Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold233
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: 130372
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Found at i:162 original size:51 final size:51
Alignment explanation
Indices: 68--300 Score: 229
Period size: 52 Copynumber: 4.7 Consensus size: 51
58 AGATGAAGGT
* *
68 GCCAATGTGCTGATTCAAGGCCAGCAATATGGACTTAAAGATGACAAAGAC
1 GCCAATATGCTGATTCAAGGCCAGCGATATGGACTTAAAGATGACAAAGAC
* * *
119 GCCAATA-GCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATAT-GGACTTAAAGATGACAAAGAC
* *
170 GCCAATATACTGATTCAAGGCCAGCGAT-TGGACTT---G--G---AGGA-
1 GCCAATATGCTGATTCAAGGCCAGCGATATGGACTTAAAGATGACAAAGAC
* * * * *
211 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-ACCAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATA-TGGACTTAAAGATGA-CAAAGAC
*
263 ACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GCCAATATGCTGATTCAAGGCCAGCGATA-TGGACTTA
301 GAGAAGACGC
Statistics
Matches: 149, Mismatches: 19, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
41 24 0.16
42 2 0.01
43 7 0.05
45 1 0.01
46 1 0.01
47 1 0.01
50 26 0.17
51 35 0.23
52 52 0.35
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (51 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATGGACTTAAAGATGACAAAGAC
Found at i:285 original size:93 final size:94
Alignment explanation
Indices: 126--299 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 94
116 GACGCCAATA
* *
126 GCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATACTGATTCAAGGC
1 GCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCACCAATATACTGATTCAAGGC
191 CAGCG-ATTGGACTTGGAGGAGCCAATGT
66 CAGCGAATTGGACTTGGAGGAGCCAATGT
* * * *
219 GCTGATTCAAGGCCAGCTACATTGGACTTAAAGG-T-ACCAAAGGCACCAATATGCTGATTCAAG
1 GCTGATCCAAGGCCAGCGACATAGGACTT-AAGGATGA-CAAAGGCACCAATATACTGATTCAAG
282 GCCAGCGATATTGGACTT
64 GCCAGCGA-ATTGGACTT
300 AGAGAAGACG
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 1 0.01
93 57 0.80
94 4 0.06
95 9 0.13
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (94 bp):
GCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCACCAATATACTGATTCAAGGC
CAGCGAATTGGACTTGGAGGAGCCAATGT
Found at i:378 original size:28 final size:28
Alignment explanation
Indices: 321--472 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
311 CACCAACTTG
*
321 TGTGGGCTTTTAAAAGGTTTG-CA-TCAACT
1 TGTGGGCTTTT-AAAGG-TTGCCACT-GACT
* *
350 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
*
378 TGTGGGCTTTTAAAGATTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
406 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAGGTTGCCACTGACT
* * *
434 TGTAGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT--AAAGGTTGCCACTGACT
464 TGTGGGCTT
1 TGTGGGCTT
473 AAAGGAAAAG
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
27 3 0.03
28 71 0.66
29 11 0.10
30 23 0.21
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (28 bp):
TGTGGGCTTTTAAAGGTTGCCACTGACT
Found at i:580 original size:28 final size:28
Alignment explanation
Indices: 511--594 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
501 TTACAAAAGA
* * * *
511 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAG-GTGCCACCGACTTGTGGGC-TTCG
*
541 AAAAGATGCCACCGACTTGTGGGCTTCG
1 AAAAGGTGCCACCGACTTGTGGGCTTCG
* * *
569 AAAAGGTGCCACTGATTTGTGAGCTT
1 AAAAGGTGCCACCGACTTGTGGGCTT
595 TGAAGGTTGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 25 0.56
29 15 0.33
30 5 0.11
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (28 bp):
AAAAGGTGCCACCGACTTGTGGGCTTCG
Found at i:1950 original size:304 final size:307
Alignment explanation
Indices: 1398--2009 Score: 1162
Period size: 304 Copynumber: 2.0 Consensus size: 307
1388 TAGTCTGAAT
1398 CATTCATCCATTTTGAGAATACAACGGTTGCATTTTCTGATTGGAAAGGTTCGATTATTTTTCCC
1 CATTCATCCATTTTGAGAATACAACGGTTGCATTTTCTGATTGGAAAGGTTCGATTATTTTTCCC
1463 GATATTGAAAGGCTTTGTCACCCAATCTAGAGGCTGTTTGCCTGATCTGGTTCACTTTTCTAGTC
66 GATATTGAAAGGCTTTGTCACCCAATCTAGAGGCTGTTTGCCTGATCTGGTTCACTTTTCTAGTC
1528 TTGCTAGGATCTGACAGCATGTATGGGTCAGCTTTGGTCGACTTGGACTAGTTTTTTTTCTTGAG
131 TTGCTAGGATCTGACAGCATGTATGGGTCAGCTTTGGTCGACTTGGACTAGTTTTTTTTCTTGAG
1593 ATGTGGGTCATGAAAGCGAGAAATGAGTTAGTGTTTGGTCATGCTAAATAGGTGTTTGGACTATG
196 ATGTGGGTCATGAAAGCGAGAAATGAGTTAGTGTTTGGTCATGCTAAATAGGTGTTTGGACTATG
1658 GGAGGTTCATAATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTG
261 GGAGGTTCATAATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTG
1705 CATTCATCCATTTTGAGAATACAAACGGTTGCA-TTTCTGATTGGAAAGGTTCGATTA-TTTTCC
1 CATTCATCCATTTTGAGAATAC-AACGGTTGCATTTTCTGATTGGAAAGGTTCGATTATTTTTCC
1768 CGATATTGAAAGGCTTTGTCA-CCAATCTAGAGGCTGTTTGCCTGATCTGG-TCACTTTTCTAGT
65 CGATATTGAAAGGCTTTGTCACCCAATCTAGAGGCTGTTTGCCTGATCTGGTTCACTTTTCTAGT
1831 CTTGCTAGGATTCTGACAGCATGTATGGGTCAGCTTTGGTCGACTTGGACTAG-TTTTTTTCTTG
130 CTTGCTAGGA-TCTGACAGCATGTATGGGTCAGCTTTGGTCGACTTGGACTAGTTTTTTTTCTTG
1895 AGATGTGGGTCATGAAAGCGAGAAATGAGTTAGTGTTTGGTCATGCTAAATAGGTGTTTGGACTA
194 AGATGTGGGTCATGAAAGCGAGAAATGAGTTAGTGTTTGGTCATGCTAAATAGGTGTTTGGACTA
*
1960 TGGGAGGTTCATAATCTTGAAGACCAGGGTGTGAACAGAGTTTCCTGTG
259 TGGGAGGTTCATAATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTG
2009 C
1 C
2010 TTTTCTTTTC
Statistics
Matches: 302, Mismatches: 1, Indels: 7
0.97 0.00 0.02
Matches are distributed among these distances:
304 148 0.49
305 71 0.24
306 27 0.09
307 46 0.15
308 10 0.03
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (307 bp):
CATTCATCCATTTTGAGAATACAACGGTTGCATTTTCTGATTGGAAAGGTTCGATTATTTTTCCC
GATATTGAAAGGCTTTGTCACCCAATCTAGAGGCTGTTTGCCTGATCTGGTTCACTTTTCTAGTC
TTGCTAGGATCTGACAGCATGTATGGGTCAGCTTTGGTCGACTTGGACTAGTTTTTTTTCTTGAG
ATGTGGGTCATGAAAGCGAGAAATGAGTTAGTGTTTGGTCATGCTAAATAGGTGTTTGGACTATG
GGAGGTTCATAATCTTGAAGACCAGGGTGTGAACAGAGTTCCCTGTG
Found at i:2495 original size:1 final size:1
Alignment explanation
Indices: 2489--2544 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
2479 TTGTTGTTTG
* * * * *
2489 TTTTTTTTTTATTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2545 GTTGTGGAGG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:2505 original size:8 final size:8
Alignment explanation
Indices: 2464--2549 Score: 90
Period size: 8 Copynumber: 10.9 Consensus size: 8
2454 ATCCGGACCC
2464 TTTTTGTT
1 TTTTTGTT
*
2472 GTTGTTGTT
1 -TTTTTGTT
2481 GTTGTTTG-T
1 -TT-TTTGTT
2490 TTTTT-TT
1 TTTTTGTT
*
2497 TTATT-TT
1 TTTTTGTT
2504 TTTTTGTT
1 TTTTTGTT
2512 TTTTTGTT
1 TTTTTGTT
2520 TTTTTGTT
1 TTTTTGTT
2528 TTTTTGTT
1 TTTTTGTT
2536 TTTTT-TT
1 TTTTTGTT
*
2543 TTGTTGT
1 TTTTTGT
2550 GGAGGACGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
7 20 0.29
8 34 0.50
9 11 0.16
10 3 0.04
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (8 bp):
TTTTTGTT
Found at i:16409 original size:52 final size:52
Alignment explanation
Indices: 16331--16459 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
16321 CGAAATATGG
*
16331 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
16383 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
16435 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
16460 AAGATAAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:16472 original size:52 final size:52
Alignment explanation
Indices: 16331--16479 Score: 232
Period size: 52 Copynumber: 2.9 Consensus size: 52
16321 CGAAATATGG
16331 AAATTTGCCTGCATGTATCGATACATTTAAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGC
*
16383 AAATTTGCCTGCATGTATCGATACATTTTATAA-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAAGTGTATCGATACATCTGGGC
