCA-A
812590 TGTATCGATACATTGCAA
1 TGTATCGATACATTGCAA
* ** *
812608 TGTGT--ATTGA-TACAA
1 TGTATCGATACATTGCAA
812623 TGTATCGATACATTGCAA
1 TGTATCGATACATTGCAA
812641 CTTTATCGGT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
15 8 0.20
16 3 0.08
17 3 0.08
18 9 0.22
19 4 0.10
20 13 0.32
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (18 bp):
TGTATCGATACATTGCAA
Found at i:813646 original size:15 final size:15
Alignment explanation
Indices: 813626--813657 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
813616 AAAGCTTAAA
813626 ATCTTCAAGTTTTTC
1 ATCTTCAAGTTTTTC
813641 ATCTTCAAGTTTTTC
1 ATCTTCAAGTTTTTC
813656 AT
1 AT
813658 TCTCTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (15 bp):
ATCTTCAAGTTTTTC
Found at i:819261 original size:20 final size:19
Alignment explanation
Indices: 819236--819306 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
819226 CTCTCATTTA
819236 TATCGATACATCTCAAATTG
1 TATCGATACATCTCAAA-TG
***
819256 TATCGATACAAGACATAATG
1 TATCGATACATCTCA-AATG
* *
819276 TATCGATATATCTTAAAATG
1 TATCGATACATC-TCAAATG
819296 TATCGATACAT
1 TATCGATACAT
819307 TAAACTGCAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 37 0.93
21 3 0.08
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (19 bp):
TATCGATACATCTCAAATG
Found at i:819571 original size:27 final size:27
Alignment explanation
Indices: 819540--819594 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
819530 AAAAGCTCAC
819540 AATCTTCAAGTTGTTTATTCTCTTTGT
1 AATCTTCAAGTTGTTTATTCTCTTTGT
819567 AATCTTCAAGTTGTTTATTCTCTTTGT
1 AATCTTCAAGTTGTTTATTCTCTTTGT
819594 A
1 A
819595 TTTAATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.55
Consensus pattern (27 bp):
AATCTTCAAGTTGTTTATTCTCTTTGT
Found at i:822167 original size:18 final size:18
Alignment explanation
Indices: 822138--822172 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
822128 CGATTAAAGC
822138 AAAATAATTAAATATTTTT
1 AAAATAATTAAA-ATTTTT
822157 AAAAT-ATTAAAATTTT
1 AAAATAATTAAAATTTT
822173 ATAGAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAATTAAAATTTTT
Found at i:822930 original size:18 final size:17
Alignment explanation
Indices: 822902--823014 Score: 84
Period size: 18 Copynumber: 6.4 Consensus size: 17
822892 AGTCTAAATT
822902 ATAGA-TTTTAGGAATC
1 ATAGATTTTTAGGAATC
822918 ATAGACTTTTTAGGAATC
1 ATAGA-TTTTTAGGAATC
* **
822936 TTAGATTTTTTATTAATC
1 ATAGA-TTTTTAGGAATC
**
822954 ATAGATTTTCTAAAAATC
1 ATAGATTTT-TAGGAATC
* *
822972 TTAGATTTTCTAAGAATC
1 ATAGATTTT-TAGGAATC
* **
822990 ACAGATTTTCTAAAAATC
1 ATAGATTTT-TAGGAATC
823008 ATAGATT
1 ATAGATT
823015 CTTGTAATCT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.06
17 4 0.05
18 72 0.89
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (17 bp):
ATAGATTTTTAGGAATC
Found at i:822990 original size:36 final size:36
Alignment explanation
Indices: 822913--823014 Score: 125
Period size: 36 Copynumber: 2.8 Consensus size: 36
822903 TAGATTTTAG
** * *
822913 GAATCATAGACTTTT-TAGGAATCTTAGATTTTTTAT
1 GAATCATAGA-TTTTCTAAAAATCTTAGATTTTCTAA
*
822949 TAATCATAGATTTTCTAAAAATCTTAGATTTTCTAA
1 GAATCATAGATTTTCTAAAAATCTTAGATTTTCTAA
* *
822985 GAATCACAGATTTTCTAAAAATCATAGATT
1 GAATCATAGATTTTCTAAAAATCTTAGATT
823015 CTTGTAATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 4 0.07
36 53 0.93
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (36 bp):
GAATCATAGATTTTCTAAAAATCTTAGATTTTCTAA
Found at i:825801 original size:18 final size:17
Alignment explanation
Indices: 825766--825820 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
825756 AATTAGCCTA
*
825766 AATCACAGA-TTTTAGG
1 AATCATAGATTTTTAGG
825782 AATCATAGATTTTCTAGG
1 AATCATAGATTTT-TAGG
*
825800 AATCTTAGATTTTTTAGG
1 AATCATAGA-TTTTTAGG
825818 AAT
1 AAT
825821 TGCAGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 19 0.56
19 4 0.12
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (17 bp):
AATCATAGATTTTTAGG
Found at i:825827 original size:18 final size:18
Alignment explanation
Indices: 825775--825833 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
825765 AAATCACAGA
825775 TTTTAGGAATCAT-AGATT
1 TTTTAGGAATC-TCAGATT
* *
825793 TTCTAGGAATCTTAGATT
1 TTTTAGGAATCTCAGATT
825811 TTTTAGGAAT-TGCAGATT
1 TTTTAGGAATCT-CAGATT
825829 TTTTA
1 TTTTA
825834 AAAATTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 2 0.06
18 34 0.94
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (18 bp):
TTTTAGGAATCTCAGATT
Found at i:825882 original size:18 final size:18
Alignment explanation
Indices: 825825--825883 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
825815 AGGAATTGCA
*
825825 GATTTTTTAAAAATTTTT
1 GATTTTTTAAAAATTATT
* * * *
825843 AATTTTCTAAGAATTATA
1 GATTTTTTAAAAATTATT
*
825861 GATTTTTTAAAAATCATT
1 GATTTTTTAAAAATTATT
825879 GATTT
1 GATTT
825884 CTGTAATCTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (18 bp):
GATTTTTTAAAAATTATT
Found at i:830590 original size:13 final size:13
Alignment explanation
Indices: 830572--830601 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
830562 ACTTTTTACC
*
830572 ATGTATCGATACA
1 ATGTATCAATACA
830585 ATGTATCAATACA
1 ATGTATCAATACA
830598 ATGT
1 ATGT
830602 CTCATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:830608 original size:33 final size:33
Alignment explanation
Indices: 830549--830617 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
830539 ACCGTTGGGC
** *
830549 ACAATGTATCAATACTTTTTACCATGTATCGAT
1 ACAATGTATCAATACAATGTACCATGTATCGAT
*
830582 ACAATGTATCAATACAATGT-CTCATGTATTGAT
1 ACAATGTATCAATACAATGTAC-CATGTATCGAT
830615 ACA
1 ACA
830618 TTTCACTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (33 bp):
ACAATGTATCAATACAATGTACCATGTATCGAT
Found at i:833100 original size:32 final size:32
Alignment explanation
Indices: 833029--833103 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
833019 TTCATGGGTG
* *
833029 GTTTTGAATGAAAAATTTGATGGAAGAAGATCTA
1 GTTTTG-ATGAAAAATTTGATGAAAAAAGA-CTA
* *
833063 TTTTTGATGAAAATTTTGATGAAAAATAGA-TA
1 GTTTTGATGAAAAATTTGATGAAAAA-AGACTA
833095 GTTTTGATG
1 GTTTTGATG
833104 TGAAAATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 10 0.29
