Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold465
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: 646967
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 3 of 4
Found at i:357891 original size:20 final size:20
Alignment explanation
Indices: 357866--357931 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
357856 ATCGATACAT
357866 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
357886 TGTATCGAT---ACA---T-
1 TGTATCGATACAACATTTTA
357899 TGTATCGATACAACATTTTA
1 TGTATCGATACAACATTTTA
357919 TGTATCGATACAA
1 TGTATCGATACAA
357932 ATCGTTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 22 0.56
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAACATTTTA
Found at i:361628 original size:13 final size:13
Alignment explanation
Indices: 361610--361634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
361600 ACACCAAGTT
361610 TGTATCGATACAA
1 TGTATCGATACAA
361623 TGTATCGATACA
1 TGTATCGATACA
361635 CCAAAAAATT
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:363282 original size:13 final size:13
Alignment explanation
Indices: 363264--363288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
363254 CTATTTATAG
363264 TGTATCGATACAC
1 TGTATCGATACAC
363277 TGTATCGATACA
1 TGTATCGATACA
363289 TGAATAGTGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:363316 original size:33 final size:33
Alignment explanation
Indices: 363279--363365 Score: 165
Period size: 33 Copynumber: 2.6 Consensus size: 33
363269 CGATACACTG
*
363279 TATCGATACATGAATAGTGTTGAACAATGATTT
1 TATCGATACATGAATAGTGATGAACAATGATTT
363312 TATCGATACATGAATAGTGATGAACAATGATTT
1 TATCGATACATGAATAGTGATGAACAATGATTT
363345 TATCGATACATGAATAGTGAT
1 TATCGATACATGAATAGTGAT
363366 ACGTGAACAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (33 bp):
TATCGATACATGAATAGTGATGAACAATGATTT
Found at i:363421 original size:22 final size:22
Alignment explanation
Indices: 363393--363467 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
363383 AATAACAGCG
* *
363393 ATGAACAGTGATGTATCGATAT
1 ATGAACAGTGATGTATAGATAC
363415 ATGAACAGTGATGTATAGATAC
1 ATGAACAGTGATGTATAGATAC
* * *
363437 ATCAACAGTGATGAATAG-T-G
1 ATGAACAGTGATGTATAGATAC
363457 ATGAACAGTGA
1 ATGAACAGTGA
363468 AAATGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.21
21 1 0.02
22 36 0.77
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATAGATAC
Found at i:363626 original size:21 final size:21
Alignment explanation
Indices: 363586--363626 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
363576 GTCAACCTTG
*
363586 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
363607 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
363627 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:369148 original size:22 final size:22
Alignment explanation
Indices: 369117--369195 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
369107 AATAACAGCG
*
369117 ATGAATAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
369139 ATGAACAGTGATGTATCGATAT
1 ATGAACAGTGATGTATCGATAC
*
369161 ATGAACAGTGATGTATAGATAC
1 ATGAACAGTGATGTATCGATAC
*
369183 ATCAACAGTGATG
1 ATGAACAGTGATG
369196 AATAGTGATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:369200 original size:22 final size:22
Alignment explanation
Indices: 369117--369213 Score: 117
Period size: 22 Copynumber: 4.5 Consensus size: 22
369107 AATAACAGCG
* *
369117 ATGAATAGTGATGTATCGATAC
1 ATGAACAGTGATGTATAGATAC
* *
369139 ATGAACAGTGATGTATCGATAT
1 ATGAACAGTGATGTATAGATAC
369161 ATGAACAGTGATGTATAGATAC
1 ATGAACAGTGATGTATAGATAC
* * *
369183 ATCAACAGTGATGAATAG-T-G
1 ATGAACAGTGATGTATAGATAC
369203 ATGAACAGTGA
1 ATGAACAGTGA
369214 AAATGAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 10 0.15
21 1 0.01
22 56 0.84
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATAGATAC
Found at i:369372 original size:21 final size:21
Alignment explanation
Indices: 369332--369372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
369322 GTTAACCTTG
*
369332 TGTATTGATACCAATAGTATA
1 TGTATTGATACCAACAGTATA
369353 TGTATTGATA-CAACACGTAT
1 TGTATTGATACCAACA-GTAT
369373 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (21 bp):
TGTATTGATACCAACAGTATA
Found at i:369862 original size:13 final size:13
Alignment explanation
Indices: 369844--369868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
369834 AATGCCCGAA
369844 TGTATCGATACAT
1 TGTATCGATACAT
369857 TGTATCGATACA
1 TGTATCGATACA
369869 ATGAGCAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:369882 original size:20 final size:20
Alignment explanation
Indices: 369857--369909 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
369847 ATCGATACAT
*
369857 TGTATCGATACAATGAGCAA
1 TGTATCGATACAATGAACAA
369877 TGTATCGATACAATGAACAA
1 TGTATCGATACAATGAACAA
369897 TGTATCGATACAA
1 TGTATCGATACAA
369910 ATTGTGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAATGAACAA
Found at i:376170 original size:13 final size:13
Alignment explanation
Indices: 376152--376177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
376142 TACACCAAGT
376152 ATGTATCGATACA
1 ATGTATCGATACA
376165 ATGTATCGATACA
1 ATGTATCGATACA
376178 CCAAAAAATT
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:376196 original size:34 final size:32
Alignment explanation
Indices: 376134--376198 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
376124 TATCCAAACT
**
376134 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
376166 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
376199 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:380060 original size:52 final size:53
Alignment explanation
Indices: 379994--380143 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 53
379984 ATGAGAAAGG
*
379994 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAATGCA-AAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGCAGAAGAA
* * * * * * * *
380046 TGTCAATATACTGATTCACGGCCAGCGACATTAGACTTGAAGATG-AGAAGAC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGCAGAAGAA
* * * *
380098 TGCCAATGTGCTAATTTAAGGCCAGCAACATTGGGCTTAAAAATGC
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGC
380144 CAATATGCTA
Statistics
Matches: 76, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
51 1 0.01
52 75 0.99
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (53 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGCAGAAGAA
Found at i:380162 original size:43 final size:43
Alignment explanation
Indices: 380098--380224 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 43
380088 ATGAGAAGAC
* * *
380098 TGCCAATGTGCTAATTTAAGGCCAGCAACATTGGGCTTAAAAA
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAAA
* ** * * **
380141 TGCCAATATGCTAATTCAAGGCTGGCGATATTAGACTTAAAGG
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAAA
* *
380184 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
1 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAA
380225 GATGGTAAAG
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (43 bp):
TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAAA
Found at i:380225 original size:43 final size:43
Alignment explanation
Indices: 380098--380376 Score: 180
Period size: 52 Copynumber: 6.0 Consensus size: 43
380088 ATGAGAAGAC
* * * * **
380098 TGCCAATGTGCTAATTTAAGGCCAGCAACATTGGGCTTAAAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGG
* * ** * *
380141 TGCCAATATGCTAATTCAAGGCTGGCGATATTAGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGG
* * *
380184 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGAC-------T--TAAAGG
* * *
380236 TGCCAATGTTCTGATTCAAGGCAAGCAACATTGGACTTAAAGATGGTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGAC-------T--TAAAGG
* * * *
380288 TGCCAATATGCTGATTCAAAGCCAGCGATATTAGACTTAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGG
*
380331 TGACCAATGTGCTGATTCAAGGCCAGCAACAATAGACTTAAAGG
1 TG-CCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGG
380375 TG
1 TG
380377 GTGTCGTAAC
Statistics
Matches: 193, Mismatches: 33, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
43 70 0.36
44 38 0.20
45 1 0.01
50 1 0.01
52 83 0.43
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (43 bp):
TGCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGG
Found at i:380256 original size:52 final size:52
Alignment explanation
Indices: 380178--380329 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
380168 ATATTAGACT
*
380178 TAAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * *
380230 TAAAGGTGCCAATGTTCTGATTCAAGGCAAGCAACATTGGACTTAAAGATGG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG
* * * *
380282 TAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTAGACTTAAAG
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
380330 GTGACCAATG
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG
Found at i:380344 original size:44 final size:43
Alignment explanation
Indices: 380282--380376 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 43
380272 TTAAAGATGG
* * *
380282 TAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATTAGACT
1 TAAAGGTGCCAATATGCTGATTCAAAGCCAGCAACAATAGACT
* *
380325 TAAAGGTGACCAATGTGCTGATTCAAGGCCAGCAACAATAGACT
1 TAAAGGTG-CCAATATGCTGATTCAAAGCCAGCAACAATAGACT
380369 TAAAGGTG
1 TAAAGGTG
380377 GTGTCGTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 8 0.17
44 38 0.83
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTGATTCAAAGCCAGCAACAATAGACT
Found at i:381495 original size:51 final size:51
Alignment explanation
Indices: 381439--381546 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