*
16435 AAATTTGCCTGCATGTATCGATACA-AAGATAAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-ATAAGTGTATCGATACA
16480 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
51 4 0.04
52 86 0.95
53 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTAATAAGTGTATCGATACATCTGGGC
Found at i:16486 original size:13 final size:13
Alignment explanation
Indices: 16468--16492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16458 CAAAGATAAG
16468 TGTATCGATACAA
1 TGTATCGATACAA
16481 TGTATCGATACA
1 TGTATCGATACA
16493 TTTGAGTAAT
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:16570 original size:33 final size:33
Alignment explanation
Indices: 16533--16599 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
16523 AGTAGCTTAA
16533 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
16566 ATTGTATCGATACAATACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
16599 A
1 A
16600 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:16573 original size:13 final size:13
Alignment explanation
Indices: 16555--16579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16545 CAAAAAAATA
16555 TGTATCGATACAT
1 TGTATCGATACAT
16568 TGTATCGATACA
1 TGTATCGATACA
16580 ATACTTTATG
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:16952 original size:13 final size:14
Alignment explanation
Indices: 16936--16964 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16926 ACCAAAAAAA
16936 ATTACATTTC-ACT
1 ATTACATTTCTACT
16949 ATTACATTTCTACT
1 ATTACATTTCTACT
16963 AT
1 AT
16965 GAAATTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTACATTTCTACT
Found at i:20417 original size:37 final size:37
Alignment explanation
Indices: 20341--20591 Score: 210
Period size: 37 Copynumber: 6.8 Consensus size: 37
20331 CTTTCAATCA
* * **
20341 TGCCACCGGTTAAGAATAGT--TATTTGTTTTAGACCTG
1 TGCCACCGG-TAAGAATAGTGGTTTTTGTTCT-GAATTG
* *
20378 TGCCACCGGTAAAAATAGTGGTTTTTGTT-TCGATTTG
1 TGCCACCGGTAAGAATAGTGGTTTTTGTTCT-GAATTG
* * *
20415 TGCCACCGGTAAGAATAGTAGTTTTTGTCCT-AGTCTG
1 TGCCACCGGTAAGAATAGTGGTTTTTGTTCTGAAT-TG
** * * *
20452 TGCCACTAGTAAAAATAGTGG---TTGTTCTGACTCG
1 TGCCACCGGTAAGAATAGTGGTTTTTGTTCTGAATTG
* * *
20486 TGCCATCGGTAAGAATAATGGTTTTTGTTCTGAATCG
1 TGCCACCGGTAAGAATAGTGGTTTTTGTTCTGAATTG
* * *
20523 TGCCACTGGTAAGAATAGTGGTTTTTATTCTTAATTG
1 TGCCACCGGTAAGAATAGTGGTTTTTGTTCTGAATTG
* *
20560 TGCCACGGGATTAGAATAGTGGTTTTTGTTCT
1 TGCCACCGG-TAAGAATAGTGGTTTTTGTTCT
20592 AACCTATGCC
Statistics
Matches: 174, Mismatches: 31, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
34 23 0.13
35 2 0.01
36 11 0.06
37 110 0.63
38 28 0.16
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (37 bp):
TGCCACCGGTAAGAATAGTGGTTTTTGTTCTGAATTG
Found at i:20464 original size:74 final size:75
Alignment explanation
Indices: 20341--20592 Score: 243
Period size: 71 Copynumber: 3.4 Consensus size: 75
20331 CTTTCAATCA
* * * * *
20341 TGCCACCGGTTAAGAATAGT--TATTTGTTTTAGACCTGTGCCACCGGTAAAAATAGTGGTTTTT
1 TGCCACCGGATAAGAATAGTGGTTTTTGTTCTAG-TCTGTGCCACTGGTAAAAATAGTGGTTTTT
*
20404 GTT-TCGATTTG
65 GTTCT-GAATTG
* * *
20415 TGCCACCGG-TAAGAATAGTAGTTTTTGTCCTAGTCTGTGCCACTAGTAAAAATAGTGG---TTG
1 TGCCACCGGATAAGAATAGTGGTTTTTGTTCTAGTCTGTGCCACTGGTAAAAATAGTGGTTTTTG
* *
20476 TTCTGACTCG
66 TTCTGAATTG
* * * *
20486 TGCCATCGG-TAAGAATAATGGTTTTTGTTCTGAATC-GTGCCACTGGTAAGAATAGTGGTTTTT
1 TGCCACCGGATAAGAATAGTGGTTTTTGTTCT-AGTCTGTGCCACTGGTAAAAATAGTGGTTTTT
* *
20549 ATTCTTAATTG
65 GTTCTGAATTG
* *
20560 TGCCACGGGATTAGAATAGTGGTTTTTGTTCTA
1 TGCCACCGGATAAGAATAGTGGTTTTTGTTCTA
20593 ACCTATGCCA
Statistics
Matches: 147, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
71 56 0.38
72 4 0.03
73 10 0.07
74 48 0.33
75 29 0.20
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (75 bp):
TGCCACCGGATAAGAATAGTGGTTTTTGTTCTAGTCTGTGCCACTGGTAAAAATAGTGGTTTTTG
TTCTGAATTG
Found at i:24952 original size:20 final size:21
Alignment explanation
Indices: 24927--24981 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
24917 TAAAACCTAG
**
24927 AATGTATCGATACAATGA-AA
1 AATGTATCGATACAACCAGAA
*
24947 AATGTATCGATACAACCAGTA
1 AATGTATCGATACAACCAGAA
24968 AATGTATCGATACA
1 AATGTATCGATACA
24982 TTTACTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (21 bp):
AATGTATCGATACAACCAGAA
Found at i:25679 original size:32 final size:31
Alignment explanation
Indices: 25617--25699 Score: 114
Period size: 32 Copynumber: 2.7 Consensus size: 31
25607 GGGTATGACG
* *
25617 AAGTCGTGGACTTTGA-AAAGAGATGTCACT
1 AAGTCATGGACTTTGAGAAAGAGATGCCACT
*
25647 AAGTCATGGATTTTGAAGAAAGAGATGCCACT
1 AAGTCATGGACTTTG-AGAAAGAGATGCCACT
*
25679 AAGTAATGGACTTTGAGAAAG
1 AAGTCATGGACTTTGAGAAAG
25700 GTTGCTTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 13 0.28
31 7 0.15
32 26 0.57
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (31 bp):
AAGTCATGGACTTTGAGAAAGAGATGCCACT
Found at i:27186 original size:2 final size:2
Alignment explanation
Indices: 27179--27204 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27169 GGCAAGGGAA
27179 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
27205 GTATTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27413 original size:74 final size:73
Alignment explanation
Indices: 27291--27437 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 73
27281 TTCCGAAGAA
* * *
27291 AGTTCTTTTGGAAATATAAGGTGAAAAAGTAGGACTAGGGATTAAGATCATGGTGGCGCCGTAGG
1 AGTTCCTTTGAAAATAAAAGGTGAAAAAGTAGGACTAGGGATTAAGATCATGGTGGCGCCGTA-G
27356 GTAATCTTG
65 GTAATCTTG
* * *
27365 AGTTCCTTTGAAAATAAAAGGTG-AAAAGCTAGGACTAGGGATTGAGATCATGGTGGTGCTGTAG
1 AGTTCCTTTGAAAATAAAAGGTGAAAAAG-TAGGACTAGGGATTAAGATCATGGTGGCGCCGTAG
27429 GTAATCTTG
65 GTAATCTTG
27438 TGGCATTGCC
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
73 15 0.23
74 51 0.77
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (73 bp):
AGTTCCTTTGAAAATAAAAGGTGAAAAAGTAGGACTAGGGATTAAGATCATGGTGGCGCCGTAGG
TAATCTTG
Found at i:34734 original size:13 final size:13
Alignment explanation
Indices: 34716--34740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34706 ATTTTGCTTA
34716 GTATCGATACATT
1 GTATCGATACATT
34729 GTATCGATACAT
1 GTATCGATACAT
34741 AAACTGGCAG
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):
GTATCGATACATT
Found at i:34896 original size:32 final size:32
Alignment explanation
Indices: 34809--34912 Score: 110
Period size: 32 Copynumber: 3.3 Consensus size: 32
34799 ATTGTGAATA
* * *
34809 GTATCGATACATCACTGTTCATCACTGTTAACT
1 GTATCGATAAATCACTGTTCATCACTATTCA-T
34842 GT-TC-ATAACTATTCAC-G-T-ATCACTATTCAT
1 GTATCGATAA--A-TCACTGTTCATCACTATTCAT
34872 GTATCGATAAATCACTGTTCATCACTATTCAT
1 GTATCGATAAATCACTGTTCATCACTATTCAT
34904 GTATCGATA
1 GTATCGATA
34913 CATTGTATCG
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
29 4 0.07
30 5 0.08
31 15 0.25
32 28 0.47
33 4 0.07
34 4 0.07
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (32 bp):
GTATCGATAAATCACTGTTCATCACTATTCAT
Found at i:34921 original size:13 final size:13
Alignment explanation
Indices: 34903--34927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34893 TCACTATTCA
34903 TGTATCGATACAT
1 TGTATCGATACAT
34916 TGTATCGATACA
1 TGTATCGATACA
34928 GTGTGAATAG
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:36022 original size:9 final size:9
Alignment explanation
Indices: 36010--36075 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
36000 ATCATCATCA
36010 TTTTTTGAT
1 TTTTTTGAT
36019 TTTTTT--T
1 TTTTTTGAT
* *
36026 ATTATT-AT
1 TTTTTTGAT
*
36034 TTTTTTAAAT