33 17 0.49
34 8 0.23
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.39
Consensus pattern (32 bp):
GTTTTGATGAAAAATTTGATGAAAAAAGACTA
Found at i:833120 original size:21 final size:20
Alignment explanation
Indices: 833074--833122 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
833064 TTTTGATGAA
833074 AATTTTGATGAAAAATAGAT
1 AATTTTGATGAAAAATAGAT
* *
833094 AGTTTTGATGTGAAAAT-GAT
1 AATTTTGATG-AAAAATAGAT
833114 GAATTTTGA
1 -AATTTTGA
833123 AAAAGGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (20 bp):
AATTTTGATGAAAAATAGAT
Found at i:839329 original size:17 final size:17
Alignment explanation
Indices: 839307--839341 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
839297 GCCATTATTG
839307 TCTTGTTTGGTGCTTAT
1 TCTTGTTTGGTGCTTAT
*
839324 TCTTGTTTGGTGTTTAT
1 TCTTGTTTGGTGCTTAT
839341 T
1 T
839342 TCTATGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.23, T:0.63
Consensus pattern (17 bp):
TCTTGTTTGGTGCTTAT
Found at i:848872 original size:13 final size:13
Alignment explanation
Indices: 848854--848879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
848844 CAATTTTTTG
848854 TGTATCGATACAT
1 TGTATCGATACAT
848867 TGTATCGATACAT
1 TGTATCGATACAT
848880 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:851418 original size:13 final size:13
Alignment explanation
Indices: 851400--851438 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
851390 ATAATCACCC
*
851400 TGTATCGATACAG
1 TGTATCGATACAA
851413 TGTATCGATACAA
1 TGTATCGATACAA
851426 TGTATCGATACAA
1 TGTATCGATACAA
851439 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:851449 original size:20 final size:20
Alignment explanation
Indices: 851424--851502 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
851414 GTATCGATAC
851424 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
851444 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
851469 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
851489 CATGTATCGATACA
1 AATGTATCGATACA
851503 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:855380 original size:21 final size:21
Alignment explanation
Indices: 855351--855395 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
855341 AAGTTTTCAT
*
855351 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
855371 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
855393 TTT
1 TTT
855396 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:857637 original size:13 final size:13
Alignment explanation
Indices: 857619--857644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
857609 CAATTTTTTG
857619 TGTATCGATACAT
1 TGTATCGATACAT
857632 TGTATCGATACAT
1 TGTATCGATACAT
857645 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:858536 original size:31 final size:31
Alignment explanation
Indices: 858501--858806 Score: 365
Period size: 31 Copynumber: 9.9 Consensus size: 31
858491 TCTCTTCTCA
*
858501 AAGTCCACGACTCAGTGGCATATTTTCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
*
858532 AAGTCCACGACTCAGTGGCGTCTTTT-TTCCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTT-CC
* * *
858563 AAAGTCTACGACTTAGTGGCATCTTTTCTTCA
1 -AAGTCCACGACTCAGTGGCATCTTTTCTTCC
858595 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
858626 AAGTCCACGACTCAGTGGCATC-TTTCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
*
858656 AAGTCCACGACTCAGTGGCATC--TCCTTCC
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCC
* *
858685 AAAGTCCACGACTTAGTGGCATCTCTTTC--CA
1 -AAGTCCACGACTCAGTGGCATCT-TTTCTTCC
*
858716 AAGTCCACGACAT-AGTGGCATCTTTTCTTCA
1 AAGTCCACGAC-TCAGTGGCATCTTTTCTTCC
* **
858747 AAGTCCACGACACAGTGGCATCTTTTCTCTTTA
1 AAGTCCACGACTCAGTGGCATC-TTT-TCTTCC
* * *
858780 AAGTCCATGACTTAGTAGCATCTTTTC
1 AAGTCCACGACTCAGTGGCATCTTTTC
858807 CAAAAATTCC
Statistics
Matches: 243, Mismatches: 19, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
29 10 0.04
30 74 0.30
31 102 0.42
32 30 0.12
33 27 0.11
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (31 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCC
Found at i:858881 original size:27 final size:27
Alignment explanation
Indices: 858820--859460 Score: 494
Period size: 27 Copynumber: 22.1 Consensus size: 27
858810 AAATTCCGTG
* *
858820 ACTCAGTGGCACTCTTTTAAGGTCCACA
1 ACTCCGTGGCACCCTTTTAA-GTCCACA
* *
858848 ATTCCGTGGTACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* * *
858875 ACCCCGTGGCACCCTTTTAAGTCTATA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
*
858902 ACTCCGTGGCACCCTTTTAAGTCCATA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* ** *
858929 ACTCTGTGGCACTTTTTTGAAATCCACA
1 ACTCCGTGGCACCCTTTT-AAGTCCACA
*
858957 ACTCCGTGGCATCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* *
858984 ACTCCGTGGCA-CCTTTTAAAGCCCATA
1 ACTCCGTGGCACCCTTTT-AAGTCCACA
* * * *
859011 ACTCTGTGGCACTTTTTCCTTTCAAAGCCCACC
1 ACTCCGTGGCAC-----CCTTT-TAAGTCCACA
*
859044 ACTCCGTGGCACTTTTTTCTTTTCAAAGTCCACA
1 ACTCCGTGGCAC-----CCTTTT--AAGTCCACA
*
859078 ACT-CTTGGCACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* * * *
859104 CCTCCGTGGCAGCTTTTTAAGTCCACG
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* * *
859131 ACTTCGTGACACCCTTTTAAAGCCCACA
1 ACTCCGTGGCACCCTTTT-AAGTCCACA
*
859159 ACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACA
1 ACTCCGTGGCACC-----CTTTT--AAGTCCACA
*
859193 ACTTCGTGGCACCTTTTTCTTTTCCAAGTCCACA
1 ACTCCGTGGCACC-----CTTTT--AAGTCCACA
*
859227 ACTCTGTGGCACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
859254 ACTCCGTGGCACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* *
859281 ACTCCGTGGCACCCTTTTAAGCCCATA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* * * *
859308 ACTTCGTGGCATTCTTTTTCCTTTGAAGTCTATA
1 ACTCCGTGGCA--C-----CCTTTTAAGTCCACA
859342 ACTCCGTGGCACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
*
859369 ACTCCGTGGCACCCTTTTAAGCCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
* *
859396 ACTCTGTGGCATTTTTTTTCCTTTTAAGTCCACA
1 ACTCCGTGGCA-------CCCTTTTAAGTCCACA
*
859430 ACTCCGTGACACCCTTTTAAGTCCACA
1 ACTCCGTGGCACCCTTTTAAGTCCACA
859457 ACTC
1 ACTC
859461 TGTAGTATCT
Statistics