381429 AGGTTGAAAC
*
381439 ATCCCCGATTATAGG-AAATCGACGTTTTGAGAATAAAA-TCGAGGTTGGAGT
1 ATCCCCGATTAT-GGAAAATCGACGTTTTGAAAATAAAACT-GAGGTTGGAGT
* * *
381490 ATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTTGGAGT
1 ATCCCCGATTATGGAAAATCGACGTTTTGAAAATAAAACTGAGGTTGGAGT
381541 ATCCCC
1 ATCCCC
381547 TCAAAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.04
51 48 0.94
52 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (51 bp):
ATCCCCGATTATGGAAAATCGACGTTTTGAAAATAAAACTGAGGTTGGAGT
Found at i:381645 original size:28 final size:28
Alignment explanation
Indices: 381612--381680 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
381602 TAAGGTCGGT
381612 GTTGGAGTATCCTCACGAAAATAACGGG
1 GTTGGAGTATCCTCACGAAAATAACGGG
* *
381640 GTTGGAGTATCCCCGCGAAAATAACGGG
1 GTTGGAGTATCCTCACGAAAATAACGGG
381668 GTTGGAGTATCCT
1 GTTGGAGTATCCT
381681 TGATTATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (28 bp):
GTTGGAGTATCCTCACGAAAATAACGGG
Found at i:381662 original size:107 final size:107
Alignment explanation
Indices: 381530--381730 Score: 276
Period size: 107 Copynumber: 1.9 Consensus size: 107
381520 AAATAAAACT
* *
381530 GGGGTTGGAGTATCCCCTCAAAAATAATAGGATTAGAGTATCCCCGATTATGAAAAATTGATGCT
1 GGGGTTGGAGTATCCCCGCAAAAATAACAGGATTAGAGTATCCCCGATTATGAAAAATTGATGCT
*** *
381595 TTAGAAATAAGGTCGGTGTTGGAGTATCCTCACGAAAATAAC
66 TTAGAAATAAAACCGGGGTTGGAGTATCCTCACGAAAATAAC
* * * * ** *
381637 GGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCTTGATTATGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCCGCAAAAATAACAGGATTAGAGTATCCCCGATTATGAAAAATTGATGCT
*
381702 TTGGAAATAAAACCGGGGTTGGAGTATCC
66 TTAGAAATAAAACCGGGGTTGGAGTATCC
381731 CCGAGATGAA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 80 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (107 bp):
GGGGTTGGAGTATCCCCGCAAAAATAACAGGATTAGAGTATCCCCGATTATGAAAAATTGATGCT
TTAGAAATAAAACCGGGGTTGGAGTATCCTCACGAAAATAAC
Found at i:383981 original size:20 final size:20
Alignment explanation
Indices: 383956--384008 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
383946 TCTGGGCAAT
*
383956 TGTATCGATACAATGCAA-AA
1 TGTATCGATACAAT-AAACAA
383976 TGTATCGATACAATAAACAA
1 TGTATCGATACAATAAACAA
383996 TGTATCGATACAA
1 TGTATCGATACAA
384009 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAATAAACAA
Found at i:384751 original size:43 final size:43
Alignment explanation
Indices: 384702--385002 Score: 231
Period size: 43 Copynumber: 6.8 Consensus size: 43
384692 AAAAAGAGTA
*
384702 CGTCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACGAAATG
1 CGTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAATGAAATG
* *
384745 CGTCCTGCTCTTTGAGGACAAAAGGGAAAAAGAAAAAT-AAAGTG
1 CGTCCTGCTCTTTGAGGAC-AAAGGAAAAAAGGAAAATGAAA-TG
*
384789 C--CCTGCTCTTTGAGGACAAAAGGAAAAAAAAGG-AAATGAAGTG
1 CGTCCTGCTCTTTGAGGAC-AAAGG--AAAAAAGGAAAATGAAATG
* * *
384832 CGTCCTGCTCTTTGAGGATAAAAAGGGGAAAATAAGG-AAATGGAACG
1 CGTCCTGCTCTTTGAGG--ACAAA--GGAAAA-AAGGAAAATGAAATG
* * * *
384879 TGTCCTACTCATTGAGGACAAAGGAGAAAAGGAAAAT-AAAGTG
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAA-TG
** * *
384922 CGTCCTGCTCTTTGAAAACAAAAGGGAAAAGAAGG-AAATGGAACG
1 CGTCCTGCTCTTTGAGGAC-AAA-GGAAAA-AAGGAAAATGAAATG
* * * * *
384967 TGTCCTGCTTTTTGAGGATAAAGGAGAAAACGAAAA
1 CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAA
385003 GGCATCCTAC
Statistics
Matches: 206, Mismatches: 32, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
42 31 0.15
43 57 0.28
44 35 0.17
45 42 0.20
46 13 0.06
47 26 0.13
48 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (43 bp):
CGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATG
Found at i:384957 original size:135 final size:134
Alignment explanation
Indices: 384746--384988 Score: 341
Period size: 135 Copynumber: 1.8 Consensus size: 134
384736 AACGAAATGC
* * **
384746 GTCCTGCTCTTTGAGGACAAAAGGGAAAAAGAAAAATAAAGTGCCCTGCTCTTTGAGGACAAAAG
1 GTCCTACTCATTGAGGACAAAAGGGAAAAAGAAAAATAAAGTGCCCTGCTCTTTGAAAACAAAAG
384811 GAAAAAAAAGGAAAT-GAA-GTGCGTCCTGCTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATG
66 GAAAAAAAAGGAAATGGAACGT--GTCCTGCTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATG
384874 GAACGT
129 GAACGT
*
384880 GTCCTACTCATTGAGGAC-AAA-GGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAAAACAA
1 GTCCTACTCATTGAGGACAAAAGGGA-AAAAGAAAAATAAAGTGC--CCTGCTCTTTGAAAACAA
* * *
384943 AAGGGAAAAGAAGGAAATGGAACGTGTCCTGCTTTTTGAGGATAAA
63 AAGGAAAAAAAAGGAAATGGAACGTGTCCTGCTCTTTGAGGATAAA
384989 GGAGAAAACG
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
132 3 0.03
133 20 0.21
134 16 0.17
135 52 0.54
136 3 0.03
137 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (134 bp):
GTCCTACTCATTGAGGACAAAAGGGAAAAAGAAAAATAAAGTGCCCTGCTCTTTGAAAACAAAAG
GAAAAAAAAGGAAATGGAACGTGTCCTGCTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATGGA
ACGT
Found at i:384965 original size:88 final size:88
Alignment explanation
Indices: 384703--385002 Score: 328
Period size: 88 Copynumber: 3.4 Consensus size: 88
384693 AAAAGAGTAC
* **
384703 GTCCTGCT-TTTCGAGGACAAAGGAAAAAAGGAAAACGAAA-TGCGTCCTGCTCTTTGAGGACAA
1 GTCCTGCTCTTT-GAGGACAAAGGAAAAAAGGAAAA-TAAAGTGCGTCCTGCTCTTTGAAAACAA
*
384766 AAGGGAAAAAGAA--AAAT--AAAGT
64 AAGGG-AAAAGAAGGAAATGGAACGT
* *
384788 GCCCTGCTCTTTGAGGACAAAAGGAAAAAAAAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGATA
1 GTCCTGCTCTTTGAGGAC-AAAGG--AAAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGA--A-A
* *
384852 A-AAAGGGGAAAATAAGGAAATGGAACGT
60 ACAAAAGGGAAAAGAAGGAAATGGAACGT
* * *
384880 GTCCTACTCATTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAAAACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAAAACAAAA
384945 GGGAAAAGAAGGAAATGGAACGT
66 GGGAAAAGAAGGAAATGGAACGT
* * * *
384968 GTCCTGCTTTTTGAGGATAAAGGAGAAAACGAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAA
385003 GGCATCCTAC
Statistics
Matches: 181, Mismatches: 20, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
85 13 0.07
86 10 0.06
87 22 0.12
88 70 0.39
89 13 0.07
90 29 0.16
91 5 0.03
92 19 0.10
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (88 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAAAACAAAA
GGGAAAAGAAGGAAATGGAACGT
Found at i:384996 original size:45 final size:43
Alignment explanation
Indices: 384703--384996 Score: 203
Period size: 45 Copynumber: 6.7 Consensus size: 43
384693 AAAAGAGTAC
* * *
384703 GTCCTGCT-TTTCGAGGACAAA-GGAAAA-AAGGAAAACGAAATGC
1 GTCCTGCTCTTT-GAGGAAAAAGGGAAAAGAAGG-AAATGAAA-GT
384746 GTCCTGCTCTTTGAGGACAAAAGGGAAAAAGAA--AAAT-AAAGT
1 GTCCTGCTCTTTGAGGA-AAAAGGG-AAAAGAAGGAAATGAAAGT
* * *
384788 GCCCTGCTCTTTGAGGACAAAAGGAAAAAAAAGGAAATG-AAGT
1 GTCCTGCTCTTTGAGGA-AAAAGGGAAAAGAAGGAAATGAAAGT
* *
384831 GCGTCCTGCTCTTTGAGGATAAAAAGGGGAAAATAAGGAAATGGAACGT
1 --GTCCTGCTCTTTGAGG--AAAAA-GGGAAAAGAAGGAAAT-GAAAGT
* * * *
384880 GTCCTACTCATTGAGGACAAAGGAGAAAAG--GAAAAT-AAAGT
1 GTCCTGCTCTTTGAGGAAAAAGG-GAAAAGAAGGAAATGAAAGT
** *
384921 GCGTCCTGCTCTTTGAAAACAAAAGGGAAAAGAAGGAAATGGAACGT
1 --GTCCTGCTCTTTGAGGA-AAAAGGGAAAAGAAGGAAAT-GAAAGT
* *
384968 GTCCTGCTTTTTGAGGATAAAGGAGAAAA
1 GTCCTGCTCTTTGAGGAAAAAGG-GAAAA
384997 CGAAAAGGCA
Statistics
Matches: 200, Mismatches: 27, Indels: 46
0.73 0.10 0.17
Matches are distributed among these distances:
41 10 0.05
42 24 0.12
43 48 0.24
44 21 0.10
45 50 0.25
46 8 0.04
47 35 0.17
48 1 0.00
49 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGAAAAAGGGAAAAGAAGGAAATGAAAGT
Found at i:385091 original size:61 final size:61
Alignment explanation
Indices: 384992--385493 Score: 535
Period size: 60 Copynumber: 8.2 Consensus size: 61
384982 GGATAAAGGA
* * * **
384992 GAAAACGAAAAGGCATCCTACTCTTCGAAGACTCAAAAGTGCCACCAACTCCTGTGGGCTTT
1 GAAAA-GAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
385054 GAAAAGAAAAGGCATCCTGCTTTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGACTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAA-GTGCCACCAACTTGTGTGGGCTTT
** * * * *
385116 GAAAAGAAAAAGGTTTCCTACTCTTTGAGGACTAAGAGGTGCCACCAACTTGTATAGGCTTT
1 GAAAAG-AAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
** * *
385178 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTCT
1 GAAAAG-AAAAGGCATCCTACTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* * * *
385241 GAAAGGAAAAGGCATCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
385301 GAAAGGAGAAGGCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTTTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * ***
385361 GAAAGGAAAAGGCATCCTGCTTTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* * *** *
385422 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGAGCTTT
1 GAAAAG-AAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
385483 -AAAACGAAAAG
1 GAAAA-GAAAAG
385494 AATAAATTAA
Statistics
Matches: 387, Mismatches: 47, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
60 113 0.29
61 112 0.29
62 109 0.28
63 53 0.14
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:385296 original size:60 final size:61
Alignment explanation
Indices: 384998--385493 Score: 525
Period size: 61 Copynumber: 8.1 Consensus size: 61
384988 AGGAGAAAAC
* * ** * ** *
384998 GAAAAGGCATCCTACTCTTCGAAGACTCAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAA
1 GAAAAGGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * ** * *
385059 GAAAAGGCATCCTGCTTTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGACTTTGAAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG
* ** * * *
385122 AAAAAGGTTTCCTACTCTTTGAGGACT-AAGAGGTGCCACCAACTTGTATAGGCTTTGAAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACTGGA-AGGTGCCACCAACTTGTGTGGGCTTTG-AAAG