1 TTTTTT-GAT
36044 TTTTTTGAT
1 TTTTTTGAT
*
36053 TTCTTTGAT
1 TTTTTTGAT
*
36062 TTTTTTGGT
1 TTTTTTGAT
36071 TTTTT
1 TTTTT
36076 AATTTTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
7 5 0.11
8 5 0.11
9 28 0.61
10 8 0.17
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.77
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:36065 original size:18 final size:17
Alignment explanation
Indices: 36034--36081 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
36024 TTATTATTAT
36034 TTTTTTAAATTTTTTTGA
1 TTTTTT-AATTTTTTTGA
* *
36052 TTTCTTTGATTTTTTTGG
1 TTT-TTTAATTTTTTTGA
36070 TTTTTTAATTTT
1 TTTTTTAATTTT
36082 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 15 0.58
19 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTTTAATTTTTTTGA
Found at i:37470 original size:28 final size:28
Alignment explanation
Indices: 37416--37489 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
37406 GAAATAAGGT
***
37416 CGGGGTTGGAGTATCCCCTCGGCAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
37444 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCTCAAAAATAA
** *
37472 CAAGATTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
37490 GATTATGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:37540 original size:51 final size:51
Alignment explanation
Indices: 37316--37542 Score: 133
Period size: 51 Copynumber: 4.4 Consensus size: 51
37306 GAAAATAATA
** * * *
37316 GGGTTGGAGTATCCTTGATTATAAAAAATTGGTGTCTTAAAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCG
* * * * * **
37367 GGGTTGGAGTATCCCCAATTACGAAAAATCGATGCTTTAGAAATAAGGTCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCG
*** *** *
37418 GGGTTGGAGTATCCCCTCGGCAAT-AACGGGGTTGGA-GTATCCCCTCAAAAATAACAA---
1 GGGTTGGAGTAT-CCC-CGATTATGAA--AAATT-GATGT-T----TTAAAAATAA-AATCG
*
37475 -GATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCG
37525 GGGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
37543 GATTAAAAAT
Statistics
Matches: 124, Mismatches: 35, Indels: 34
0.64 0.18 0.18
Matches are distributed among these distances:
47 2 0.02
48 9 0.07
51 67 0.54
52 8 0.06
53 6 0.05
54 6 0.05
55 8 0.06
56 10 0.08
59 8 0.06
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCG
Found at i:51005 original size:156 final size:157
Alignment explanation
Indices: 50791--51118 Score: 378
Period size: 156 Copynumber: 2.1 Consensus size: 157
50781 ACAACGGGGC
* ** * *
50791 TGGAGTATCCCCGATTATGAAAAATCGGTGTTCTGGAAATAAAATCGAGATTAGAGTATCCTCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTCTAAAAATAAAACCGAGATTAGAGTATCCCCTC
* * ** * *
50856 GAAAATAACAGGGTTGGAGTATCCTTGATTAT-AGAAAATTGGTGTCTT-GAAATAAAATCGGGG
66 GAAAATAACAGGGATGGAGTATCCCTGATTATGAG-AAATCAGTATCTTAGAAAT-AAAGCGGGG
50919 TTGGAGTAT-CCCTC-GAAAATAACAGGGT
129 TTGGAGTATCCCCTCAG-AAATAACAGGGT
* * * * *
50947 TGGAGTATCCTCGATTGTGAAAAATCGATGCTT-TAAAAATAAAGCCGGGGTTAGAGTATCCCCT
1 TGGAGTATCCCCGATTATGAAAAATCGATG-TTCTAAAAATAAAACCGAGATTAGAGTATCCCCT
** * * *
51011 CGGCAATAACGGGGATGGAGTATCCCTGATTGTGAGAAATCAGTATTTTAGAAATAAAGCGGGGT
65 CGAAAATAACAGGGATGGAGTATCCCTGATTATGAGAAATCAGTATCTTAGAAATAAAGCGGGGT
*
51076 TGGAGTATCCCCTCAGAAATAACGGGGT
130 TGGAGTATCCCCTCAGAAATAACAGGGT
*
51104 TAGAGTATCCCCGAT
1 TGGAGTATCCCCGAT
51119 GAAAATAACA
Statistics
Matches: 143, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
156 104 0.73
157 38 0.27
158 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (157 bp):
TGGAGTATCCCCGATTATGAAAAATCGATGTTCTAAAAATAAAACCGAGATTAGAGTATCCCCTC
GAAAATAACAGGGATGGAGTATCCCTGATTATGAGAAATCAGTATCTTAGAAATAAAGCGGGGTT
GGAGTATCCCCTCAGAAATAACAGGGT
Found at i:51042 original size:79 final size:78
Alignment explanation
Indices: 50783--51114 Score: 318
Period size: 78 Copynumber: 4.2 Consensus size: 78
50773 TGGGGATAAC
* * * * * *
50783 AACGGGGCTGGAGTATCCCCGATTATGAAAAATCGGTGTTCTGGAAATAAAATCGAGATTAGAGT
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGTT-TAGAAATAAAATCGGGGTTAGAGT
*
50848 ATCCTCTCGAAAAT
65 ATCCCCTCGAAAAT
* * * * *
50862 AACAGGGTTGGAGTATCCTTGATTAT-AGAAAATTGGTGTCTT-GAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGA-AAAATCGATGT-TTAGAAATAAAATCGGGGTTAGAG
50925 TAT-CCCTCGAAAAT
64 TATCCCCTCGAAAAT
* * * **
50939 AACAGGGTTGGAGTAT-CCTCGATTGTGAAAAATCGATGCTTTAAAAATAAAGCCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCT-GATTATGAAAAATCGATG-TTTAGAAATAAAATCGGGGTTAGAG
**
51003 TATCCCCTCGGCAAT
64 TATCCCCTCGAAAAT
* * * * *
51018 AACGGGGATGGAGTATCCCTGATTGTGAGAAATCAGTAT-TTTAGAAAT-AAAGCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATC-G-ATGTTTAGAAATAAAATCGGGGTTAGAG
51081 TATCCCCTC-AGAAAT
64 TATCCCCTCGA-AAAT
*
51096 AACGGGGTTAGAGTATCCC
1 AACGGGGTTGGAGTATCCC
51115 CGATGAAAAT
Statistics
Matches: 212, Mismatches: 30, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
76 2 0.01
77 41 0.19
78 85 0.40
79 77 0.36
80 5 0.02
81 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAAATCGATGTTTAGAAATAAAATCGGGGTTAGAGTA
TCCCCTCGAAAAT
Found at i:51109 original size:28 final size:30
Alignment explanation
Indices: 51060--51115 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
51050 TCAGTATTTT
*
51060 AGAAATAAAGCGGGGTTGGAGTATCCCCTC
1 AGAAATAAAGCGGGGTTAGAGTATCCCCTC
51090 AGAAAT-AA-CGGGGTTAGAGTATCCCC
1 AGAAATAAAGCGGGGTTAGAGTATCCCC
51116 GATGAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 2 0.08
30 6 0.24
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (30 bp):
AGAAATAAAGCGGGGTTAGAGTATCCCCTC
Found at i:51122 original size:28 final size:28
Alignment explanation
Indices: 51061--51147 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
51051 CAGTATTTTA
*
51061 GAAATAAAGCGGGGTTGGAGTATCCCCTCA-
1 GAAAT-AA-CGGGGTTGGAGTATCCCC-GAT
*
51091 GAAATAACGGGGTTAGAGTATCCCCGAT
1 GAAATAACGGGGTTGGAGTATCCCCGAT
* * *
51119 GAAAATAACAGGGTTGGAATATCCTCGAT
1 G-AAATAACGGGGTTGGAGTATCCCCGAT
51148 TATGAAAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.37
29 25 0.51
30 5 0.10
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (28 bp):
GAAATAACGGGGTTGGAGTATCCCCGAT
Found at i:51190 original size:78 final size:79
Alignment explanation
Indices: 51098--51272 Score: 198
Period size: 78 Copynumber: 2.2 Consensus size: 79
51088 TCAGAAATAA
* *
51098 CGGGGTTAGAGTATCCCCGAT-GAAAATAAC-AGGGTTGGAATATC-CTCGATTATG-AAAATTG
1 CGGGGTTGGAGTATCCCC--TCGAAAATAACGA-GATTGGAATATCTC-CGATTATGAAAAATTG
* **
51159 GTG-TTTGGTAATAAAAT
62 ATGCTTTGAAAATAAAAT
*
51176 CGGGGTTGGAGTATCCCCTCGAAAATAACGAGATTGGAGTATCTCCGATTATGAAAAATTGATGC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGAGATTGGAATATCTCCGATTATGAAAAATTGATGC
51241 TTTGAAAATAAAAT
66 TTTGAAAATAAAAT
* * *
51255 CGGGATTGAAGTCTCCCC
1 CGGGGTTGGAGTATCCCC
51273 AAGATTAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
76 1 0.01
77 27 0.33
78 28 0.34
79 27 0.33
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGAGATTGGAATATCTCCGATTATGAAAAATTGATGC
TTTGAAAATAAAAT
Found at i:51226 original size:77 final size:79
Alignment explanation
Indices: 51098--51273 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 79
51088 TCAGAAATAA
* * *
51098 CGGGGTTAGAGTATCCCCGATGAAAATAACAGGGTTGGAATATCCTCGATTATG-AAAATTGGTG
1 CGGGGTTGGAGTATCCCC-ATGAAAATAACAGGATTGGAATATCCTCGATTATGAAAAATTGATG
**
51162 -TTTGGTAATAAAAT
65 CTTTGAAAATAAAAT
*
51176 CGGGGTTGGAGTATCCCC-TCGAAAATAAC-GAGATTGGAGTAT-CTCCGATTATGAAAAATTGA
1 CGGGGTTGGAGTATCCCCAT-GAAAATAACAG-GATTGGAATATCCT-CGATTATGAAAAATTGA
51238 TGCTTTGAAAATAAAAT
63 TGCTTTGAAAATAAAAT
* * *
51255 CGGGATTGAAGTCTCCCCA