Matches: 509, Mismatches: 71, Indels: 67
0.79 0.11 0.10
Matches are distributed among these distances:
26 17 0.03
27 274 0.54
28 60 0.12
29 6 0.01
32 1 0.00
33 44 0.09
34 107 0.21
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (27 bp):
ACTCCGTGGCACCCTTTTAAGTCCACA
Found at i:859038 original size:33 final size:34
Alignment explanation
Indices: 858995--859088 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 34
858985 CTCCGTGGCA
* *
858995 CCTTTTAAAGCCCATAACTCTGTGGCAC-TTTTT
1 CCTTTCAAAGCCCACAACTCTGTGGCACTTTTTT
* *
859028 CCTTTCAAAGCCCACCACTCCGTGGCACTTTTTT
1 CCTTTCAAAGCCCACAACTCTGTGGCACTTTTTT
* *
859062 CTTTTCAAAGTCCACAACTCT-TGGCAC
1 CCTTTCAAAGCCCACAACTCTGTGGCAC
859089 CCTTTTAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 30 0.58
34 22 0.42
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (34 bp):
CCTTTCAAAGCCCACAACTCTGTGGCACTTTTTT
Found at i:859068 original size:34 final size:33
Alignment explanation
Indices: 858996--859238 Score: 148
Period size: 34 Copynumber: 7.8 Consensus size: 33
858986 TCCGTGGCAC
* *
858996 CTTTT-AAAGCCCATAACTCTGTGGCACTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTT
* *
859028 CCTTTCAAAGCCCACCACTCCGTGGCACTTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCAC-TTTTT
* * *
859062 CTTTTCAAAGTCCACAACT-CTTGGCAC----C
1 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTT
* *
859090 CTTTT--AAGTCCACACCTCCGTGGCAGC----T
1 CTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
* * * * *
859118 -TTTT--AAGTCCACGACTTCGTGACAC----C
1 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTT
859144 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
*
859177 CTTTTCAAAGCCCACAACTTCGTGGCACCTTTTT
1 CTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
* * *
859211 CTTTTCCAAGTCCACAACTCTGTGGCAC
1 CTTTTCAAAGCCCACAACTCCGTGGCAC
859239 CCTTTTAAGT
Statistics
Matches: 172, Mismatches: 27, Indels: 23
0.77 0.12 0.10
Matches are distributed among these distances:
26 12 0.07
27 30 0.17
28 22 0.13
29 1 0.01
32 4 0.02
33 32 0.19
34 71 0.41
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (33 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACTTTTT
Found at i:859166 original size:115 final size:113
Alignment explanation
Indices: 858832--859460 Score: 580
Period size: 115 Copynumber: 5.4 Consensus size: 113
858822 TCAGTGGCAC
* * * *
858832 TCTTTTAAGGTCCACAATTCCGTGGTACCCTTTTAAGTCCACAACCCCGTGGCACCCTTTTAAGT
1 TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * * *
858897 CTATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCAC--TT
66 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTT
* *
858943 T-TTTGAAA-TCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAG
1 TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAG
* * * * *
859005 CCCATAACTCTGTGGCACTTTTTCCTTTCAAAGCCCACCACTCCGTGGCACTTTTT
65 TCCACAACTCCGTGGCAC-----CCTTT-TAAGCCCACAACTCCGTGGCAC-TTTT
* * * *
859061 TCTTTTCAAAGTCCACAACT-CTTGGCACCCTTTTAAGTCCACACCTCCGTGGCAGCTTTTTAAG
1 TCTTTT-AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAG
* * *
859125 TCCACGACTTCGTGACACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
65 TCCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTCCGTGGCA-CTTTT
* * *
859176 TCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTCCAAGTCCACAACTCTGTGGCACCC
1 TCTTTT-AAAGTCCACAACTCCGTGGCACC-----CTTTT--AAGTCCACAACTCCGTGGCACCC
*
859241 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAC----
58 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTT
* * * * * * *
859293 CCTTTT-AAGCCCATAACTTCGTGGCATTCTTTTTCCTTTGAAGTCTATAACTCCGTGGCACCCT
1 TCTTTTAAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGTCCACAACTCCGTGGCACCCT
* *
859357 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCATTTTTTT
59 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA--CTTTT
*
859414 TCCTTTT-AAGTCCACAACTCCGTGACACCCTTTTAAGTCCACAACTC
1 T-CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
859461 TGTAGTATCT
Statistics
Matches: 426, Mismatches: 54, Indels: 72
0.77 0.10 0.13
Matches are distributed among these distances:
108 6 0.01
109 58 0.14
110 5 0.01
111 1 0.00
114 5 0.01
115 168 0.39
116 9 0.02
117 10 0.02
118 3 0.01
119 3 0.01
120 50 0.12
121 20 0.05
122 41 0.10
123 47 0.11
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (113 bp):
TCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTT
Found at i:859191 original size:149 final size:149
Alignment explanation
Indices: 858920--859449 Score: 632
Period size: 149 Copynumber: 3.6 Consensus size: 149
858910 GCACCCTTTT
* ** * *
858920 AAGTCCATAACTCTGTGGCACTTTTTTGAAATCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCTGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
858985 CTCCGTGGCA-CCTTTTAAAGCCCATAACTCTGTGGCACTTTTTCCTTTCAAAGCCCACCACTCC
65 CTCCGTGGCACCCTTTTAAAGCCCATAACTCCGTGGCACTTTTTCCTTTCAAAGCCCACAACTCC
*
859049 GTGGCACTTTTTTCTTTTCA
130 GTGGCACCTTTTTCTTTTCA
* * * *
859069 AAGTCCACAACTCT-TGGCACCCTTTTAAGTCCACACCTCCGTGGCAGCTTTTTAAGTCCACGAC
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* * * * *
859133 TTCGTGACACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTC
66 TCCGTGGCACCCTTTTAAAGCCCATAACTCCGTGGCA-CTTTTTCCTTTCAAAGCCCACAACTCC
*
859198 GTGGCACCTTTTTCTTTTCC
130 GTGGCACCTTTTTCTTTTCA
859218 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
* * * * *
859283 TCCGTGGCACCCTTTT-AAGCCCATAACTTCGTGGCATTCTTTTTCCTTT-GAAGTCTATAACTC
66 TCCGTGGCACCCTTTTAAAGCCCATAACTCCGTGGCA--CTTTTTCCTTTCAAAGCCCACAACTC
859346 CGTGGCACC-----CTTTT--
129 CGTGGCACCTTTTTCTTTTCA
* * * *
859360 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCATTTTTTTTCCTTTTAAGT
1 AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-------CCCTTTTAAGT
*
859425 CCACAACTCCGTGACACCCTTTTAA
59 CCACAACTCCGTGGCACCCTTTTAA
859450 GTCCACAACT
Statistics
Matches: 332, Mismatches: 37, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
142 44 0.13
144 5 0.02
147 40 0.12
148 35 0.11
149 137 0.41
150 71 0.21
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (149 bp):
AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTTAAAGCCCATAACTCCGTGGCACTTTTTCCTTTCAAAGCCCACAACTCCG