* ** * * * *
385184 AAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTCTGAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
385246 GAAAAGGCATCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
385306 GAGAAGGCGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTTTGTGGGCTTTGAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
385366 GAAAAGGCATCCTGCTTTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GAAAAGGCATCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * * *
385427 AAAAAGGCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTTAAAAC
1 GAAAAGGCATCCTACTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
385488 GAAAAG
1 GAAAAG
385494 AATAAATTAA
Statistics
Matches: 380, Mismatches: 48, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
60 109 0.29
61 112 0.29
62 109 0.29
63 48 0.13
64 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
GAAAAGGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:386258 original size:29 final size:29
Alignment explanation
Indices: 386197--386254 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
386187 GTTATTGTTA
386197 TTAA-AATTATTTTAATATAAATAATATT
1 TTAATAATTATTTTAATATAAATAATATT
386225 TTAATAATTA-TTTAATATAAA-AATAATT
1 TTAATAATTATTTTAATATAAATAAT-ATT
386253 TT
1 TT
386255 TAATTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 3 0.11
28 20 0.71
29 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAATAATTATTTTAATATAAATAATATT
Found at i:386345 original size:31 final size:31
Alignment explanation
Indices: 386282--386345 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
386272 ATAATAATAA
* *
386282 TTATTTAATATAAATTAATTTTATTTATATT
1 TTATTTAATATAAATTAATTTTATATAAATT
* *
386313 TTATTTGATATAAATATATTTTTA-ATAAATT
1 TTATTTAATATAAAT-TAATTTTATATAAATT
386344 TT
1 TT
386346 TATAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
TTATTTAATATAAATTAATTTTATATAAATT
Found at i:386476 original size:20 final size:21
Alignment explanation
Indices: 386453--386499 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
386443 TTAATTTAAC
*
386453 TATTATAATATTTAATTAT-T
1 TATTATAATAATTAATTATAT
*
386473 TATTATAATAATTAATTTTAT
1 TATTATAATAATTAATTATAT
386494 TATTAT
1 TATTAT
386500 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATAATAATTAATTATAT
Found at i:388215 original size:15 final size:15
Alignment explanation
Indices: 388195--388233 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
388185 AATGTAATAT
*
388195 AATTAATATGTTTAA
1 AATTAATATATTTAA
*
388210 AATTAATTTATTTAA
1 AATTAATATATTTAA
*
388225 ATTTAATAT
1 AATTAATAT
388234 TACATTATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
AATTAATATATTTAA
Found at i:389052 original size:19 final size:21
Alignment explanation
Indices: 389016--389063 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
389006 AAAGCCAGTA
*
389016 ATATATAAATTTATTAT-ATTT
1 ATATA-AAAATTATTATAATTT
389037 ATATAAAAATTA-TATAATTT
1 ATATAAAAATTATTATAATTT
*
389057 AGATAAA
1 ATATAAA
389064 CATGTTACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 16 0.67
21 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATATAAAAATTATTATAATTT
Found at i:389446 original size:20 final size:20
Alignment explanation
Indices: 389399--389461 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
389389 TAAACATTGT
389399 CTAATTATATAAAAATATT-A
1 CTAATTATAT-AAAATATTAA
* *
389419 CCAGTTATATAAAATATTAA
1 CTAATTATATAAAATATTAA
* *
389439 CTAATTATGTAAAA-ATTAC
1 CTAATTATATAAAATATTAA
389458 CTAA
1 CTAA
389462 AAATAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.37
Consensus pattern (20 bp):
CTAATTATATAAAATATTAA
Found at i:390672 original size:21 final size:21
Alignment explanation
Indices: 390647--390687 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
390637 CGATTTAAAG
390647 CTCTAAAACATTTATTGATAA
1 CTCTAAAACATTTATTGATAA
390668 CTCTAAAACATTTATTGATA
1 CTCTAAAACATTTATTGATA
390688 TTGAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (21 bp):
CTCTAAAACATTTATTGATAA
Found at i:391103 original size:78 final size:78
Alignment explanation
Indices: 391005--391158 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
390995 TAAAATATTG
* * * * *
391005 TTTTCAACAAAATTACATAAAATATTGCCTAATTACCTAAAAAGATTA-CAAATTAAATAAAATA
1 TTTTCAACAAAATTACATAAAATATTACCAAATTACAT-AAAACATTACCAAATTAAAGAAAATA
391069 TTACCTAAGAATAA
65 TTACCTAAGAATAA
* * * * * **
391083 TTTTCAATAGAATTATATAAAATATTACCAAATTACATAAATCATTACCACATTATGGAAAATAT
1 TTTTCAACAAAATTACATAAAATATTACCAAATTACATAAAACATTACCAAATTAAAGAAAATAT
391148 TACCTAAGAAT
66 TACCTAAGAAT
391159 TTTCATTAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
77 7 0.11
78 56 0.89
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (78 bp):
TTTTCAACAAAATTACATAAAATATTACCAAATTACATAAAACATTACCAAATTAAAGAAAATAT
TACCTAAGAATAA
Found at i:391116 original size:20 final size:20
Alignment explanation
Indices: 391093--391151 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
391083 TTTTCAATAG
391093 AATTATATAAAATATTACCA
1 AATTATATAAAATATTACCA
*
391113 AATTACAT-AAATCATTACCA
1 AATTATATAAAAT-ATTACCA
* **
391133 CATTATGGAAAATATTACC
1 AATTATATAAAATATTACC
391152 TAAGAATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.32
Consensus pattern (20 bp):
AATTATATAAAATATTACCA
Found at i:391373 original size:21 final size:21
Alignment explanation
Indices: 391291--391375 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
391281 ACTATTATTT
* * *
391291 AAAACATTACTAAATTACTTT
1 AAAACATTACCAAATTACATA
*
391312 AAAACATTGCCAAATTACAT-
1 AAAACATTACCAAATTACATA
* **
391332 AAAATATTA-TGAATT-CTATA
1 AAAACATTACCAAATTAC-ATA
391352 AAAACATTACCAAATTACATA
1 AAAACATTACCAAATTACATA
391373 AAA
1 AAA
391376 TATTTCCTAG
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
18 1 0.02
19 6 0.12
20 15 0.30
21 27 0.54
22 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAACATTACCAAATTACATA
Found at i:392234 original size:19 final size:20
Alignment explanation
Indices: 392210--392262 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
392200 CACACCCAGA
*
392210 TGTATCGATACATGCTC-AC
1 TGTATCGATACATGCACAAC
* * *
392229 TGTATCGATATATGGACAAT
1 TGTATCGATACATGCACAAC
392249 TGTATCGATACATG
1 TGTATCGATACATG
392263 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGCACAAC
Found at i:395607 original size:20 final size:20
Alignment explanation
Indices: 395582--395637 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
395572 TTTTCATAAT
395582 TTGTATCGATACATTGCT-CA
1 TTGTATCGATACATT-CTACA
*
395602 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTCTACA
*
395622 ATGTATCGATACATTC
1 TTGTATCGATACATTC
395638 AGGCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTCTACA
Found at i:397360 original size:13 final size:13
Alignment explanation
Indices: 397342--397367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
397332 CAATTTTTTG
397342 TGTATCGATACAT
1 TGTATCGATACAT
397355 TGTATCGATACAT
1 TGTATCGATACAT
397368 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:404059 original size:13 final size:14
Alignment explanation
Indices: 404041--404069 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
404031 TTTGAAACGA
404041 TTTTTTTGA-ATTT
1 TTTTTTTGATATTT
404054 TTTTTTTGATATTT
1 TTTTTTTGATATTT
404068 TT
1 TT
404070 CCCTCAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTTTGATATTT
Found at i:404753 original size:51 final size:50
Alignment explanation
Indices: 404688--404910 Score: 198
Period size: 51 Copynumber: 4.4 Consensus size: 50
404678 ATTTTTCATC
*
404688 TCGGGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAA-CCCGATTTCATTTCCAAAACATCAATTTTTCTTAA
* * * * **
404739 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTTTCGCAA
1 TCGGGGATACTCCAAC-CCGATTTCATTTCCAAAACATCAATTTTTCTTAA
* * * *
404790 CCGAGGATACTCCAATCCCGGTTTCATCTCCAAAAC-TGCAATTTTTCTTAA
1 TCGGGGATACTCCAA-CCCGATTTCATTTCCAAAACAT-CAATTTTTCTTAA
** * * * *
404841 TCGATCGATACTCCAACTCTGATTTTA-TTCTCAAAACACCAATTTTTCATAA
1 TCG-GGGATACTCCAAC-CCGATTTCATTTC-CAAAACATCAATTTTTCTTAA
**
404893 TTAGGGATACTCCAACCC
1 TCGGGGATACTCCAACCC
404911 CGTTATTTCC
Statistics
Matches: 134, Mismatches: 31, Indels: 15
0.74 0.17 0.08
Matches are distributed among these distances:
50 3 0.02
51 95 0.71
52 36 0.27
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (50 bp):
TCGGGGATACTCCAACCCGATTTCATTTCCAAAACATCAATTTTTCTTAA
Found at i:404946 original size:79 final size:79
Alignment explanation
Indices: 404847--404994 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
404837 TTAATCGATC
* * *
404847 GATACTCCAACTCTGATTTTAT-TCTCAAAACACCAATTTTTCATAAT-TAGGGATACTCCAACC
1 GATACTCCAACCCCGATTTTATAT-TCAAAACACCAATTTTTCATAATCGAGGG-TACTCCAACC
404910 CCGTTATTTCCGAGGG
64 CCGTTATTTCCGAGGG
* * * ***
404926 GATACTCCAACCCCGGTTTTATATTTAAAATATTGATTTTTCATAATCGAGGGTACTCCAACCCC
1 GATACTCCAACCCCGATTTTATATTCAAAACACCAATTTTTCATAATCGAGGGTACTCCAACCCC
404991 GTTA
66 GTTA
404995 GGTCATCGGG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
79 53 0.91
80 5 0.09
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCCGATTTTATATTCAAAACACCAATTTTTCATAATCGAGGGTACTCCAACCCC
GTTATTTCCGAGGG
Found at i:405090 original size:107 final size:107
Alignment explanation
Indices: 404896--405094 Score: 267
Period size: 107 Copynumber: 1.9 Consensus size: 107
404886 TTCATAATTA
* * ***
404896 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATATTTAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATATTTAAAATACCA
* *
404961 ATTTTTCATAATCGAGGGTACTCCAACCCCGTTAGGTCATCG