1 CGGGGTTGGAGTATCCCCA
51274 AGATTAAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
76 4 0.05
77 26 0.31
78 26 0.31
79 27 0.33
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCATGAAAATAACAGGATTGGAATATCCTCGATTATGAAAAATTGATGC
TTTGAAAATAAAAT
Found at i:55045 original size:30 final size:31
Alignment explanation
Indices: 54950--55082 Score: 128
Period size: 30 Copynumber: 4.3 Consensus size: 31
54940 AGAAAGGCTA
* *
54950 TGTGGGCTTTAGAAGAGTTGCCACCGACATG
1 TGTGGGCTTTAAAAGAGTTGCCACCGACTTG
* * *
54981 TGTGGGCTTTGAGAAAG-GTTGTCACTGGCTTG
1 TGTGGGCTTT-A-AAAGAGTTGCCACCGACTTG
**
55013 TGTAAGCTTTAAAAGAG-TGCCACCGACTTG
1 TGTGGGCTTTAAAAGAGTTGCCACCGACTTG
* * * *
55043 TGTGGGCTTTAAAA-TGTTGCCATCAACTTA
1 TGTGGGCTTTAAAAGAGTTGCCACCGACTTG
55073 TGTGGGCTTT
1 TGTGGGCTTT
55083 GAATGGGGTG
Statistics
Matches: 82, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.01
30 46 0.56
31 12 0.15
32 20 0.24
33 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (31 bp):
TGTGGGCTTTAAAAGAGTTGCCACCGACTTG
Found at i:55158 original size:30 final size:30
Alignment explanation
Indices: 55098--55174 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
55088 GGGTGTCGCC
*
55098 AACTTGTGTAGGCTTTGACTCAAGTGCCACT
1 AACTTGTG-GGGCTTTGACTCAAGTGCCACT
**
55129 AACTTGTGCGGGCTTTGACTGGA-TGCCACT
1 AACTTGTG-GGGCTTTGACTCAAGTGCCACT
55159 AACTTGT-GGGCTTTGA
1 AACTTGTGGGGCTTTGA
55175 AAGGGTGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 9 0.21
30 14 0.33
31 19 0.45
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (30 bp):
AACTTGTGGGGCTTTGACTCAAGTGCCACT
Found at i:55183 original size:28 final size:28
Alignment explanation
Indices: 55121--55844 Score: 547
Period size: 28 Copynumber: 25.4 Consensus size: 28
55111 TTTGACTCAA
* **
55121 GTGCCACTAACTTGTGCGGGCTTTGACTGG
1 GTGCCACTGACTTGT--GGGCTTTGAAAGG
* *
55151 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
55179 GTGCCATTAACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
** *
55207 GTG-CTGTAGACTTATGGGCTTTGAAAGG
1 GTGCCACT-GACTTGTGGGCTTTGAAAGG
* *
55235 GTGCCACCGACTTG-GGAGCTTTAAAAGG
1 GTGCCACTGACTTGTGG-GCTTTGAAAGG
* * * * *
55263 ATGCTACCGACTTGTGAGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
55291 ATGCCACCGACTTGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * * *
55319 TTGCCACCGAATTGTGGCCTCTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * **
55347 GTGCCATTGGCTCATGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
55376 GTGCCACTGGCTTGTGGGTTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
** * * *
55405 GTGCCACAAACTTGTGGGTTTTAAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
55433 ATGCCACTGACTTGTGGGCTTTCAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
55461 ATGCCATTAACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
55489 GTGCCAATGACTTGTGGCCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
55517 GTGCCACTGACTTATAGGATTTCCAAAGG
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
* * * **
55546 GTGCCACTGACGTATGGACTTTTGAAATA
1 GTGCCACTGACTTGTGGGC-TTTGAAAGG
* * *
55575 ATGCCATTGACTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
55603 GATGCCACTGACTCGTGAGCTTTGAAAAGG
1 G-TGCCACTGACTTGTGGGCTTTG-AAAGG
* **
55633 GTGCCACTAACTCATGGGCTTTAGAAAGG
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
* *
55662 GTGCCA-TGATTTGTGGGCTTTTGAAATG
1 GTGCCACTGACTTGTGGGC-TTTGAAAGG
*
55690 ATGCCACTGA-TTCGTGGGCTTTGAAAGG
1 GTGCCACTGACTT-GTGGGCTTTGAAAGG
55718 GATGCCACTGACTTGTGGGCTTTGAAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGG
* * ** *
55747 ATGCCACTGAATCATGGGATTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
55775 GTGCCACTGACTCGTGGGCTTTTAAAATG
1 GTGCCACTGACTTGTGGGC-TTTGAAAGG
* * ** *
55804 ATGCCACTAACTCATAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
55832 GATGCCACTGACT
1 G-TGCCACTGACT
55845 ATTGTTTCTT
Statistics
Matches: 557, Mismatches: 120, Indels: 35
0.78 0.17 0.05
Matches are distributed among these distances:
27 4 0.01
28 323 0.58
29 204 0.37
30 26 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:56160 original size:61 final size:61
Alignment explanation
Indices: 55985--56164 Score: 252
Period size: 61 Copynumber: 3.0 Consensus size: 61
55975 TTGGTCATTT
* * * * *** *
55985 TTCACGCTTGCCTACTTGTTGGAGCTGTTGTTGCTGCTGTCGTGCTGTTGTTTCATTGTTG
1 TTCATGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCTGTCGTGCTGTTGTTTGGCTATTG
* *
56046 TTCATGCTTGCCTGCTTGTTGGAGCTGCTTTTGTTGCTGTCGTGCTATTGTTTGGCTATTG
1 TTCATGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCTGTCGTGCTGTTGTTTGGCTATTG
* *
56107 TTCATGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCTGCCATGCTGTTGTTTGGCTA
1 TTCATGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCTGTCGTGCTGTTGTTTGGCTA
56165 CTATTCGCAC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 105 1.00
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (61 bp):
TTCATGCTTGCCTGCTTGTTGGAGCTGCTGTTGTTGCTGTCGTGCTGTTGTTTGGCTATTG
Found at i:56884 original size:13 final size:14
Alignment explanation
Indices: 56866--56895 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
56856 ATAATTTTTA
56866 TTAATTTTT-ATTT
1 TTAATTTTTGATTT
56879 TTAATTTTTGATTT
1 TTAATTTTTGATTT
56893 TTA
1 TTA
56896 CTTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TTAATTTTTGATTT
Found at i:57452 original size:43 final size:43
Alignment explanation
Indices: 57400--58400 Score: 457
Period size: 42 Copynumber: 23.7 Consensus size: 43
57390 AGATGAGGCA
* * *
57400 GTCTCCAAGGTCAAAGCTGACAGGTATACTAAGGGATAGGAAG
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * *
57443 GTCTCCAAGGTCAAAGCCGACAGACAGATTAAGGG-TAGAAAG
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * * *
57485 GTCTCCAGGGTCAAAGCCGACAGACAGACTTAGGGATAGGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
** * * * *
57528 GTCTTTAGGGTCAAAGCTGACAGGCAGACTTTAA--AATGAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGGAT-AGGAAG
* * * * *
57571 GTCTCTAAGGTCAAAGCCGACAAGCAAACTTTAA--AATGAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGGAT-AGGAAG
* *
57614 GTCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGG-TAGAAAG
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * * * *
57656 GTCTCTAGGGTCAAAGCCGATAGGCAGACTAAGGG-TAAGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * * * *
57698 GTCTCTAGGGTCAAAGCCGACAGGCAAACTTAA--AATGAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGAT-AGGAAG
* * * * * * *
57740 GTCTCTAGGGTCAAAACGGACAGGCAGACTGAGGG-CAGGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * * *
57782 GTCTCCAAGGTCAAAGCCAACAGGGAGACTGAA-GG-TAGAAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAAG
* * *
57824 GTCTCCAGGGTCAAAGCCGACAGGCAGATTGAA-GGATAGGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAAG
* * * * * *
57867 GTCTCTAGGGTCAAAGCCAATAGGCAGACTTAA--AATGAGGTA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGAT-AGGAAG
* * * *
57909 GTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGG-CAGGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
** * ** * * * *
57951 GTCTTTAGGGTCAAAGCTAACAAGCAGATTTA--GATTGAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGA-T-AGGAAG
* * * * * * * *
57993 CTCTCTAAGGTCAAAGCTGATAAGCAGATTGAAGGCA-A-GAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGATAGGAAG
* * * * *
58035 GTCTCCAAGGTCAAAGCCAACAAGCAGACTTA-GAATAAGGTA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAT-AGGAAG
** * * * *
58077 GTCTTTAGGGTCAAAGCCGACAGGCAGACTGAGGGA-AGAAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * *
58119 GTCTCCAAGGTCAAAGCCAACAAGCAGACTTTAA---ATGAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGGAT-AGGAAG
* ** * *
58161 GTCTCCAAGGTCAAAGCTGACAGGCAGACT-TTGAATAAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAT-AGGAAG
* * * * * * *
58203 GTCTCTAGGGTCAAAGTCGATAGGTAGAC-ATA-GAATAAGGCA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTA-AGGGAT-AGGAAG
* * * *
58245 GTCTCCAAGGTCAAAGCCAACAGGCAGACTGAGGG-TAGAAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * *
58287 GTCTCCAAGGTCAAAGCCGATAGGCAGACTTTA--GATAAGGTA-
1 GTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGAT-AGGAAG
* * * * *
58329 GTCTCTAGGGTCAAAGCCAACAGGCAGACTGAGGG-TAGGAAA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
* * *
58371 GTCTCCAATGTCAATGCTGACAGGCAGACT
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACT
58401 TTAGATAAGG
Statistics
Matches: 748, Mismatches: 160, Indels: 101
0.74 0.16 0.10
Matches are distributed among these distances:
40 4 0.01
41 35 0.05
42 511 0.68
43 188 0.25
44 7 0.01
45 3 0.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (43 bp):
GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAG
Found at i:57722 original size:84 final size:84
Alignment explanation
Indices: 57359--58644 Score: 931
Period size: 84 Copynumber: 15.2 Consensus size: 84
57349 AAAAATAGAT
* ** * * * * *
57359 TCTCCTAGGTCAAAGCCGACAAACA-ACCTTTAGATGAGGCAGTCTCCAAGGTCAAAGCTGACAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGA-CTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAG
* * * *
57423 GTATACTAAGGGATAGGAAGG
65 GCAGACTGAGGG-TAGGAAAG
* ** ** *
57444 TCTCCAAGGTCAAAGCCGACAGACAGA-TT-AAGGGTAGAAAGGTCTCCAGGGTCAAAGCCGACA
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATG-AGGCA-GTCTCTAGGGTCAAAGCCGACA
* *
57507 GACAGACTTAGGGATAGGAAAG
64 GGCAGACTGAGGG-TAGGAAAG
** * * * *
57529 TCTTTAGGGTCAAAGCTGACAGGCAGACTTTAAAATGAGGCAGTCTCTAAGGTCAAAGCCGACAA
1 TCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAG
* * *** *
57594 GCAAACTTTAAAATGAGG-CAG
65 GCAGAC-TGAGGGT-AGGAAAG
* ** ** *
57615 TCTCCAAGGTCAAAGCTGACAGGCAGAC-T-AAGGGTAGAAAGGTCTCTAGGGTCAAAGCCGATA
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATG-AGGCA-GTCTCTAGGGTCAAAGCCGACA
* *
57678 GGCAGACTAAGGGTAAGAAAG
64 GGCAGACTGAGGGTAGGAAAG
* * * * *
57699 TCTCTAGGGTCAAAGCCGACAGGCAAACTTAAAATGAGGCAGTCTCTAGGGTCAAAACGGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
*
57764 CAGACTGAGGGCAGGAAAG
66 CAGACTGAGGGTAGGAAAG
* * * ** ** *
57783 TCTCCAAGGTCAAAGCCAACAGGGAGACTGAAGGT-AGAAAAGTCTCCAGGGTCAAAGCCGACAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAG-GCAGTCTCTAGGGTCAAAGCCGACAG
* *
57847 GCAGATTGAAGGATAGGAAAG
65 GCAGACTG-AGGGTAGGAAAG
* * * * * * * *
57868 TCTCTAGGGTCAAAGCCAATAGGCAGACTTAAAATGAGGTAGTCTCCAAGGTCAAAGCCGATAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
*
57933 CAGACTGAGGGCAGGAAAG
66 CAGACTGAGGGTAGGAAAG
** * ** * * * * * * * * *
57952 TCTTTAGGGTCAAAGCTAACAAGCAGATTTAGATTGAGGCACTCTCTAAGGTCAAAGCTGATAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
* * * *
58017 CAGATTGAAGGCAAGAAAG
66 CAGACTGAGGGTAGGAAAG
* * * * * *
58036 TCTCCAAGGTCAAAGCCAACAAGCAGACTTAGAATAAGGTAGTCTTTAGGGTCAAAGCCGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
* *
58101 CAGACTGAGGGAAGAAAAG
66 CAGACTGAGGGTAGGAAAG
* * * * * *
58120 TCTCCAAGGTCAAAGCCAACAAGCAGACTTTAAATGAGGCAGTCTCCAAGGTCAAAGCTGACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
** ** *
58185 CAGACTTTGAATAAGG-CAG
66 CAGACTGAGGGT-AGGAAAG
* * * * * * * * * * *
58204 TCTCTAGGGTCAAAGTCGATAGGTAGACATAGAATAAGGCAGTCTCCAAGGTCAAAGCCAACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
*
58269 CAGACTGAGGGTAGAAAAG
66 CAGACTGAGGGTAGGAAAG
* * * * * *
58288 TCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATAAGGTAGTCTCTAGGGTCAAAGCCAACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
58353 CAGACTGAGGGTAGGAAAG
66 CAGACTGAGGGTAGGAAAG
* * * * * * * * *
58372 TCTCCAATGTCAATGCTGACAGGCAGACTTTAGATAAGGTAGTCTCTAGAGTCAAAGCCAACAGG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
* *
58437 CAAATTGAGGGTAGGAAAG
66 CAGACTGAGGGTAGGAAAG
* ** * * * * * * *
58456 TCTCCAGGGTCAAAGTTGATAGGCAAACTTTAGATGAGGCAGCCT-TCAGGGTCAACGCCGATAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCT-AGGGTCAAAGCCGACAG
*
58520 ACAGACTGAGGGTAGGAAAG
65 GCAGACTGAGGGTAGGAAAG
* * * * * * * * ** * *
58540 TCTCTAGGGTCAAAGTCGATAGGCAAACTTGAGATGAGGCAGTCTCCAAAGTCAAAGACGACAAG
1 TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
* *
58605 CAGACTTGA-GATGAGG-CAG
66 CAGAC-TGAGGGT-AGGAAAG
58624 TCTCC-AGAGTCAAAGCCGACA
1 TCTCCAAG-GTCAAAGCCGACA
58645 AGCACACTGA
Statistics
Matches: 964, Mismatches: 214, Indels: 47
0.79 0.17 0.04
Matches are distributed among these distances:
83 13 0.01
84 693 0.72
85 186 0.19
86 58 0.06
87 11 0.01
88 3 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (84 bp):
TCTCCAAGGTCAAAGCCGACAGGCAGACTTAAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGG
CAGACTGAGGGTAGGAAAG
Found at i:57767 original size:126 final size:125
Alignment explanation
Indices: 57399--58671 Score: 708
Period size: 126 Copynumber: 10.1 Consensus size: 125
57389 TAGATGAGGC
* * * * * * *
57399 AGTCTCCAAGGTCAAAGCTGACAGGTATACTAAGGGATAGGAAGGTCTCCAAGGTCAAAGCCGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAA-GGATAAGAAAGTCTCTAGGGTCAAAGCCGAC
* ** ** * * *
57464 AGACAGA-TT-AAGGGTAGAAAGGTCTCCAGGGTCAAAGCCGACAGACAGACTTAGGGATAGGAA
65 AGGCAGACTTAAAATG-AGGCA-GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGG-TA-GAA
** * * * * ** *
57527 AGTCTTTAGGGTCAAAGCTGACAGGCAGACTTTAA-AATGAGGCAGTCTCTAAGGTCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGA
* * *
57591 CAAGCAAACTTTAAAATGAGGCAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGTAGAA
64 CAGGCAGAC-TTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAGAA
* * * *
57654 AGGTCTCTAGGGTCAAAGCCGATAGGCAGACTAAGGGTAAGAAAGTCTCTAGGGTCAAAGCCGAC
1 A-GTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGAC
* * * * * * *
57719 AGGCAAACTTAAAATGAGGCAGTCTCTAGGGTCAAAACGGACAGGCAGACTGAGGGCAGGAA
65 AGGCAGACTTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTA-GAA
* * *
57781 AGTCTCCAAGGTCAAAGCCAACAGGGAGACTGAAGG-T-AGAAAAGTCTCCAGGGTCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGATAAG-AAAGTCTCTAGGGTCAAAGCCGA
* * * * * * **
57844 CAGGCAGA-TTGAAGGAT-AGGAAAGTCTCTAGGGTCAAAGCCAATAGGCAGACTTAA-AATGAG
64 CAGGCAGACTT-AA-AATGAGG-CAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGT-AG
**
57906 GT
124 AA
* * ** * * **
57908 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGGCAGGAAAGTCTTTAGGGTCAAAGCTAACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGACA
* * * * * * * * * * **
57973 AGCAGATTTAGATTGAGGCACTCTCTAAGGTCAAAGCTGATAAGCAGATTGAAGGCAAGAA
66 GGCAGACTTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAGGGTAGAA
* * * * ** *
58034 AGTCTCCAAGGTCAAAGCCAACAAGCAGACTTAGAATAAGGTAGTCTTTAGGGTCAAAGCCGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGACA
* * ** * * ** **
58099 GGCAGACTGAGGGAA-GA-AAAGTCTCCAAGGTCAAAGCCAACAAGCAGACTTTAAATG-AGGC
66 GGCAGACTTA--AAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGGTAGAA
* ** * ** * *
58160 AGTCTCCAAGGTCAAAGCTGACAGGCAGACTTTGAATAAGGCAGTCTCTAGGGTCAAAGTCGATA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGACA
* * * * * *
58225 GGTAGACATAGAATAAGGCAGTCTCCAAGGTCAAAGCCAACAGGCAGACTGAGGGTAGAAA
66 GGCAGACTTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAG-AA