TGGCACCTTTTTCTTTTCA
Found at i:859291 original size:88 final size:82
Alignment explanation
Indices: 858820--859460 Score: 461
Period size: 88 Copynumber: 7.4 Consensus size: 82
858810 AAATTCCGTG
* * * * * **
858820 ACTCAGTGGCACTCTTTTAAGGTCCACAATTCCGTGGTACCCTTTTAAGTCCACAACCCCGTGGC
1 ACTCCGTGGCACCCTTTTAA-GTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGC
* *
858885 A-CCCTTTTAAGTCTATA
65 ATCCCTTTTAAGTCCACA
* * ** ** *
858902 ACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACTTTTTTGAAATCCACAACTCCGTGGC
1 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTTCGTGGC
858967 AT-CCTTTTAAGTCCACA
65 ATCCCTTTTAAGTCCACA
* * * * * *
858984 ACTCCGTGGCA-CCTTTTAAAGCCCATAACTCTGTGGCACTTTTTCCTTTCAAAGCCCACCACTC
1 ACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCAC-----CCTTT-TAAGCCCACAACTT
**
859048 CGTGGCACTTTTTTCTTTTCAAAGTCCACA
59 CGTGGCA----TCCCTTTT--AAGTCCACA
* * * * * * *
859078 ACT-CTTGGCACCCTTTTAAGTCCACACCTCCGTGGCAGCTTTTTAAGTCCACGACTTCGTGACA
1 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGCA
*
859142 -CCCTTTTAAAGCCCACA
66 TCCCTTTT-AAGTCCACA
* * *
859159 ACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTCTTTTCCAAGTCC
1 ACTCCGTGGCACC-----CTTTT--AAGTCCACAACTCCGTGGCACC-----CTTTT--AAGCCC
859224 ACAAC-TCTGTGGCA-CCCTTTTAAGTCCACA
52 ACAACTTC-GTGGCATCCCTTTTAAGTCCACA
*
859254 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCATAACTTCGTGGCA
1 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGCA
* * *
859319 TTCTTTTTCCTTTGAAGTCTATA
66 -TC-----CCTTTTAAGTCCACA
859342 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAAC-TCTGTGGC
1 ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTC-GTGGC
*
859406 ATTTTTTTTCCTTTTAAGTCCACA
65 A------TCCCTTTTAAGTCCACA
*
859430 ACTCCGTGACACCCTTTTAAGTCCACAACTC
1 ACTCCGTGGCACCCTTTTAAGTCCACAACTC
859461 TGTAGTATCT
Statistics
Matches: 455, Mismatches: 57, Indels: 88
0.76 0.09 0.15
Matches are distributed among these distances:
81 52 0.11
82 95 0.21
83 6 0.01
87 43 0.09
88 139 0.31
89 18 0.04
90 5 0.01
91 1 0.00
92 5 0.01
93 24 0.05
94 22 0.05
95 23 0.05
96 22 0.05
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (82 bp):
ACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGCA
TCCCTTTTAAGTCCACA
Found at i:859450 original size:149 final size:143
Alignment explanation
Indices: 858901--859508 Score: 588
Period size: 149 Copynumber: 4.1 Consensus size: 143
858891 TTAAGTCTAT
* * ** *
858901 AACTCCGTGGCACCCTTTT-AAGTCCATAACTCTGTGGCACTTTTTTGAAATCCACAACTCCGTG
1 AACTCCGTGGCACCCTTTTCAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTG
* *
858965 GCATCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGCCCATAAC-TCTGTGGCACTTTTT
65 GCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGCCCACAACTTC-GTGGCACTTTTT
859028 CCTTTCAAAGCCCAC
129 CCTTTCAAAGCCCAC
* * * *
859043 CACTCCGTGGCACTTTTTTCTTTTCAAAGTCCACAACT-CTTGGCACCCTTTTAAGTCCACACCT
1 AACTCCGTGGCAC-----CCTTTTC-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACT
* * * * *
859107 CCGTGGCAGCTTTTTAAGTCCACGACTTCGTGACACCCTTTTAAAGCCCACAACTCCGTGGCACC
60 CCGTGGCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGCCCACAACTTCGTGGCA-C
*
859172 TTTTTCTTTTCAAAGCCCAC
124 TTTTTCCTTTCAAAGCCCAC
* *
859192 AACTTCGTGGCACCTTTTTCTTTTCCAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACT
1 AACTCCGTGGCACC-----CTTTT-CAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACT
* * *
859257 CCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGCCCATAACTTCGTGGCATT
60 CCGTGGCATCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGCCCACAACTTCGTGGCA--
* * * *
859321 CTTTTTCCTTT-GAAGTCTAT
123 CTTTTTCCTTTCAAAGCCCAC
* *
859341 AACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGG
1 AACTCCGTGGCACCCTTTTCAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
* * *
859405 CATTTTTTTTCCTTTTAAGTCCACAACTCCGTGACACCCTTTT-AAGTCCACAAC-TCTGTAGTA
66 CA-------TCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGCCCACAACTTC-GTGGCA
* * *
859468 TCTTTCTCCTTT-TAGGCCCAC
123 -CTTTTTCCTTTCAAAGCCCAC
* *
859489 AAGTCAGTGGCACCCTTTTC
1 AACTCCGTGGCACCCTTTTC
859509 GAAAGCCCAC
Statistics
Matches: 385, Mismatches: 54, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
142 56 0.15
144 5 0.01
147 45 0.12
148 67 0.17
149 141 0.37
150 71 0.18
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (143 bp):
AACTCCGTGGCACCCTTTTCAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
CATCCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAAGCCCACAACTTCGTGGCACTTTTTCC
TTTCAAAGCCCAC
Found at i:859507 original size:60 final size:61
Alignment explanation
Indices: 859354--859507 Score: 211
Period size: 61 Copynumber: 2.5 Consensus size: 61
859344 TCCGTGGCAC
* * *
859354 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCATTTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTAGCATTCTTTCT
* * *
859415 CCTTTTAAGTCCACAACTCCGTGACACCCTTTTAAGTCCACAACTCTGTAGTA-TCTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTAGCATTCTTTCT
* * * *
859475 CCTTTTAGGCCCACAAGTCAGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
859508 CGAAAGCCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
60 33 0.40
61 49 0.60
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (61 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTAGCATTCTTTCT
Found at i:859557 original size:29 final size:30
Alignment explanation
Indices: 859483--859605 Score: 137
Period size: 29 Copynumber: 4.2 Consensus size: 30
859473 CTCCTTTTAG
* *
859483 GCCCACAAGTCAGTGGCACCCTTTTCGAAA
1 GCCCACAAGTCAGTGGCACCCCTTTCAAAA
**
859513 GCCCACAAGTTGGTGGCACCCCTTTC-AAA
1 GCCCACAAGTCAGTGGCACCCCTTTCAAAA
*
859542 GCCCACAAGTCAGTGGCA-ACC-TTCAAAA
1 GCCCACAAGTCAGTGGCACCCCTTTCAAAA
* ** *
859570 GCACACAAGTTGGT-GCAACCCTTTCAAAA
1 GCCCACAAGTCAGTGGCACCCCTTTCAAAA
859599 GCCCACA
1 GCCCACA
859606 CAAGTTAGTG
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.08
28 18 0.23
29 32 0.41
30 23 0.29
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (30 bp):
GCCCACAAGTCAGTGGCACCCCTTTCAAAA
Found at i:859617 original size:59 final size:58