66 AATTTTCACAATCGAGGGTACTCCAACCCCGTTAGGTCATCG
* * * *
405003 GGGATACTCCAATCCTGTTATTTCCGAAGGGATACTCCAACCTCGATTTT-TTTTCTAAAATACC
1 GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATATT-TAAAATACC
405067 AAATTTTCACAATCG-GGGATACTCCAAC
65 AAATTTTCACAATCGAGGG-TACTCCAAC
405095 TCCGATTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 6 0.08
107 73 0.92
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATATTTAAAATACCA
AATTTTCACAATCGAGGGTACTCCAACCCCGTTAGGTCATCG
Found at i:405140 original size:51 final size:51
Alignment explanation
Indices: 405034--405146 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 51
405024 TTCCGAAGGG
* * *
405034 ATACTCCAACCTCGATTTTTTTTCTAAAATACCAAATTTTCACAATCGGGG
1 ATACTCCAACCTCGATTTTTTTTCTAAAACACCAAATTTTCACAATCAGGA
*
405085 ATACTCCAA-CTCCGATTTTATTTTC-AAAACACC-AATTTTCTATAATCAGGA
1 ATACTCCAACCT-CGATTTT-TTTTCTAAAACACCAAATTTTC-ACAATCAGGA
*
405136 ATACTCTAACC
1 ATACTCCAACC
405147 CCGTTATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
50 9 0.17
51 38 0.72
52 6 0.11
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.35
Consensus pattern (51 bp):
ATACTCCAACCTCGATTTTTTTTCTAAAACACCAAATTTTCACAATCAGGA
Found at i:405167 original size:79 final size:78
Alignment explanation
Indices: 405084--405309 Score: 267
Period size: 79 Copynumber: 2.9 Consensus size: 78
405074 CACAATCGGG
* *
405084 GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGAATACTCTAACCCC
1 GATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCC
* *
405149 GTTATTTTTGAGGA
65 ATTATTTTCGAGGA
* * * *
405163 GATACTCTAACCCCGATTTTAGTTTT-AAAATATCGATTTTCTATAATCAGGGATACTCCAACCC
1 GATACTCCAA-CCCGATTTTA-TTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCC
* *
405227 TATTATTTTCGAGGG
64 CATTATTTTCGAGGA
* * * *
405242 GATACTCCAACCTCGATTTTACTTCCAAAACACCAATTTT-TCATAATCGGGGATACTCCAGCCC
1 GATACTCCAACC-CGATTTTATTTTCAAAACACCAATTTTCT-ATAATCAGGGATACTCCAACCC
405306 CATT
64 CATT
405310 TTATCTCCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 5 0.04
79 113 0.92
80 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAACCCCA
TTATTTTCGAGGA
Found at i:406702 original size:94 final size:94
Alignment explanation
Indices: 406541--406728 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 94
406531 AGAAATACTT
*
406541 TTAAACCCATAAACATCGTCACGACATCTAGAGTATTGCAACTAGTTCACATCGATCTTTTTGGT
1 TTAAACCCATAAACATCGTCACGACATCTAGAGTATTGCAACTAGTTCACATCGATCCTTTTGGT
406606 CCAACTAGAACGTAAAGTCTAGGTGGTAA
66 CCAACTAGAACGTAAAGTCTAGGTGGTAA
* *
406635 TTAAACCCATAAACATCGTCATGACATCTAGAGTCTTGCAACTAGTTCACATCGATCCTTTTGGT
1 TTAAACCCATAAACATCGTCACGACATCTAGAGTATTGCAACTAGTTCACATCGATCCTTTTGGT
406700 CCAACTAGAACGTAAAGTCTAGGTGGTAA
66 CCAACTAGAACGTAAAGTCTAGGTGGTAA
406729 GAGATATGGA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (94 bp):
TTAAACCCATAAACATCGTCACGACATCTAGAGTATTGCAACTAGTTCACATCGATCCTTTTGGT
CCAACTAGAACGTAAAGTCTAGGTGGTAA
Found at i:409345 original size:32 final size:34
Alignment explanation
Indices: 409304--409371 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 34
409294 ATGTGGTATT
* *
409304 ATGATTTTTGATGATTTA-TGTTTTGT-TG-TTGA
1 ATGAATTTTGATG-TTTATTGTGTTGTATGATTGA
409336 ATGAATTTTGATGTTTATTGTGTTGTATGATTGA
1 ATGAATTTTGATGTTTATTGTGTTGTATGATTGA
409370 AT
1 AT
409372 TATGTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.13
32 19 0.61
33 2 0.06
34 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (34 bp):
ATGAATTTTGATGTTTATTGTGTTGTATGATTGA
Found at i:412058 original size:20 final size:19
Alignment explanation
Indices: 412010--412066 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
412000 TTGTATCAAT
412010 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
412029 TCACTGTATCGATACATGG
1 ACATTGTATCGATACATGC
412048 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
412067 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:413474 original size:27 final size:27
Alignment explanation
Indices: 413436--413489 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
413426 AGGCAAAGAG
413436 TCGAACCTCTATAAATCGATTTTATTT
1 TCGAACCTCTATAAATCGATTTTATTT
413463 TCGAACCTCTATAAATCGATTTTATTT
1 TCGAACCTCTATAAATCGATTTTATTT
413490 ACTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (27 bp):
TCGAACCTCTATAAATCGATTTTATTT
Found at i:416762 original size:19 final size:19
Alignment explanation
Indices: 416723--416773 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
416713 TCAAATTATT
* *
416723 TAAAATATTACCGAATTACA
1 TAAAATATTA-TGAATCACA
416743 TAAAATATTATGAATCACA
1 TAAAATATTATGAATCACA
416762 TAAAATCATTAT
1 TAAAAT-ATTAT
416774 CAAATTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAATATTATGAATCACA
Found at i:416791 original size:20 final size:19
Alignment explanation
Indices: 416736--416792 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
416726 AATATTACCG
* *
416736 AATTACATAAAATATTATG
1 AATTACATAAAACATTATA
*
416755 AATCACATAAAATCATTATCA
1 AATTACATAAAA-CATTAT-A
*
416776 AATTACATAAAGCATTA
1 AATTACATAAAACATTA
416793 ACTAAGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 11 0.35
20 10 0.32
21 10 0.32
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.32
Consensus pattern (19 bp):
AATTACATAAAACATTATA
Found at i:416854 original size:21 final size:20
Alignment explanation
Indices: 416813--416856 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
416803 TTCATGAGAG
* *
416813 TTACATATAACATTGCAAAA
1 TTACATACAACATTACAAAA
*
416833 TTACATACAATCATTACCAAA
1 TTACATACAA-CATTACAAAA
416854 TTA
1 TTA
416857 TGTAAAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (20 bp):
TTACATACAACATTACAAAA
Found at i:416998 original size:20 final size:20
Alignment explanation
Indices: 416938--416991 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
416928 TTCTACAACT
* *
416938 TGTATCGATATAACAAGTGAA
1 TGTATCGATA-CATAAGTGAA
*
416959 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
416979 TGTATCGATACAT
1 TGTATCGATACAT
416992 GCTTGAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:417166 original size:40 final size:40
Alignment explanation
Indices: 417088--417168 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
417078 ACATTCTAAG
* * *
417088 TTTTGATCCAAATGCATAGATACATTCTTCATTGTATCGA
1 TTTTGACCCAAATACATAGATACATTCTTAATTGTATCGA
* *
417128 TTTTGACCCAAATATATCGATACATTCTTTAATT-TATCGA
1 TTTTGACCCAAATACATAGATACATTC-TTAATTGTATCGA
417168 T
1 T
417169 ACATCGAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 30 0.86
41 5 0.14
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (40 bp):
TTTTGACCCAAATACATAGATACATTCTTAATTGTATCGA
Found at i:420677 original size:21 final size:21
Alignment explanation
Indices: 420651--420690 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
420641 TTTTATCATA
*
420651 ATTAAATAAAAACATTACTAC
1 ATTAAATAAAAAAATTACTAC
420672 ATTAAATAAAAAAATTACT
1 ATTAAATAAAAAAATTACT
420691 GGGTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTAAATAAAAAAATTACTAC
Found at i:421726 original size:165 final size:167
Alignment explanation
Indices: 421521--421901 Score: 407
Period size: 165 Copynumber: 2.3 Consensus size: 167
421511 TAATTACCAT
* *
421521 TAAATTAGTTTTTCAAAATT-ATTTTTATTTCATGAGTTTTTCATTTTTTCCTTGAAA-TTCTCA
1 TAAATTAG-TTTTAAAAATTCATTTATATTTCATGAGTTTTTCATTTTTTCCTTGAAATTTC-CA
** * * * * *
421584 TGTTTTTGAAATATAGAGTTTTCTACTCCGTCAA-TGTTTTTGGGGAGATTTTT-TTAGTTT-AT
64 TGTTTGCGAAAAATAGAGTTTTCTACTCCAT-AATTGTTTTTGAGAAGATTTTTCTTAGTTTAAA
* ** * *
421646 AATTTTTAAAATTTTTCAAATATTATCATTTAATTCATAG
128 AAATTTTAAAATTCATCAAATATTATCATTAAATTCACAG
* *
421686 TAAATTAGTTTTAAAAGATTCATTTAT-TTTCTTGAGTTTTTCATTTTTTCCTTGAAATTTCCTT
1 TAAATTAGTTTTAAAA-ATTCATTTATATTTCATGAGTTTTTCATTTTTTCCTTGAAATTTCCAT
* * * *
421750 GTTTGCGAAAAATGGAGTTTTCTTCTCCATAATTTTTTTTGAGAAGATTTTTCTTGGTTTAAAAA
65 GTTTGCGAAAAATAGAGTTTTCTACTCCATAATTGTTTTTGAGAAGATTTTTCTTAGTTTAAAAA
* * *
421815 ATTTTAAAATTCATCTAATATTGTCATTAAATTCACAT
130 ATTTTAAAATTCATCAAATATTATCATTAAATTCACAG
* ** * **
421853 TAAATCAGTTTTAAAAAATTCAAAT-TATTTCATGAATTTTGAATTTTTT
1 TAAATTAGTTTT-AAAAATTCATTTATATTTCATGAGTTTTTCATTTTTT
421902 TGTATATATT
Statistics
Matches: 178, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
164 9 0.05
165 82 0.46
166 15 0.08
167 68 0.38
168 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (167 bp):
TAAATTAGTTTTAAAAATTCATTTATATTTCATGAGTTTTTCATTTTTTCCTTGAAATTTCCATG
TTTGCGAAAAATAGAGTTTTCTACTCCATAATTGTTTTTGAGAAGATTTTTCTTAGTTTAAAAAA
TTTTAAAATTCATCAAATATTATCATTAAATTCACAG
Found at i:428949 original size:68 final size:68
Alignment explanation
Indices: 428869--429004 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
428859 CTATATTAAC
428869 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCAGAAATTATTTCGAAAATAAC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCAGAAATTATTTCGAAAATAAC
428934 AAT
66 AAT
* *
428937 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATAAC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCAGAAATTATTTCGAAAATAAC
429002 AAT
66 AAT
429005 AATATGTTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (68 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCAGAAATTATTTCGAAAATAAC
AAT
Found at i:429251 original size:20 final size:20
Alignment explanation
Indices: 429228--429300 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
429218 ACAATTCAAA
429228 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
429248 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
429269 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
429289 GTATCGATACAT
1 GTATCGATACAT