* * ** *
58286 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTA-GATAAGGTAGTCTCTAGGGTCAAAGCCAAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGAC
* *** * * * * * * **
58350 AGGCAGACTGAGGGT-AGGAAAGTCTCCAATGTCAATGCTGACAGGCAGACTTTA-GATAAGGT
65 AGGCAGACTTAAAATGAGG-CAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGGT-AGAA
* * * * * * * * ** *
58412 AGTCT-CTAGAGTCAAAGCCAACAGGCAAATTGAGGGTAGGAAAGTCTCCAGGGTCAAAGTTGAT
1 AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGAC
* * * * * * * * * *
58476 AGGCAAACTTTAGATGAGGCAGCCTTCAGGGTCAACGCCGATAGACAGACTGAGGGTAGGAA
65 AGGCAGACTTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTA-GAA
* * * * * * * ** * ** *
58538 AGTCTCTAGGGTCAAAGTCGATAGGCAAACT-TGAGATGAGGCAGTCTCCAAAGTCAAAGACGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAG-GATAAGAAAGTCTCTAGGGTCAAAGCCGAC
* * * * * *
58602 AAGCAGACTTGAGATGAGGCAGTCTCC-AGAGTCAAAGCCGACAAGCACACTGAGGGTATGAA
65 AGGCAGACTTAAAATGAGGCAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTAAGGGTA-GAA
58664 AGTCTCCA
1 AGTCTCCA
58672 GATAGTTTAA
Statistics
Matches: 885, Mismatches: 219, Indels: 84
0.74 0.18 0.07
Matches are distributed among these distances:
124 6 0.01
125 21 0.02
126 583 0.66
127 144 0.16
128 89 0.10
129 31 0.04
130 8 0.01
131 3 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (125 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGATAAGAAAGTCTCTAGGGTCAAAGCCGACA
GGCAGACTTAAAATGAGGCAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGTAGAA
Found at i:58648 original size:42 final size:42
Alignment explanation
Indices: 57359--58644 Score: 450
Period size: 42 Copynumber: 30.5 Consensus size: 42
57349 AAAAATAGAT
** * *
57359 TCTCCTAG-GTCAAAGCCGACAAACA-ACCTTTAGATGAGGCAG
1 TCTCC-AGAGTCAAAGCCGACAGGCAGA-CTTGAGATGAGGAAG
* * * * *
57401 TCTCCA-AGGTCAAAGCTGACAGGTATACTAAGGGAT-AGGAAGG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACT-TGAGATGAGGAA-G
* * * *
57444 TCTCCA-AGGTCAAAGCCGACAGACAGA-TTAAG-GGTAGAAAGG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG-AGGAA-G
* * *
57486 TCTCCAGGGTCAAAGCCGACAGACAGACTTAGGGAT-AGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTT-GAGATGAGG-AAG
** * * * * *
57529 TCTTTAGGGTCAAAGCTGACAGGCAGACTTTAAAATGAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGAC-TTGAGATGAGGAAG
* * * * * *
57572 TCTCTA-AGGTCAAAGCCGACAAGCAAACTTTAAAATGAGGCAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGAC-TTGAGATGAGGAAG
* * * *
57615 TCTCCA-AGGTCAAAGCTGACAGGCAGAC-TAAG-GGTAGAAAGG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG-AGGAA-G
* * * * * * *
57657 TCTCTAGGGTCAAAGCCGATAGGCAGAC-TAAGGGTAAGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGA-GATGAGGAAG
* * * * * *
57699 TCTCTAGGGTCAAAGCCGACAGGCAAACTTAAAATGAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * * * *
57741 TCTCTAGGGTCAAAACGGACAGGCAGAC-TGAG-GGCAGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATG-AGG-AAG
* * * *
57783 TCTCCA-AGGTCAAAGCCAACAGGGAGAC-TGA-AGGTAGAAAAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG-AG-GAAG
*
57825 TCTCCAGGGTCAAAGCCGACAGGCAGA-TTGAAGGAT-AGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTG-A-GATGAGG-AAG
* * * * * * *
57868 TCTCTAGGGTCAAAGCCAATAGGCAGACTTAAAATGAGGTAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* *
57910 TCTCCA-AGGTCAAAGCCGATAGGCAGAC-TGAG-GGCAGGAAAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG-AGG-AAG
** * ** * * * *
57952 TCTTTAGGGTCAAAGCTAACAAGCAGA-TTTAGATTGAGGCAC
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGA-TGAGGAAG
* * * * * *
57994 TCTCTA-AGGTCAAAGCTGATAAGCAGA-TTGA-AGGCAAGAAAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG--AGGAAG
* * * *
58036 TCTCCA-AGGTCAAAGCCAACAAGCAGACTT-AGAATAAGGTAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAG-ATGAGGAAG
** * * *
58078 TCTTTAGGGTCAAAGCCGACAGGCAGAC-TGAG-GGAAGAAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATG-AG-GAAG
* * * * *
58120 TCTCCA-AGGTCAAAGCCAACAAGCAGACTTTAAATGAGGCAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * *
58162 TCTCCA-AGGTCAAAGCTGACAGGCAGACTTTGA-ATAAGGCAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGAC-TTGAGATGAGGAAG
* * * * * * * *
58204 TCTCTAGGGTCAAAGTCGATAGGTAGACAT-AGAATAAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAG-ATGAGGAAG
* * *
58246 TCTCCA-AGGTCAAAGCCAACAGGCAGAC-TGAG-GGTAGAAAAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATG-AG-GAAG
* * * *
58288 TCTCCA-AGGTCAAAGCCGATAGGCAGACTTTAGATAAGGTAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * * *
58330 TCTCTAGGGTCAAAGCCAACAGGCAGAC-TGAG-GGTAGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATG-AGG-AAG
* * * * *
58372 TCTCCA-ATGTCAATGCTGACAGGCAGACTTTAGATAAGGTAG
1 TCTCCAGA-GTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * * *
58414 TCTCTAGAGTCAAAGCCAACAGGCA-AATTGAG-GGTAGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATG-AGG-AAG
* ** * * * *
58456 TCTCCAGGGTCAAAGTTGATAGGCAAACTTTAGATGAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * * * * * *
58498 CCTTCAGGGTCAACGCCGATAGACAGAC-TGAG-GGTAGGAAAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATG-AGG-AAG
* * * * * *
58540 TCTCTAGGGTCAAAGTCGATAGGCAAACTTGAGATGAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
* * * *
58582 TCTCCAAAGTCAAAGACGACAAGCAGACTTGAGATGAGGCAG
1 TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
58624 TCTCCAGAGTCAAAGCCGACA
1 TCTCCAGAGTCAAAGCCGACA
58645 AGCACACTGA
Statistics
Matches: 936, Mismatches: 229, Indels: 158
0.71 0.17 0.12
Matches are distributed among these distances:
40 6 0.01
41 46 0.05
42 664 0.71
43 204 0.22
44 15 0.02
45 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.17
Consensus pattern (42 bp):
TCTCCAGAGTCAAAGCCGACAGGCAGACTTGAGATGAGGAAG
Found at i:58668 original size:42 final size:41
Alignment explanation
Indices: 58537--58673 Score: 116
Period size: 42 Copynumber: 3.3 Consensus size: 41
58527 GAGGGTAGGA
* * * * * *
58537 AAGTCTCTAGGGTCAAAGTCGATAGGCAAACTTGAGATGAGG
1 AAGTCTCCAGAGTCAAAGACGACAAGCACACTTGAGATGA-G
* * *
58579 CAGTCTCCAAAGTCAAAGACGACAAGCAGACTTGAGATGAGG
1 AAGTCTCCAGAGTCAAAGACGACAAGCACACTTGAGATGA-G
* *
58621 CAGTCTCCAGAGTCAAAGCCGACAAGCACAC-TGAGGGTATGA-
1 AAGTCTCCAGAGTCAAAGACGACAAGCACACTTGA--G-ATGAG
58663 AAGTCTCCAGA
1 AAGTCTCCAGA
58674 TAGTTTAACT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.04
42 72 0.90
43 1 0.01
44 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (41 bp):
AAGTCTCCAGAGTCAAAGACGACAAGCACACTTGAGATGAG
Found at i:65348 original size:52 final size:52
Alignment explanation
Indices: 65223--65348 Score: 180
Period size: 52 Copynumber: 2.4 Consensus size: 52
65213 AATATGAAAT
* *
65223 TTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTAGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAATGTATCAATACATCCAGGCAAA
* * * * *
65275 TTTGCCTGTATGTACCAATACATTTCATAGTGTATCAATACATCCGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAATGTATCAATACATCCAGGCAAA
*
65327 TTTGCCTGCAGGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
65349 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAATGTATCAATACATCCAGGCAAA
Found at i:65375 original size:13 final size:13
Alignment explanation
Indices: 65357--65381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65347 CAAAGATCAG
65357 TGTATCGATACAA
1 TGTATCGATACAA
65370 TGTATCGATACA
1 TGTATCGATACA
65382 TTTGAGTAAT
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:65444 original size:13 final size:13