Alignment explanation
Indices: 859483--859605 Score: 178
Period size: 57 Copynumber: 2.1 Consensus size: 58
859473 CTCCTTTTAG
* * * *
859483 GCCCACAAGTCAGTGGCACCCTTTTCGAAAGCCCACAAGTTGGTGGCACCCCTTTCAAA
1 GCCCACAAGTCAGTGGCAACC-TTTCAAAAGCACACAAGTTGGTGGCAACCCTTTCAAA
859542 GCCCACAAGTCAGTGGCAACC-TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAA
1 GCCCACAAGTCAGTGGCAACCTTTCAAAAGCACACAAGTTGGTGGCAACCCTTTC-AAA
859599 GCCCACA
1 GCCCACA
859606 CAAGTTAGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
56 10 0.17
57 29 0.49
59 20 0.34
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (58 bp):
GCCCACAAGTCAGTGGCAACCTTTCAAAAGCACACAAGTTGGTGGCAACCCTTTCAAA
Found at i:859798 original size:48 final size:48
Alignment explanation
Indices: 859625--860453 Score: 561
Period size: 49 Copynumber: 17.9 Consensus size: 48
859615 GGCGTCTTCT
* * * * *
859625 TCTAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTATC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC
* * * * *
859674 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-TTTACATC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT--GTC
* *
859723 TTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * * *
859771 TCTCAGACCAATGTCACAGGCCTTGAATCAGCATTTTGGCA-------
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * *
859812 --TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * *
859858 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
* * *
859907 TTTAAGACCAATATCGCTGGCCTTGACTCAGCATATTGGCACCTTGTC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* *
859955 TCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * * *
859996 --TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC
* * *
860043 TCTAAGACCAATGTCGCTAGCCTTGAATAAGCACATTGGCA-------
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* *
860084 --TAA-ACCCAATATCGCTGGCCGTGAATCAGCATATTGGCACCTTGTC
1 TCTAAGA-CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * * *
860130 TTTAAGACTAATGACGCTGGCCTTGAATCAGCACATTGGCA-------
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * *
860171 -C-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGACCTTTGTC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC
*
860218 ATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------
1 -TC--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
* * * * *
860262 --TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCGCCTTTGTC
1 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC
* * * * *
860309 ATCTTTAAAACCAATGCCGCTGGCCTTGAATCAGCACATTAGCACCTTCATC
1 -TC--TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
* * * *
860361 -CTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTT-TAAC
1 TC-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGT--C
* * *
860410 ATTCCTTAA-CCCAATGTCGTTGGCCTTGAACCAGCATATTGGCA
1 --T-C-TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
860454 TTCTTCTTTT
Statistics
Matches: 611, Mismatches: 102, Indels: 131
0.72 0.12 0.16
Matches are distributed among these distances:
38 1 0.00
39 163 0.27
47 3 0.00
48 145 0.24
49 189 0.31
50 3 0.00
51 2 0.00
52 100 0.16
53 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
TCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
Found at i:859880 original size:87 final size:87
Alignment explanation
Indices: 859725--860348 Score: 834
Period size: 87 Copynumber: 7.0 Consensus size: 87
859715 TTTACATCTT
* * * *
859725 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTCAGACCAATGTCACAG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
**
859790 GCCTTGAATCAGCATTTTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
859812 TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
859877 GCCTTGAATCAGCACATTGGCATCTTCA
66 GCCTTGAATCAGCACATTGG------CA
* * *
859905 TCTTTAAGACCAATATCGCTGGCCTTGACTCAGCATATTGGCACCTTGTCTCTCAGACCAATGTC
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTC
859970 GCTGGCCTTGAATCAGCACATTGGCA
62 GCTGGCCTTGAATCAGCACATTGGCA
* *
859996 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTCTAAGACCAATGTCGCT
* *
860061 AGCCTTGAATAAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * * * *
860084 TAAACCCAATATCGCTGGCCGTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGACGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
860149 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
860171 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TC--TAAGACCAATGTC
860236 GCTGGCCTTGAATCAGCACATTGGCA
62 GCTGGCCTTGAATCAGCACATTGGCA
* * * * *
860262 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAAACCAATGCC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TC--TAAGACCAATGTC
860327 GCTGGCCTTGAATCAGCACATT
62 GCTGGCCTTGAATCAGCACATT
860349 AGCACCTTCA
Statistics
Matches: 479, Mismatches: 43, Indels: 26
0.87 0.08 0.05
Matches are distributed among these distances:
87 192 0.40
88 85 0.18
89 1 0.00
91 118 0.25
93 2 0.00
97 81 0.17
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:859929 original size:136 final size:134
Alignment explanation
Indices: 859691--860171 Score: 487
Period size: 136 Copynumber: 3.5 Consensus size: 134
859681 CCAATGTCGT
* *
859691 TGGCCTTGAATCAGCACATTGGCATTTACATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACTT--GTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
* * * * * *
859756 TATTGGCACCTTGTCTCTCAGACCAATGTCACAGGCCTTGAATCAGCATTTTGGCATAAGCCCAA
64 CATTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATAAGCCCAA
859821 TATTGC
129 TATTGC
* * *
859827 TGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCACATTGGCA-CTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAC
* * * * *
859892 ATTGGCATCTTCATCTTTAAGACCAATATCGCTGGCCTTGACTCAGCATATTGGCACCT-TGTCT
65 ATTGGCACCTT-ATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA--TAAG-C-
*
859956 CTCAGACCAATGTCGC
125 C-CA-A--TAT-T-GC
* * *
859972 TGGCCTTGAATCAGCACATTGGCA--------TAAGCCCAATATCGCTGGCCTTAAATCAGCATA
1 TGGCCTTGAATCAGCACATTGGCACTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACA
* * * *
860029 TTGGCACCTTTATCTCTAAGACCAATGTCGCTAGCCTTGAATAAGCACATTGGCATAAACCCAAT