429301 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:429272 original size:21 final size:21
Alignment explanation
Indices: 429246--429321 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
429236 ACATGTTGCA
429246 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
429267 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
429287 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
429308 ATGTATCGATACAT
1 ATGTATCGATACAT
429322 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:429279 original size:41 final size:41
Alignment explanation
Indices: 429228--429321 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
429218 ACAATTCAAA
*
429228 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
429269 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
429310 GTATCGATACAT
1 GTATCGATACAT
429322 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:429378 original size:13 final size:13
Alignment explanation
Indices: 429360--429385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
429350 TACAGCAAGT
429360 ATGTATCGATACA
1 ATGTATCGATACA
429373 ATGTATCGATACA
1 ATGTATCGATACA
429386 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:433471 original size:15 final size:15
Alignment explanation
Indices: 433451--433481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
433441 TAAAAATGTC
*
433451 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
433466 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
433481 C
1 C
433482 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:435574 original size:20 final size:21
Alignment explanation
Indices: 435495--435573 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
435485 AATGTCCAAA
*
435495 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
435515 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
435540 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
435560 TTGTATCGATACAT
1 ATGTATCGATACAT
435574 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:435578 original size:13 final size:13
Alignment explanation
Indices: 435560--435598 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
435550 ACATTTTTCT
435560 TTGTATCGATACA
1 TTGTATCGATACA
435573 TTGTATCGATACA
1 TTGTATCGATACA
*
435586 CTGTATCGATACA
1 TTGTATCGATACA
435599 GGGTGATTAT
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:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:438060 original size:20 final size:20
Alignment explanation
Indices: 438037--438109 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
438027 ACAATTCAAA
438037 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
438057 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
438078 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
438098 GTATCGATACAT
1 GTATCGATACAT
438110 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:438081 original size:21 final size:21
Alignment explanation
Indices: 438055--438130 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
438045 ACATGTTGCA
438055 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
438076 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
438096 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
438117 ATGTATCGATACAT
1 ATGTATCGATACAT
438131 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:438088 original size:41 final size:41
Alignment explanation
Indices: 438037--438130 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
438027 ACAATTCAAA
*
438037 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
438078 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
438119 GTATCGATACAT
1 GTATCGATACAT
438131 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:438187 original size:13 final size:13
Alignment explanation
Indices: 438169--438194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
438159 TACAGCAAGT
438169 ATGTATCGATACA
1 ATGTATCGATACA
438182 ATGTATCGATACA
1 ATGTATCGATACA
438195 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:439241 original size:13 final size:13
Alignment explanation
Indices: 439223--439248 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
439213 TACAGCAAGT
439223 ATGTATCGATACA
1 ATGTATCGATACA
439236 ATGTATCGATACA
1 ATGTATCGATACA
439249 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:441507 original size:21 final size:21
Alignment explanation
Indices: 441474--441518 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
441464 TTGCAAGTTG
*
441474 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
441496 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
441516 AAA
1 AAA
441519 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:443343 original size:15 final size:15
Alignment explanation
Indices: 443323--443353 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
443313 TAAAAATGTC
*
443323 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
443338 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
443353 C
1 C
443354 CAAACCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:445450 original size:13 final size:13
Alignment explanation
Indices: 445432--445457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
445422 ACATTTTTCT
445432 TTGTATCGATACA
1 TTGTATCGATACA
445445 TTGTATCGATACA
1 TTGTATCGATACA
445458 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:448021 original size:13 final size:13
Alignment explanation
Indices: 448003--448028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
447993 TACAGCAAGT
448003 ATGTATCGATACA
1 ATGTATCGATACA
448016 ATGTATCGATACA
1 ATGTATCGATACA
448029 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:449220 original size:6 final size:6
Alignment explanation
Indices: 449211--449238 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
449201 TTTTATCTTT
449211 AGAGAA AGAGAA AGAGAA AGAGAA AGAG
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAG
449239 TTGTTGCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
AGAGAA
Found at i:452232 original size:170 final size:166
Alignment explanation
Indices: 451930--452334 Score: 501
Period size: 170 Copynumber: 2.4 Consensus size: 166
451920 TTAAAACGAT
* * * * * *
451930 TTTTATTT-TGTTTTT-TGAAAATTTCATTTCATGCCTTAATGGAGGACCAAAAAGGTACGAAAA
1 TTTTATTTATTTTTTTCTCAAAATTTCATTTCGTACCTTAATGGA-GACCAAAAAGATACAAAAA
* * * * * * * *
451993 GTTTGAAAATTTCCATAACCCCATAGATACTTATGGGAATATTAGAAATTTTGAAAAGTTGAGGT
65 GTTTAAAAATTTCCATAACCCCACAGATACCTATAGGAATATTAAAAATTCTGAAAAGTTAAAGT
*
452058 GATAATTTTTATTGGATAAAGTAATAGTTATTTGTTA
130 GATAATTTTTATTGGATAAAGTAATAGTTATTTATTA
* *
452095 TTTTATATT-TTTTTATTCTCAAAAGTTTCATTTCGTACCTTAATGGAGACCTTAAAAGATATAA
1 TTTTAT-TTATTTTT-TTCTCAAAA-TTTCATTTCGTACCTTAATGGAGACC-AAAAAGATACAA
* *
452159 AAAGTTTTAAAAATTTTCATACCCCCACAGATACCTATAGGAATATTAAAAATTCTGAAAAGTTA
62 AAAG-TTTAAAAATTTCCATAACCCCACAGATACCTATAGGAATATTAAAAATTCTGAAAAGTTA
452224 AAGTGATAATTTTTATTGGATAAAGTAATAGTTATTTATTA
126 AAGTGATAATTTTTATTGGATAAAGTAATAGTTATTTATTA
* * * * *
452265 TTTTATTTATTTTTTTCTCAAAAATTTTATTTCGTACTTTAATGGAGACCCGAAAGGATACCAAA
1 TTTTATTTATTTTTTTCTC-AAAATTTCATTTCGTACCTTAATGGAGA-CCAAAAAGATACAAAA
452330 AGTTT
64 AGTTT
452335 GAAATACTTT
Statistics
Matches: 206, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
165 6 0.03
166 6 0.03
167 2 0.01
168 12 0.06
169 73 0.35
170 107 0.52
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (166 bp):
TTTTATTTATTTTTTTCTCAAAATTTCATTTCGTACCTTAATGGAGACCAAAAAGATACAAAAAG
TTTAAAAATTTCCATAACCCCACAGATACCTATAGGAATATTAAAAATTCTGAAAAGTTAAAGTG
ATAATTTTTATTGGATAAAGTAATAGTTATTTATTA
Found at i:455951 original size:20 final size:22
Alignment explanation
Indices: 455924--455981 Score: 84
Period size: 20 Copynumber: 2.7 Consensus size: 22
455914 TAAAAAACCC
455924 AGAATGTATCGATACAAT-A-G
1 AGAATGTATCGATACAATCATG
*
455944 ATAATGTATCGATACAATCATG
1 AGAATGTATCGATACAATCATG
*
455966 AGCATGTATCGATACA
1 AGAATGTATCGATACA
455982 TTTCTTTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 17 0.52
21 1 0.03
22 15 0.45
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (22 bp):
AGAATGTATCGATACAATCATG
Found at i:457219 original size:10 final size:9
Alignment explanation
Indices: 457192--457218 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
457182 TACCTTTTTT
457192 TAAAAAAAA
1 TAAAAAAAA
457201 TAAAAAAAA
1 TAAAAAAAA
457210 TAAAAAAAA
1 TAAAAAAAA
457219 AAGTCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:457264 original size:31 final size:31
Alignment explanation
Indices: 457228--457372 Score: 190
Period size: 31 Copynumber: 4.7 Consensus size: 31
457218 AAAGTCAAAA
457228 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
457259 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
457290 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
457319 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
*
457352 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
457373 CTCTTTAAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.05
30 22 0.22
31 49 0.48
32 22 0.22
33 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:457353 original size:62 final size:61
Alignment explanation
Indices: 457228--457399 Score: 203
Period size: 62 Copynumber: 2.8 Consensus size: 61
457218 AAAGTCAAAA
457228 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
* *
457290 AAAGTCCACGACGCAGTGGCATC-CTTCTCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTCTG-CTC
* * * *
457352 AAAGTCCACGACTCCGTGGCA-CTCTT-T-AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCA
457400 CCTTCTTCTT
Statistics
Matches: 97, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