Alignment explanation
Indices: 65426--65477 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
65416 AGCTTCGTAG
65426 CGATACATTGTAT
1 CGATACATTGTAT
65439 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
65458 CGATACATTGTAT
1 CGATACATTGTAT
65471 CGATACA
1 CGATACA
65478 ACACATATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:65467 original size:32 final size:32
Alignment explanation
Indices: 65426--65496 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
65416 AGCTTCGTAG
*
65426 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACATATGTAT
*
65458 CGATACATTGTATCGATACAACACATATGTAT
1 CGATACATTGTATCGATACAAAACATATGTAT
*
65490 CAATACA
1 CGATACA
65497 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACATATGTAT
Found at i:65490 original size:19 final size:17
Alignment explanation
Indices: 65430--65498 Score: 56
Period size: 19 Copynumber: 4.1 Consensus size: 17
65420 TCGTAGCGAT
65430 ACATTGTATCGATACAAA
1 ACATTGTATCGATAC-AA
*
65448 ACTTATGTATCGAT----
1 ACAT-TGTATCGATACAA
65462 ACATTGTATCGATACAA
1 ACATTGTATCGATACAA
*
65479 CACATATGTATCAATACAA
1 -ACAT-TGTATCGATACAA
65498 A
1 A
65499 TCGTTGAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
13 9 0.22
14 3 0.07
18 8 0.20
19 21 0.51
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (17 bp):
ACATTGTATCGATACAA
Found at i:76584 original size:42 final size:42
Alignment explanation
Indices: 76525--77076 Score: 667
Period size: 42 Copynumber: 13.2 Consensus size: 42
76515 TAAACTTCTA
*
76525 GAGACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
76567 GAGACTTTCTTTCCCTTAGTCTACCTGTCTGCTTTGACCCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* *
76609 GAGACTTTCCTTCCTTTA-TCTGCTTGTCGGCTTTGACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
*
76650 GAGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
76692 GAGATTTTCCTTCCCTTAGTTTGCTTGTCGGCTTTGACCCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * *
76734 GAGACTTTCCTTCCCTTAGTCTGCTTGACGGTTTTGACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * * *
76776 GACACTTTCCTACCTTTAGTTTGCCTGTCGGCTTTGACCTTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
76818 GAGACTTTCCTACCCTTAGTCTACCTATCGGCTTTGACCCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
76860 GAGACTTTCCTTCCCTTAGTTTGCTTGTCAGCTTTGACCCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * * *
76902 GAGACTTTCCTTCCTTTAGTCTGCTTATCGACTTTGACCCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* *
76944 GAGATTTTCATTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * * * * * *
76986 GAGA-TCTTCCTACTCTTAATCTACCTATCGACTTTGATCTTG
1 GAGACT-TTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * *
77028 GAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTAACCCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
77070 GAGACTT
1 GAGACTT
77077 GCTTTAACCC
Statistics
Matches: 434, Mismatches: 73, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
41 36 0.08
42 397 0.91
43 1 0.00
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.39
Consensus pattern (42 bp):
GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTG
Found at i:77093 original size:19 final size:19
Alignment explanation
Indices: 77058--77095 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77048 CTGCCTATCG
**
77058 GCTTTAACCCTGGAGACTT
1 GCTTTAACCCTAAAGACTT
77077 GCTTTAACCCTAAAGACTT
1 GCTTTAACCCTAAAGACTT
77096 TCCTACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
GCTTTAACCCTAAAGACTT
Found at i:77223 original size:41 final size:41
Alignment explanation
Indices: 77077--77295 Score: 147
Period size: 42 Copynumber: 5.3 Consensus size: 41
77067 CTGGAGACTT
* * * *
77077 GCTTTAACCCTAAAGACTTTCCTACCCTCAATCTGCCTGTCG
1 GCTTTGACCCTAGAGACTTT-CTTCCCTCAGTCTGCCTGTCG
* * ** * *
77119 ACTTTGGCTTTAGAGACTTTCCTTCCCTCAGTCTGCCCGTTG
1 GCTTTGACCCTAGAGACTTT-CTTCCCTCAGTCTGCCTGTCG
* * * *
77161 GC-TTAACCCTAGAGATTTTTCTTTCCTTAGTCTGCCTGTCG
1 GCTTTGACCCTAGAGA-CTTTCTTCCCTCAGTCTGCCTGTCG
* * * * * *
77202 GCTTTGACCCTAGAGACTTTCTACCTTTAGCCTGCTTATCG
1 GCTTTGACCCTAGAGACTTTCTTCCCTCAGTCTGCCTGTCG
* * * *
77243 G-TCTTGACCTTGGAGACTTT-TTAACCCTCAATTTGCCTGTCG
1 GCT-TTGACCCTAGAGACTTTCTT--CCCTCAGTCTGCCTGTCG
77285 GCTTTGACCCT
1 GCTTTGACCCT
77296 GAAGACTGCC
Statistics
Matches: 132, Mismatches: 39, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
40 2 0.02
41 62 0.47
42 67 0.51
43 1 0.01
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.37
Consensus pattern (41 bp):
GCTTTGACCCTAGAGACTTTCTTCCCTCAGTCTGCCTGTCG
Found at i:78509 original size:16 final size:16
Alignment explanation
Indices: 78490--78521 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78480 TATAATTAAA
*
78490 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
78506 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
78522 TATTTTCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:80045 original size:22 final size:21
Alignment explanation
Indices: 79996--80046 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
79986 CGTTGTGACA
* *
79996 CACTTTTTTTGTTTTTCTTTT
1 CACTTTTTGTGTTTTGCTTTT
*
80017 CATTTTTTGTGCTTTTGCTTTT
1 CACTTTTTGTG-TTTTGCTTTT
*
80039 GACTTTTT
1 CACTTTTT
80047 CATAATTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.06, C:0.14, G:0.10, T:0.71
Consensus pattern (21 bp):
CACTTTTTGTGTTTTGCTTTT
Found at i:80943 original size:23 final size:23
Alignment explanation
Indices: 80913--80960 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
80903 ACAATGGATG
80913 ATAATGAATGATTAATGATGCGA
1 ATAATGAATGATTAATGATGCGA
80936 ATAATGAATGATTAATGATGCGA
1 ATAATGAATGATTAATGATGCGA
80959 AT
1 AT
80961 GCACGATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (23 bp):
ATAATGAATGATTAATGATGCGA
Found at i:85145 original size:16 final size:17
Alignment explanation
Indices: 85108--85162 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 17
85098 ATTATTATTA
85108 TTTTGAATTT-TTTGAATTT
1 TTTTGAATTTCTTTG-A--T
85127 TTTTG-ATTTCTTTGA-
1 TTTTGAATTTCTTTGAT
85142 TTTTGAATTTCTTTGAT
1 TTTTGAATTTCTTTGAT
85159 TTTT
1 TTTT
85163 TTGTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.15
16 10 0.30
17 4 0.12
18 5 0.15
19 9 0.27
ACGTcount: A:0.16, C:0.04, G:0.11, T:0.69
Consensus pattern (17 bp):
TTTTGAATTTCTTTGAT
Found at i:85145 original size:25 final size:25
Alignment explanation
Indices: 85117--85170 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
85107 ATTTTGAATT
*
85117 TTTTGAATTTTTTTGATTTCTTTGA
1 TTTTGAATTTCTTTGATTTCTTTGA
* *
85142 TTTTGAATTTCTTTGATTTTTTTGT
1 TTTTGAATTTCTTTGATTTCTTTGA
85167 TTTT
1 TTTT
85171 TAGTTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.13, C:0.04, G:0.11, T:0.72
Consensus pattern (25 bp):
TTTTGAATTTCTTTGATTTCTTTGA
Found at i:85170 original size:9 final size:9
Alignment explanation
Indices: 85086--85171 Score: 56
Period size: 9 Copynumber: 9.8 Consensus size: 9
85076 CATCATCATC
*
85086 ATTTTTTTT
1 ATTTTTTTG
*
85095 ATTATTATT-
1 ATT-TTTTTG
*
85104 ATTATTTTG
1 ATTTTTTTG
*
85113 AATTTTTTG
1 ATTTTTTTG
85122 AATTTTTTTG
1 -ATTTTTTTG
*
85132 ATTTCTTTG
1 ATTTTTTTG
85141 A---TTTTG
1 ATTTTTTTG
*
85147 AATTTCTTTG
1 -ATTTTTTTG
85157 ATTTTTTTG
1 ATTTTTTTG
85166 -TTTTTT
1 ATTTTTT
85172 AGTTTTATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
6 4 0.07
7 1 0.02
8 9 0.15
9 30 0.50
10 16 0.27
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.72
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:85726 original size:50 final size:51