66 TTGGCACC-TTATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATAAGCCCAAT
*
860094 ATCGC
130 ATTGC
* * *
860099 TGGCCGTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGA-CGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-CTTGTCTTTAAGACCAAT-ATCGCTGGCCTTGAATCAGCA
860163 CATTGGCAC
64 CATTGGCAC
860172 AAGTCCAATA
Statistics
Matches: 282, Mismatches: 39, Indels: 48
0.76 0.11 0.13
Matches are distributed among these distances:
127 24 0.09
129 2 0.01
131 1 0.00
132 2 0.01
133 1 0.00
134 2 0.01
135 43 0.15
136 167 0.59
137 6 0.02
138 2 0.01
139 1 0.00
140 2 0.01
141 1 0.00
143 2 0.01
144 1 0.00
145 25 0.09
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (134 bp):
TGGCCTTGAATCAGCACATTGGCACTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACA
TTGGCACCTTATCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATAAGCCCAATA
TTGC
Found at i:859942 original size:184 final size:184
Alignment explanation
Indices: 859627--860455 Score: 942
Period size: 184 Copynumber: 4.5 Consensus size: 184
859617 CGTCTTCTTC
* * * * *
859627 TAAGTCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTTATCTTTAAGACCAATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
859692 GGCCTTGAATCAGCACATTGGCATTTACATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCATTT-CATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
* * **
859757 ATTGGCACCTTGTCTCTCAGACCAATGTCACAGGCCTTGAATCAGCATTTTGGCA
130 ATTGGCACCTTGTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* *
859812 TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTCTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
*
859876 GGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCGCTGGCCTTGACTCAGCAT
66 GGCCTTGAATCAGCACATTGGCAT-TTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCAT
859941 ATTGGCACCTTGTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
130 ATTGGCACCTTGTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
*
859996 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
* * * *
860061 AGCCTTGAATAAGCACATTGGCA--T-A-----AA-CCCAATATCGCTGGCCGTGAATCAGCATA
66 GGCCTTGAATCAGCACATTGGCATTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATA
* * * *
860117 TTGGCACCTTGTCTTTAAGACTAATGACGCTGGCCTTGAATCAGCACATTGGCA
131 TTGGCACCTTGTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * * *
860171 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TT-T-ATCTCTAAGACCAATGTC
* * *
860236 GCTGGCCTTGAATCAGCACATTGG-----CA----TAAGCCCAATATCGCTGGCCTTAAATCAAC
63 GCTGGCCTTGAATCAGCACATTGGCATTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGC
* * * * *
860292 ATATTGGCGCCTTTGTCATCTTTAAAACCAATGCCGCTGGCCTTGAATCAGCACATTAGCACCTT
128 ATATTGGCACC-TTGTC-TC--TCAGACCAATGTCGCTGGCCTTGAATCAGCACATT-G-----G
860357 CA
183 CA
* * * * *
860359 TCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTTAA-CCCA
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC--T-C-TAAGACCA
* * *
860423 ATGTCGTTGGCCTTGAACCAGCATATTGGCATT
58 ATGTCGCTGGCCTTGAATCAGCACATTGGCATT
860456 CTTCTTTTCT
Statistics
Matches: 564, Mismatches: 50, Indels: 49
0.85 0.08 0.07
Matches are distributed among these distances:
175 113 0.20
176 5 0.01
177 3 0.01
178 72 0.13
179 5 0.01
180 1 0.00
181 1 0.00
182 33 0.06
183 1 0.00
184 171 0.30
185 82 0.15
188 2 0.00
189 2 0.00
190 1 0.00
191 3 0.01
192 66 0.12
193 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (184 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTCTAAGACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCATTTCATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTGTCTCTCAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:860016 original size:39 final size:39
Alignment explanation
Indices: 859959--860207 Score: 178
Period size: 39 Copynumber: 5.9 Consensus size: 39
859949 CTTGTCTCTC
*
859959 AGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATA
1 AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATA
* * *
859998 AGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTTATCTCTA
1 AGACCAATATCGCTGGCCTTGAATCAGCACATTGG---C---A----TA
* * *
860047 AGACCAATGTCGCTAGCCTTGAATAAGCACATTGGCATA
1 AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATA
* *
860086 A-ACCCAATATCGCTGGCCGTGAATCAGCATATTGGCACCTTGTCTTTA
1 AGA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA---------TA
* *
860134 AGACTAATGA-CGCTGGCCTTGAATCAGCACATTGGCACA
1 AGACCAAT-ATCGCTGGCCTTGAATCAGCACATTGGCATA
* *
860173 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 AGACCAATATCGCTGGCCTTGAATCAGCACATTGG
860208 GACCTTTGTC
Statistics
Matches: 165, Mismatches: 22, Indels: 46
0.71 0.09 0.20
Matches are distributed among these distances:
38 2 0.01
39 94 0.57
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
48 32 0.19
49 33 0.20
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCATA
Found at i:860260 original size:91 final size:90
Alignment explanation
Indices: 859909--860454 Score: 635
Period size: 91 Copynumber: 6.0 Consensus size: 90
859899 TCTTCATCTT
* * *
859909 TAAGACCAATATCGCTGGCCTTGACTCAGCATATTGGCACCTTGTC-TC--TCAGACCAATGTCG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGACCAATGTCG
859971 CTGGCCTTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* *
859996 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTT-T-ATCTCTAAGACCAATGTCG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGACCAATGTCG
* *
860059 CTAGCCTTGAATAAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* * * *
860084 TAAACCCAATATCGCTGGCCGTGAATCAGCATATTGGCACCTTG---TCTTTAAGACTAATGACG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGACCAATGTCG
860146 CTGGCCTTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
* * *
860171 CAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGACCTTTGTCATCTTTAAGACCAATGTC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGACCAATGTC
860236 GCTGGCCTTGAATCAGCACATTGGCA
65 GCTGGCCTTGAATCAGCACATTGGCA
* * * * *
860262 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAAACCAATGCC
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCATCTTTAAGACCAATGTC
*