57 17 0.18
60 6 0.06
61 8 0.08
62 46 0.47
63 20 0.21
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
Found at i:457415 original size:34 final size:34
Alignment explanation
Indices: 457376--457648 Score: 372
Period size: 34 Copynumber: 7.9 Consensus size: 34
457366 CGTGGCACTC
*
457376 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
457410 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
457443 TTTAAAGCCCACAACTTCGTGGCACTCTTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTT-TTCTT
*
457479 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
457513 TTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* *
457550 TTCAAAGCCCACAACTCCGTGGCACTTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
457583 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTT
* *
457619 TTT-AAGTCCACAACTCCGTGGCATCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTT
457649 TCCTTCCCAA
Statistics
Matches: 217, Mismatches: 13, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
33 50 0.23
34 75 0.35
35 33 0.15
36 34 0.16
37 25 0.12
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:457649 original size:70 final size:68
Alignment explanation
Indices: 457376--457648 Score: 406
Period size: 70 Copynumber: 4.0 Consensus size: 68
457366 CGTGGCACTC
* * *
457376 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
457440 TCT
66 TCT
* *
457443 TTTAAAGCCCACAACTTCGTGGCACTCTTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTTAAAGCCCACAACTCCGTGGCACCTTT
457508 TTCT
65 TTCT
* *
457512 GTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 -TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCT
457577 TTTTCT
63 TTTTCT
* *
457583 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCACCTTT
457647 TT
65 TT
457649 TCCTTCCCAA
Statistics
Matches: 192, Mismatches: 9, Indels: 9
0.91 0.04 0.04
Matches are distributed among these distances:
67 24 0.12
68 27 0.14
69 39 0.20
70 73 0.38
71 29 0.15
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (68 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
TCT
Found at i:457687 original size:32 final size:31
Alignment explanation
Indices: 457650--457747 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
457640 CATCTTTTTT
457650 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
457681 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
457713 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
457746 CC
1 CC
457748 CCTCTATAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:457731 original size:33 final size:32
Alignment explanation
Indices: 457655--457747 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
457645 TTTTTCCTTC
457655 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
457686 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
457720 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
457748 CCTCTATAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:457861 original size:49 final size:49
Alignment explanation
Indices: 457752--458212 Score: 586
Period size: 49 Copynumber: 9.5 Consensus size: 49
457742 GCAACCCCTC
*
457752 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAA
* *
457804 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
*
457853 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAA
* *
457905 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
457954 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
458003 TGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
458046 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
*
458095 TGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
458138 TATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAA
*
458190 TGTAGCTGGCCTTGAATCAGCAC
1 TATAGCTGGCCTTGAATCAGCAC
458213 GTTGACATCC
Statistics
Matches: 361, Mismatches: 30, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
43 78 0.22
45 2 0.01
47 1 0.00
49 168 0.47
50 5 0.01
51 2 0.01
52 105 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
Found at i:457927 original size:101 final size:101
Alignment explanation
Indices: 457752--458279 Score: 732
Period size: 92 Copynumber: 5.3 Consensus size: 101
457742 GCAACCCCTC
457752 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
457817 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
457853 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
457918 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
457954 TATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
458016 GACTCAGCACATTGGCA----C--CTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
458046 TATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
*
458108 GAATCAGCACATTGGCA----C--CTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
458138 TATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
* * * *
458203 GAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAA
66 GACTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAA
* * * * *
458245 TATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
458280 ATCACTTTTC
Statistics
Matches: 397, Mismatches: 15, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
92 132 0.33
94 4 0.01
95 42 0.11
98 45 0.11
99 3 0.01
101 130 0.33
105 1 0.00
107 40 0.10
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
Found at i:458255 original size:55 final size:55
Alignment explanation
Indices: 458126--458509 Score: 264
Period size: 67 Copynumber: 6.7 Consensus size: 55
458116 ACATTGGCAC
* *
458126 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
458178 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
458233 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* * *
458297 CATTTTTAAGTCCAATATCGCTGGCCTTGAATCTGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
458349 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
458404 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTAATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
458469 AT
54 AT
*
458471 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
458510 GCACCTTCAT
Statistics
Matches: 255, Mismatches: 44, Indels: 52
0.73 0.13 0.15
Matches are distributed among these distances:
49 35 0.14
50 1 0.00
52 42 0.16
54 8 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 7 0.03
66 4 0.02
67 68 0.27
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:458274 original size:242 final size:235
Alignment explanation
Indices: 457792--458280 Score: 586
Period size: 242 Copynumber: 2.0 Consensus size: 235
457782 CCTTTTCCAT
* *
457792 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
* * *
457857 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACT
66 GCTGGCCTTGAATCAGCACATTGGCA-----T-CA-CTTTAAGTCCAATATAGCTGGCCTTGAAT
* * *
457922 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
124 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCT
* * * * *
457987 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
189 TCATCTTTAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
* * * *
458034 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
458099 GCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 GCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
* * * *
458162 TTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTT
131 TTGGCAC--CTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACAT-C----
* * * *
458227 TCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCAT
188 T-TCATCTTTAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
458276 CTTTA
1 CTTTA
458281 TCACTTTTCT
Statistics
Matches: 212, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
233 40 0.19
235 3 0.01
236 40 0.19
237 1 0.00
241 1 0.00
242 127 0.60
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (235 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
TTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCTTCATCTT
TAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
Found at i:458416 original size:171 final size:171
Alignment explanation
Indices: 458126--458520 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
458116 ACATTGGCAC
*
458126 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
458191 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
*
458256 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
* * *
458300 TTTTAAGTCCAATATCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
458365 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
458430 AATCAACATATTGGCATCTTTATCACTTTTCTAATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
* *
458471 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
458521 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 168 0.80
172 5 0.02
174 37 0.18
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
Found at i:459297 original size:33 final size:33
Alignment explanation
Indices: 459260--459326 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
459250 TTCAACGATT
459260 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
459293 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
459326 T
1 T
459327 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:459298 original size:13 final size:13
Alignment explanation
Indices: 459280--459304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
459270 CATAAAATGT
459280 TGTATCGATACAA
1 TGTATCGATACAA
459293 TGTATCGATACA
1 TGTATCGATACA
459305 TATTTTTTTG
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:459389 original size:13 final size:13
Alignment explanation