860327 GCTGGCCTTGAATCAGCACATTAGCACCTTCA
65 GCTGGCCTTGAATCAGCACATT-G-----GCA
* * * * *
860359 TCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTT-TAACATTCCTTAA-CCC
1 ----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT--CA-TCTTTAAGACC
* * *
860422 AATGTCGTTGGCCTTGAACCAGCATATTGGCA
59 AATGTCGCTGGCCTTGAATCAGCACATTGGCA
860454 T
1 T
860455 TCTTCTTTTC
Statistics
Matches: 395, Mismatches: 43, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
86 3 0.01
87 114 0.29
88 79 0.20
91 121 0.31
92 1 0.00
95 2 0.01
97 2 0.01
99 1 0.00
100 3 0.01
101 63 0.16
102 6 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (90 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:860282 original size:39 final size:39
Alignment explanation
Indices: 860223--860299 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
860213 TTGTCATCTT
* * *
860223 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGACCAATATCGCTGGCCTTAAATCAACACATTGGCA
* *
860262 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGC
1 TAAGACCAATATCGCTGGCCTTAAATCAACACATTGGC
860300 GCCTTTGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTAAATCAACACATTGGCA
Found at i:860438 original size:52 final size:49
Alignment explanation
Indices: 860266--860454 Score: 164
Period size: 52 Copynumber: 3.7 Consensus size: 49
860256 TTGGCATAAG
* * ** *
860266 CCCAATATCGCTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAA
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC-TT-TCATCCTT-AA
* ** * * *
860318 ACCAATGCCGCTGGCCTTGAATCAGCACATTAGCA-CCTTCATCCTTAA
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTCATCCTTAA
* *
860366 GTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTTAA
1 -CCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTT--CA-TCCTTAA
* * *
860419 CCCAATGTCGTTGGCCTTGAACCAGCATATTGGCAT
1 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
860455 TCTTCTTTTC
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
48 2 0.02
49 36 0.32
50 4 0.04
51 1 0.01
52 62 0.55
53 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (49 bp):
CCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTCATCCTTAA
Found at i:860445 original size:101 final size:101
Alignment explanation
Indices: 860262--860445 Score: 235
Period size: 101 Copynumber: 1.8 Consensus size: 101
860252 CACATTGGCA
* ** *
860262 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCGCCTTTGTCATCTTTAAAACCAATGCC
1 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTTAACATCCTTAAAACCAATGCC
*
860327 GCTGGCCTTGAATCAGCACATTAGCACCTTCATCCT
66 GCTGGCCTTGAACCAGCACATTAGCACCTTCATCCT
* * * * * * *
860363 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTT-AACCCAATGT
1 TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTTAACA-TCCTTAAAACCAATGC
*
860427 CGTTGGCCTTGAACCAGCA
65 CGCTGGCCTTGAACCAGCA
860446 TATTGGCATT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
101 65 0.94
102 4 0.06
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (101 bp):
TAAGCCCAATATCGCTGGCCTTAAATCAACATATTGGCACCTTTAACATCCTTAAAACCAATGCC
GCTGGCCTTGAACCAGCACATTAGCACCTTCATCCT
Found at i:868701 original size:3 final size:3
Alignment explanation
Indices: 868693--868729 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
868683 CAAGTCGACT
* *
868693 TCA TCA TCA TCA TCA TCA TTA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
868730 TGATGGTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (3 bp):
TCA
Found at i:870415 original size:32 final size:33
Alignment explanation
Indices: 870379--870451 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
870369 ATGGTGTATG
870379 TCGATACAATATACCGACA-TAAAG-AACATGTA
1 TCGATACAATATACCGACACT-AAGCAACATGTA
* * *
870411 TCGATACAATGTATCGATACTAAGCAACATGTA
1 TCGATACAATATACCGACACTAAGCAACATGTA
*
870444 TCAATACA
1 TCGATACA
870452 TTTCGGTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (33 bp):
TCGATACAATATACCGACACTAAGCAACATGTA
Found at i:870424 original size:13 final size:13
Alignment explanation
Indices: 870406--870430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870396 CATAAAGAAC
870406 ATGTATCGATACA
1 ATGTATCGATACA
870419 ATGTATCGATAC
1 ATGTATCGATAC
870431 TAAGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:873676 original size:23 final size:23
Alignment explanation
Indices: 873649--873694 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
873639 TATTTTTTAT
873649 TAAATATGGTTATTTCAAGTCCA
1 TAAATATGGTTATTTCAAGTCCA
*
873672 TAAATATGGTTATTTGAAGTCCA
1 TAAATATGGTTATTTCAAGTCCA
873695 CAAAGTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (23 bp):
TAAATATGGTTATTTCAAGTCCA
Found at i:874829 original size:113 final size:112
Alignment explanation
Indices: 874712--874943 Score: 302
Period size: 112 Copynumber: 2.1 Consensus size: 112
874702 AATTACTTAA
* ** *
874712 GTATCGACACTTGCTATCCAAAAGTTTAATTTTAGCTAGTGCCAAGGCCATGTATTGATACAATC
1 GTATCGACACTTGCTATCCAAAAATCAAATTTTAGCTAGTGCCAAGG-CATGTATCGATACAATC
* * *
874777 ACACTAGGTATCGATACCACACCCTGTGTATCGATACCAAGCCTTCAT
65 ACACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCAT
*** * * * * *
874825 GTATCTTTACTTGTTTTCCAAAAATCAAATTTTAGCTATTGCCAAGGCTTGTGTCGATACAATCA
1 GTATCGACACTTGCTATCCAAAAATCAAATTTTAGCTAGTGCCAAGGCATGTATCGATACAATCA
* *
874890 CACTAGGTATCGATACCATACCATGGGTATCAATACCAAGCCTTTAT
66 CACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCAT
874937 GTATCGA
1 GTATCGA
874944 TACATTGCAT
Statistics
Matches: 100, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
112 62 0.62
113 38 0.38
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (112 bp):
GTATCGACACTTGCTATCCAAAAATCAAATTTTAGCTAGTGCCAAGGCATGTATCGATACAATCA
CACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCAT
Found at i:874906 original size:112 final size:113
Alignment explanation
Indices: 874739--874941 Score: 318
Period size: 112 Copynumber: 1.8 Consensus size: 113
874729 CCAAAAGTTT
* * *
874739 AATTTTAGCTAGTGCCAAGGCCATGTATTGATACAATCACACTAGGTATCGATACCACACCCTGT
1 AATTTTAGCTAGTGCCAAGGCCATGTATCGATACAATCACACTAGGTATCGATACCACACCATGG
*
874804 GTATCGATACCAAGCCTTCATGTATCTTTACTTGTTTTCCAAAAATCA
66 GTATCAATACCAAGCCTTCATGTATCTTTACTTGTTTTCCAAAAATCA
* * * *
874852 AATTTTAGCTATTGCCAAGG-CTTGTGTCGATACAATCACACTAGGTATCGATACCATACCATGG
1 AATTTTAGCTAGTGCCAAGGCCATGTATCGATACAATCACACTAGGTATCGATACCACACCATGG
*
874916 GTATCAATACCAAGCCTTTATGTATC
66 GTATCAATACCAAGCCTTCATGTATC
874942 GATACATTGC
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
112 62 0.77
113 19 0.23
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (113 bp):
AATTTTAGCTAGTGCCAAGGCCATGTATCGATACAATCACACTAGGTATCGATACCACACCATGG
GTATCAATACCAAGCCTTCATGTATCTTTACTTGTTTTCCAAAAATCA
Found at i:874991 original size:112 final size:112
Alignment explanation
Indices: 874768--874997 Score: 250
Period size: 112 Copynumber: 2.1 Consensus size: 112
874758 GCCATGTATT
* * * **
874768 GATACAATCACACTAGGTATCGATACCACACCCTGTGTATCGATACCAAGCCTTCATGTATCTTT
1 GATACAATCACACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCATGTATCGAT
** * * * *
874833 ACTTGTTTTCCAAAAATCAAATTTTAGCTATTGCCAAGGCTTGTGTC
66 ACTTGTCATCCAAAAATCAAATTTTAGCGATTGACAAGCCTCGTGTC
* *
874880 GATACAATCACACTAGGTATCGATACCATACCATGGGTATCAATACCAAGCCTTTATGTATCGAT
1 GATACAATCACACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCATGTATCGAT
** * *
874945 ACATTG-CAT-GGAAATTCAATATTTTTGCGACTT-ACAAGCCTCGTGTC
66 AC-TTGTCATCCAAAAATCAA-ATTTTAGCGA-TTGACAAGCCTCGTGTC
*
874992 AATACA
1 GATACA
874998 TAAGCACCCA
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
111 7 0.07
112 85 0.88
113 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (112 bp):
GATACAATCACACTAGGTATCGATACCACACCATGGGTATCAATACCAAGCCTTCATGTATCGAT
ACTTGTCATCCAAAAATCAAATTTTAGCGATTGACAAGCCTCGTGTC
Found at i:884952 original size:22 final size:21
Alignment explanation
Indices: 884917--884977 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
884907 GTACAATGAA
* *
884917 TAATGTGTCTATACAATTTAAGC
1 TAATGTATCGATACAATTT-A-C
884940 -AATGTATCGATAC-ATTTAC
1 TAATGTATCGATACAATTTAC
*
884959 TTATGTATCGATACAATTT
1 TAATGTATCGATACAATTT
884978 CTTTTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 8 0.24
22 11 0.33
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (21 bp):
TAATGTATCGATACAATTTAC
Found at i:885031 original size:21 final size:21
Alignment explanation
Indices: 885001--885056 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
884991 AGGGTGGTTT
* *
885001 TGTATAGATACATTTCAGGCA
1 TGTATCGATACATTTCACGCA
**
885022 TGTATCGATACA-TTCACTTA
1 TGTATCGATACATTTCACGCA
885042 TGTATCGATACATTT
1 TGTATCGATACATTT
885057 ATTGTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTTCACGCA
Found at i:886588 original size:17 final size:18
Alignment explanation
Indices: 886557--886590 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
886547 ATAAATATCC
886557 TAAAAACAATAAAAATGG
1 TAAAAACAATAAAAATGG
*
886575 TAAAAA-AATGAAAATG
1 TAAAAACAATAAAAATG
886591 AAAAAATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.18
Consensus pattern (18 bp):
TAAAAACAATAAAAATGG
Found at i:887520 original size:36 final size:35
Alignment explanation
Indices: 887437--887534 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 35
887427 CCTTACAACA
*
887437 CTATC-TTTC-AAGGCTAAGATAGAA--AC-CTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
**
887467 CTATCTTTTCACGGGCTAAGATAGAACCTCTCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
* *
887502 CTATCTTTTTCAAAGGCTATGATAGAGCCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
887535 AATCACTTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 13 0.24
34 1 0.02
35 9 0.16
36 23 0.42
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.32
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
Found at i:887967 original size:20 final size:20
Alignment explanation
Indices: 887942--887996 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
887932 GTTGGGCTCA
887942 ATGTATCGATACAATTCACC
1 ATGTATCGATACAATTCACC
* *
887962 ATGTATTGATACAATTCATC
1 ATGTATCGATACAATTCACC
887982 ATGTATCGATACAAT
1 ATGTATCGATACAAT
887997 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:888000 original size:13 final size:13
Alignment explanation
Indices: 887982--888008 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
887972 ACAATTCATC
887982 ATGTATCGATACA
1 ATGTATCGATACA
887995 ATGTATCGATACA
1 ATGTATCGATACA
888008 A
1 A
888009 AGTGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:888251 original size:22 final size:22
Alignment explanation
Indices: 888219--888262 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
888209 CTTTGAATTA
888219 TTTTTACTTGAAAAACA-CTAT
1 TTTTTACTTGAAAAACATCTAT
888240 TTTTATACTTGAAAAACATCTAT
1 TTTT-TACTTGAAAAACATCTAT
888263 ACTTAACTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 13 0.62
23 4 0.19
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTTTACTTGAAAAACATCTAT
Found at i:888960 original size:20 final size:21
Alignment explanation
Indices: 888931--888973 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
888921 TTATGCAAGC
*
888931 TCTCCCCCTTAATACAAATTT
1 TCTCCCCTTTAATACAAATTT
*
888952 TCTCCCCTTTAATACGAATTT
1 TCTCCCCTTTAATACAAATTT
888973 T
1 T
888974 ATGCGAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCCCCTTTAATACAAATTT
Found at i:893111 original size:19 final size:21
Alignment explanation
Indices: 893067--893120 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 21
893057 TTTTAACAAT
893067 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
893088 TTGTATCGATACATAA-A-T-A
1 TTGTATCGATACA-AACAGTAA
893107 TTGTATCGATACAA
1 TTGTATCGATACAA
893121 TGTATCGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 1 0.03
21 14 0.44
22 2 0.06
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:900174 original size:16 final size:16
Alignment explanation
Indices: 900155--900206 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
900145 AAAATGATGG
900155 AAAAAAAACAAAAACA
1 AAAAAAAACAAAAACA
*
900171 AAAAAAAACAATAACA
1 AAAAAAAACAAAAACA
900187 AAAAAAACACACAAAA-A
1 AAAAAAA-ACA-AAAACA
900204 AAA
1 AAA
900207 GAGTGCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 22 0.69
17 7 0.22
18 3 0.09
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAAACA
Done.