Indices: 459371--459395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
459361 ATTACTCACA
459371 TGTATCGATACAT
1 TGTATCGATACAT
459384 TGTATCGATACA
1 TGTATCGATACA
459396 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:462730 original size:21 final size:21
Alignment explanation
Indices: 462705--462747 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
462695 CATGTCAGGA
462705 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
462726 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
462747 G
1 G
462748 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:466383 original size:1 final size:1
Alignment explanation
Indices: 466379--466459 Score: 72
Period size: 1 Copynumber: 81.0 Consensus size: 1
466369 AAAGGTGATG
* * * * * * * *
466379 AAAAAAAAAAAAAAAAAAAACAAACAAAAAAAACACACAAAAAAAAAACAACAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
466444 AAAAACACAAAAAAAA
1 AAAAAAAAAAAAAAAA
466460 GTGCAAAGGC
Statistics
Matches: 60, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:466393 original size:11 final size:11
Alignment explanation
Indices: 466381--466459 Score: 104
Period size: 11 Copynumber: 6.9 Consensus size: 11
466371 AGGTGATGAA
*
466381 AAAAAAAAAAA
1 AAAAAAAAAAC
466392 AAAAAAACAAAC
1 AAAAAAA-AAAC
466404 AAAAAAAACACAC
1 AAAAAAAA-A-AC
466417 AAAAAAAAAAC
1 AAAAAAAAAAC
*
466428 AACAAAAAAAC
1 AAAAAAAAAAC
466439 AAAAAAAAAAC
1 AAAAAAAAAAC
*
466450 ACAAAAAAAA
1 AAAAAAAAAA
466460 GTGCAAAGGC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
11 39 0.64
12 12 0.20
13 10 0.16
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:466395 original size:13 final size:13
Alignment explanation
Indices: 466379--466459 Score: 96
Period size: 13 Copynumber: 6.3 Consensus size: 13
466369 AAAGGTGATG
466379 AAAAAAAA-AAAA
1 AAAAAAAACAAAA
466391 AAAAAAAACAAACA
1 AAAAAAAACAAA-A
*
466405 AAAAAAACACACAA
1 AAAAAAA-ACAAAA
466419 AAAAAAAAC--AA
1 AAAAAAAACAAAA
*
466430 CAAAAAAACAAAA
1 AAAAAAAACAAAA
*
466443 AAAAAACACAAAA
1 AAAAAAAACAAAA
466456 AAAA
1 AAAA
466460 GTGCAAAGGC
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
11 10 0.17
12 8 0.13
13 22 0.37
14 16 0.27
15 4 0.07
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAA
Found at i:466439 original size:35 final size:36
Alignment explanation
Indices: 466381--466459 Score: 124
Period size: 35 Copynumber: 2.2 Consensus size: 36
466371 AGGTGATGAA
*
466381 AAAAAAAAAAAAAAAAAACAAACAAAAAAAACACAC
1 AAAAAAAAAAAAAAAAAACAAACAAAAAAAAAACAC
* *
466417 AAAAAAAAAACAACAAAA-AAACAAAAAAAAAACAC
1 AAAAAAAAAAAAAAAAAACAAACAAAAAAAAAACAC
466452 AAAAAAAA
1 AAAAAAAA
466460 GTGCAAAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 24 0.60
36 16 0.40
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (36 bp):
AAAAAAAAAAAAAAAAAACAAACAAAAAAAAAACAC
Found at i:466799 original size:1 final size:1
Alignment explanation
Indices: 466795--466825 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
466785 AAAAAGATGC
*
466795 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
466826 CCCCCCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:467839 original size:31 final size:31
Alignment explanation
Indices: 467803--467947 Score: 190
Period size: 31 Copynumber: 4.7 Consensus size: 31
467793 AAAGTCAAAA
467803 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
467834 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
467865 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
467894 TTTAAAGTCCACGACTCAGTGGC-AT-TTTATCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
*
467927 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
467948 CTCTTTAAAG
Statistics
Matches: 102, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.05
30 22 0.22
31 49 0.48
32 22 0.22
33 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:467928 original size:62 final size:61
Alignment explanation
Indices: 467803--467974 Score: 201
Period size: 62 Copynumber: 2.8 Consensus size: 61
467793 AAAGTCAAAA
*
467803 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTATGCTC
* * *
467865 AAAGTCCACGACGCAGTGGCATC-CTTCTCTTTAAAGTCCACGACTCAGTGGCATTTTAT-CTC
1 AAAGTCCACGACTCAGTGGCATCTCTTCTC---AAAGTCCACGACTCAGTGGCAATCTATGCTC
* * * *
467927 AAAGTCCACGACTCCGTGGCA-CTCTT-T-AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCA
467975 CCTTCTTCTT
Statistics
Matches: 97, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
57 18 0.19
60 6 0.06
61 5 0.05
62 44 0.45
63 24 0.25
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTATGCTC
Found at i:467990 original size:34 final size:34
Alignment explanation
Indices: 467951--468223 Score: 363
Period size: 34 Copynumber: 7.9 Consensus size: 34
467941 CGTGGCACTC
*
467951 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
467985 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
468018 TTTAAAGCCCACAACTTCGTGGCACTCTTTCTTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTT-TTCTT
* *
468054 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
468088 TTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT
* *
468125 TTCAAAGCCCACAACTCCGTGGCACTTTTTTC-T
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
*
468158 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTT
* *
468194 TTT-AAGTCCACAACTCCGTGGCATCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTT
468224 TCCTTCCCAA
Statistics
Matches: 215, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
33 50 0.23
34 74 0.34
35 33 0.15
36 33 0.15
37 25 0.12
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTT
Found at i:468224 original size:70 final size:68
Alignment explanation
Indices: 467951--468223 Score: 399
Period size: 70 Copynumber: 4.0 Consensus size: 68
467941 CGTGGCACTC
* * *
467951 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
468015 TCT
66 TCT
*
468018 TTTAAAGCCCACAACTTCGTGGCACTCTTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCACCTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTT-AAAGCCCACAACTCCGTGGCACCTT
468082 TTTCT
64 TTTCT
* *
468087 GTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 -TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCT
468152 TTTTCT
63 TTTTCT
* *
468158 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCACCTTT
468222 TT
65 TT
468224 TCCTTCCCAA
Statistics
Matches: 191, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
67 24 0.13
68 31 0.16
69 33 0.17
70 68 0.36
71 35 0.18
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.34
Consensus pattern (68 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTT
TCT
Found at i:468268 original size:32 final size:32
Alignment explanation
Indices: 468230--468321 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 32
468220 TTTTTCCTTC
468230 CCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
468261 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAA-CTTCTT
468295 CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCAAAGCCCACACAAGTCGGTGGCAAC
468322 CCCTCTATAG
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 25 0.43
34 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
Found at i:468306 original size:33 final size:32
Alignment explanation
Indices: 468230--468322 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
468220 TTTTTCCTTC
468230 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
468261 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
468295 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
468323 CCTCTATAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:468436 original size:49 final size:49
Alignment explanation
Indices: 468327--468787 Score: 586
Period size: 49 Copynumber: 9.5 Consensus size: 49
468317 GCAACCCCTC
*
468327 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAA
* *
468379 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
*
468428 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAA
* *
468480 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
468529 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
468578 TGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
468621 TATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
*
468670 TGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
468713 TATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 TATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAA
*
468765 TGTAGCTGGCCTTGAATCAGCAC
1 TATAGCTGGCCTTGAATCAGCAC
468788 GTTGACATCC
Statistics
Matches: 361, Mismatches: 30, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
43 78 0.22
45 2 0.01
47 1 0.00
49 168 0.47
50 5 0.01
51 2 0.01
52 105 0.29
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
Found at i:468502 original size:101 final size:101
Alignment explanation
Indices: 468327--468854 Score: 732
Period size: 92 Copynumber: 5.3 Consensus size: 101
468317 GCAACCCCTC
468327 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
468392 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
468428 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
468493 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
468529 TATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
468591 GACTCAGCACATTGGCA----C--CTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
468621 TATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
*
468683 GAATCAGCACATTGGCA----C--CTTTAAGTCCAA
66 GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* *
468713 TATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
* * * *
468778 GAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAA
66 GACTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAA
* * * * *
468820 TATCGTTGGCCATGAATCAACATATTGGCATCTTT
1 TATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
468855 ATCACTTTTC
Statistics
Matches: 397, Mismatches: 15, Indels: 24
0.91 0.03 0.06
Matches are distributed among these distances:
92 132 0.33
94 4 0.01
95 42 0.11
98 45 0.11
99 3 0.01
101 130 0.33
105 1 0.00
107 40 0.10
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (101 bp):
TATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTT
GACTCAGCACATTGGCACCTTCATCTTTAAGTCCAA
Found at i:468830 original size:55 final size:55
Alignment explanation
Indices: 468701--469084 Score: 255
Period size: 67 Copynumber: 6.7 Consensus size: 55
468691 ACATTGGCAC
* *
468701 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
468753 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
468808 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* * * *
468872 CATTTTTAAGTCCAATATCGTTGGCCTTGAATCTGCATATTGGCAT-C----T-TCAT
1 C---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
468924 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * *
468979 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTAATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-C-TTT-T--TC-TC
469044 AT
54 AT
*
469046 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
469085 GCACCTTCAT
Statistics
Matches: 255, Mismatches: 44, Indels: 52
0.73 0.13 0.15
Matches are distributed among these distances:
49 34 0.13
50 1 0.00
52 42 0.16
54 8 0.03
55 64 0.25
56 2 0.01
57 2 0.01
58 2 0.01
59 1 0.00
61 8 0.03
62 6 0.02
63 5 0.02
64 7 0.03
66 4 0.02
67 69 0.27
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:468849 original size:242 final size:235
Alignment explanation
Indices: 468367--468855 Score: 586
Period size: 242 Copynumber: 2.0 Consensus size: 235
468357 CCTTTTCCAT
* *
468367 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
* * *
468432 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACT
66 GCTGGCCTTGAATCAGCACATTGGCA-----T-CA-CTTTAAGTCCAATATAGCTGGCCTTGAAT
* * *
468497 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT
124 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCT
* * * * *
468562 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC
189 TCATCTTTAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
* * * *
468609 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
468674 GCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
66 GCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
* * * *
468737 TTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTT
131 TTGGCAC--CTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACAT-C----
* * * *
468802 TCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCAT
188 T-TCATCTTTAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
468851 CTTTA
1 CTTTA
468856 TCACTTTTCT
Statistics
Matches: 212, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
233 40 0.19
235 3 0.01
236 40 0.19
237 1 0.00
241 1 0.00
242 127 0.60
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (235 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACA
TTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCTTCATCTT
TAAGCCCAATATAGCTGGCCATGAATCAACACATTGGCAC
Found at i:468929 original size:49 final size:49
Alignment explanation
Indices: 468866--469024 Score: 138
Period size: 49 Copynumber: 3.1 Consensus size: 49
468856 TCACTTTTCT
* * *
468866 CATCATCATTTTTAAGTCCAATATCGTTGGCCTTGAATCTGCATATTGG
1 CATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
* * * * ** *
468915 CATCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGA
1 CATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
* * * *
468964 CATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGG
1 CAT-C----T-TCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
469019 CATCTT
1 CATCTT
469025 TATCACTTTT
Statistics
Matches: 83, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
49 43 0.52
50 2 0.02
54 2 0.02
55 36 0.43
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (49 bp):
CATCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGG
Found at i:468991 original size:171 final size:171
Alignment explanation
Indices: 468701--469095 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
468691 ACATTGGCAC
*
468701 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
468766 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
*
468831 ATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
* * * *
468875 TTTTAAGTCCAATATCGTTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
468940 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
*
469005 AATCAACATATTGGCATCTTTATCACTTTTCTAATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
* *
469046 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
469096 ATCTCTAAAA
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
171 167 0.80
172 5 0.02
174 36 0.17
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTTTTCTAATCATCAT
Found at i:469872 original size:33 final size:33
Alignment explanation
Indices: 469835--469901 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
469825 TTCAACGATT
469835 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
469868 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
469901 T
1 T
469902 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:469873 original size:13 final size:13
Alignment explanation
Indices: 469855--469879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
469845 CATAAAATGT
469855 TGTATCGATACAA
1 TGTATCGATACAA
469868 TGTATCGATACA
1 TGTATCGATACA
469880 TATTTTTTTG
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:469964 original size:13 final size:13
Alignment explanation
Indices: 469946--469970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
469936 ATTACTCACA
469946 TGTATCGATACAT
1 TGTATCGATACAT
469959 TGTATCGATACA
1 TGTATCGATACA
469971 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:470035 original size:52 final size:52
Alignment explanation
Indices: 469979--470103 Score: 216
Period size: 52 Copynumber: 2.4 Consensus size: 52
469969 CACTGATCTT
*
469979 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TTTTATAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTA-AA
470031 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
470083 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
470104 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
52 66 0.94
53 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:473363 original size:11 final size:11
Alignment explanation
Indices: 473331--473370 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
473321 TTTTTCCATA
473331 TTTTCTCTC-T
1 TTTTCTCTCTT
*
473341 TTTTCTTTTCTT
1 TTTTC-TCTCTT
473353 TTTTCTCTCTT
1 TTTTCTCTCTT
473364 TTTTCTC
1 TTTTCTC
473371 CCTATTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 5 0.19
11 15 0.58
12 6 0.23
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTCTCTCTT
Found at i:473378 original size:22 final size:21
Alignment explanation
Indices: 473321--473379 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
473311 ATCTAGCTTG
*
473321 TTTT-TCCATATTTTCTCTCT
1 TTTTCTCCCTATTTTCTCTCT
** *
473341 TTTTCTTTTCTTTTTTCTCTCTT
1 TTTTC-TCCCTATTTTCTCTC-T
473364 TTTTCTCCCTATTTTC
1 TTTTCTCCCTATTTTC
473380 CAAAACCTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.14
22 19 0.66
23 6 0.21
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCTCCCTATTTTCTCTCT
Found at i:473708 original size:18 final size:18
Alignment explanation
Indices: 473686--473727 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
473676 GAACAAATAT
473686 AAAAATTAAATAAAATTTC
1 AAAAATTAAA-AAAATTTC
**
473705 AAAAATTTCAAAAATTTC
1 AAAAATTAAAAAAATTTC
473723 AAAAA
1 AAAAA
473728 AATTGAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAAAATTTC
Found at i:473711 original size:9 final size:9
Alignment explanation
Indices: 473697--473727 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
473687 AAAATTAAAT
473697 AAAATTTCA
1 AAAATTTCA
473706 AAAATTTCA
1 AAAATTTCA
473715 AAAATTTCA
1 AAAATTTCA
473724 AAAA
1 AAAA
473728 AATTGAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTTCA
Found at i:478262 original size:79 final size:77
Alignment explanation
Indices: 478057--478375 Score: 302
Period size: 79 Copynumber: 4.1 Consensus size: 77
478047 TTTTCGAGGA
* ** * * **
478057 GATACTCCAACCCCGTTATTTCCATGGGTATACTCCAATCTCGATTTTATTTCTGAAACACTGAT
1 GATACTCTAA-CCCGTTATTTTGA-GGGGATACTCCAATCTCGATTTTATTTCTAAAACACCAAT
478122 TTTCCACCATC-GG
64 TTTCCACCATCGGG
* * * *
478135 GATACT-TCAATCCCATTATTTTTAGGGGATACTCCAAAGCT-GATTTTATTTTTAAAACACCAA
1 GATACTCT-AA-CCCGTTATTTTGAGGGGATACTCC-AATCTCGATTTTATTTCTAAAACACCAA
478198 TTTTCCACCATCGGG
63 TTTTCCACCATCGGG
* * *
478213 GATACTCTAACCTCGTTATTTCTGAGGGGATACTCCAATCTAGATTTTATTTTTAAAACATCAAT
1 GATACTCTAACC-CGTTATTT-TGAGGGGATACTCCAATCTCGATTTTATTTCTAAAACACCAAT
**
478278 TTTTTACCATCGGG
64 TTTCCACCATCGGG
* * ** * * *
478292 GATATTCCAACCCTGTTATTTTCGAGGGGATACTTTAATCTCGATTCTATTTCTAAAACATCGAT
1 GATACTCTAACCC-GTTATTTT-GAGGGGATACTCCAATCTCGATTTTATTTCTAAAACACCAAT
** *
478357 TTTTTACTATCGGG
64 TTTCCACCATCGGG
478371 GATAC
1 GATAC
478376 CCTCACCTCG
Statistics
Matches: 205, Mismatches: 27, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
77 42 0.20
78 45 0.22
79 118 0.58
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (77 bp):
GATACTCTAACCCGTTATTTTGAGGGGATACTCCAATCTCGATTTTATTTCTAAAACACCAATTT
TCCACCATCGGG
Done.