Alignment explanation
Indices: 85621--85733 Score: 122
Period size: 50 Copynumber: 2.2 Consensus size: 51
85611 AAAACAACAG
* * * * **
85621 GGTTGGAA-TATCCTCGATGGTGAAAAATTGATATTTTGGAATTAAAAATGG
1 GGTT-GAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATAA
* *
85672 GGTTGAAGTATCCCCGATGGTG-AAAGTCGATATTTTGAAAATAAAATTAA
1 GGTTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATAA
*
85722 GGTTGGAGTATC
1 GGTTGAAGTATC
85734 TCCTCAGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 35 0.67
51 17 0.33
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.32
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATGGTGAAAAATCGATATTTTGAAAATAAAAATAA
Found at i:85805 original size:79 final size:78
Alignment explanation
Indices: 85670--86507 Score: 780
Period size: 79 Copynumber: 10.6 Consensus size: 78
85660 AATTAAAAAT
* * * ***
85670 GGGGTTGAAGTATCCCCGATGGT-GAAAGTCGATATTTT-GAAAATAAAATTAAGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAG-AAATAAAATCGGGGTTGGAGTAT
85733 CTCCTCAGAAATAAC
65 C-CCTCAGAAATAAC
* *
85748 GGGGTTGGAGTATCCTCAATGGTGGAAAATCAATATTTTATG-AATAAAATCGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTA-GAAATAAAATCGGGGTTGGAGTAT
* *
85812 CCCTTCGGAAATAAT
65 CCC-TCAGAAATAAC
* * * *
85827 GGGGTTGGAGTATTCCCCGATTGT-GAAAATTCGATATTTTAGAAATAAAATTGAGGTTGGAGTA
1 GGGGTTGGAGTA-TCCTCGATGGTGGAAAA-TCGATATTTTAGAAATAAAATCGGGGTTGGAGTA
*
85891 TCCCCTCATAAATAAC
64 T-CCCTCAGAAATAAC
* * * * * *
85907 GGGGTTAGAGTATCCTCGATAGTGAAAAAT-TAGTGTTTTAGAAATAAAA-CTGAGGTTGGAGTA
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGA-TATTTTAGAAATAAAATC-GGGGTTGGAGTA
*
85970 TCTCCTCAGAAATAAT
64 TC-CCTCAGAAATAAC
* * * * *
85986 GGGGTTAGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAATCGGGGTTAGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATC
*
86051 CTCTCAAAAATAAC
66 C-CTCAGAAATAAC
* * * * * * *
86065 GAGATTGGAGTGTCC-CAGAGGGTGAAAAATCGATGTTTTAGAAATAAAATCGGGGTTTGAGTAT
1 GGGGTTGGAGTATCCTC-GATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
86129 CCCCTTAAAAATAAC
65 -CCCTCAGAAATAAC
* * * *
86144 GGGGTTGGAGTATCTTCGATGGTGGAAAATCAATATTTTAGAAGTAAAATCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATC
*
86209 CC-CTAGAAAATAAT
66 CCTC-AG-AAATAAC
* * * *
86223 GGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAATCGGGGTTAGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTAT-
**
86288 CCCTTGGAAATAAC
65 CCCTCAGAAATAAC
* * * * * * * * *
86302 GAGATTAGAGTGTCCTAGATAGTGAAAAATCGATATTTTAGAAATAAAA-CTAGGGTTAGAGTAT
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATC-GGGGTTGGAGTAT
* * *
86366 CCCTTTAAAAATAAT
65 CCC-TCAGAAATAAC
* * * * * *
86381 AGGGTTGGAGTATCCTTGAAGGTGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATC
86446 CCTTCAGAAATAA-
66 CC-TCAGAAATAAC
* * * * *
86459 TGGGTTGGAGTATCC-CTGATGGTAGAAAATTGGTGTTTTAGAAATAAAA
1 GGGGTTGGAGTATCCTC-GATGGTGGAAAATCGATATTTTAGAAATAAAA
86508 ACATCAATGA
Statistics
Matches: 631, Mismatches: 103, Indels: 52
0.80 0.13 0.07
Matches are distributed among these distances:
78 73 0.12
79 483 0.77
80 71 0.11
81 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (78 bp):
GGGGTTGGAGTATCCTCGATGGTGGAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATC
CCTCAGAAATAAC
Found at i:86207 original size:237 final size:236
Alignment explanation
Indices: 85670--86507 Score: 1017
Period size: 237 Copynumber: 3.5 Consensus size: 236
85660 AATTAAAAAT
* * * * **
85670 GGGGTTGAAGTATCCCCGATGGTG-AAAGTCGATATTTT-GAAAATAAAATTAAGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTAG-AAATAAAATCGAGGTTGGAGTAT
* * * * * *
85733 CTCCTCAGAAATAACGGGGTTGGAGTATCCTCAATGGTGGAAAATCAATATTTTATG-AATAAAA
65 CTCCTCAGAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTA-GAAATAAAA
* * * * * * * *
85797 TCGGGGTTGGAGTATCCCTTCGGAAATAATGGGGTTGGAGTATTCCCCGATTGTGAAAATTCGAT
129 TCGGGGTTAGAGTATCCC-TCGGAAATAACGAGATTGGAGT-GTCCCAGATAGTGAAAAATCGAT
* * * * *
85862 ATTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCATAAATAAC
192 ATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTTAAAAATAAC
* * * * *
85907 GGGGTTAGAGTATCCTCGATAGTGAAAAATTAGTGTTTTAGAAATAAAA-CTGAGGTTGGAGTAT
1 GGGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAATC-GAGGTTGGAGTAT
*
85971 CTCCTCAGAAATAATGGGGTTAGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAAT
65 CTCCTCAGAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAAT
** ** *
86036 CGGGGTTAGAGTATCCTCTCAAAAATAACGAGATTGGAGTGTCCCAGAGGGTGAAAAATCGATGT
130 CGGGGTTAGAGTATCC-CTCGGAAATAACGAGATTGGAGTGTCCCAGATAGTGAAAAATCGATAT
*
86101 TTTAGAAATAAAATCGGGGTTTGAGTATCCCCTTAAAAATAAC
194 TTTAGAAATAAAATCGGGGTTAGAGTATCCCCTTAAAAATAAC
* * *
86144 GGGGTTGGAGTATCTTCGATGGTGGAAAATCAATATTTTAGAAGTAAAATCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
*
86209 CCCT-AGAAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAAT
66 TCCTCAG-AAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAAT
* * *
86273 CGGGGTTAGAGTATCCCCTTGGAAATAACGAGATTAGAGTGTCCTAGATAGTGAAAAATCGATAT
130 CGGGGTTAGAGTAT-CCCTCGGAAATAACGAGATTGGAGTGTCCCAGATAGTGAAAAATCGATAT
* * *
86338 TTTAGAAATAAAA-CTAGGGTTAGAGTATCCCTTTAAAAATAAT
194 TTTAGAAATAAAATC-GGGGTTAGAGTATCCCCTTAAAAATAAC
* * * * *
86381 AGGGTTGGAGTATCCTTGAAGGTGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
* * * * *
86446 -CCTTCAGAAATAAT-GGGTTGGAGTATCCCTGATGGTAGAAAATTGGTGTTTTAGAAATAAAA
66 TCC-TCAGAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAA
86508 ACATCAATGA
Statistics
Matches: 520, Mismatches: 70, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
236 48 0.09
237 348 0.67
238 122 0.23
239 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (236 bp):
GGGGTTGGAGTATCCTCGATGGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
TCCTCAGAAATAATGGGGTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTAGAAATAAAATC
GGGGTTAGAGTATCCCTCGGAAATAACGAGATTGGAGTGTCCCAGATAGTGAAAAATCGATATTT
TAGAAATAAAATCGGGGTTAGAGTATCCCCTTAAAAATAAC
Found at i:89937 original size:37 final size:37
Alignment explanation
Indices: 89836--90088 Score: 161
Period size: 37 Copynumber: 6.8 Consensus size: 37
89826 GGTTTCAACG
*
89836 TGCCACCGATTAAGAATAGTAGTTTTTGTTTCGACCCA
1 TGCCACCGA-TAAGAATAGTAGTTTTTGTTTCGATCCA
* * * * *
89874 TTCTACCGATAAAAATAATGGTTTTTGTTTCGATCCA
1 TGCCACCGATAAGAATAGTAGTTTTTGTTTCGATCCA
* * * ** * *
89911 TGCCACTGGTAAGAATAGTAGCTTTTGTCCCAATCCG
1 TGCCACCGATAAGAATAGTAGTTTTTGTTTCGATCCA
* * * *
89948 TGCCACCGATAAGAATAGTGGTTTTT-CTTCGAACCTG
1 TGCCACCGATAAGAATAGTAGTTTTTGTTTCGATCC-A
* * * * * **
89985 TGCCACCAATAAGAATAGTGGTATTTGTTCCAAAT-TG
1 TGCCACCGATAAGAATAGTAGTTTTTGTTTC-GATCCA
** * * * *
90022 TGCCATTGGTAAGAATAGTGGTTTTTG-TTCTAAACCA
1 TGCCACCGATAAGAATAGTAGTTTTTGTTTC-GATCCA
*
90059 TGCCACCGGATTAGAATAGTAGTTTTTGTT
1 TGCCACC-GATAAGAATAGTAGTTTTTGTT
90089 CTAACCTATG
Statistics
Matches: 160, Mismatches: 49, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
36 8 0.05
37 124 0.77
38 26 0.16
39 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (37 bp):
TGCCACCGATAAGAATAGTAGTTTTTGTTTCGATCCA
Found at i:89970 original size:74 final size:72
Alignment explanation
Indices: 89878--90087 Score: 197
Period size: 74 Copynumber: 2.8 Consensus size: 72
89868 GACCCATTCT
* * * * *
89878 ACCGATAAAAATAATGGTTTTTGTTTCGATCCATGCCACTGGTAAGAATAGTAGCTTTTGTCCCA
1 ACCGATAAGAATAGTGGTTTTTG-TTCGAACCATGCCACCGGTAAGAATAGTAGCTTTTGTCCAA
89943 ATCCGTGCC
65 AT-CGTGCC
* * ** *
89952 ACCGATAAGAATAGTGGTTTTTCTTCGAACCTGTGCCACCAATAAGAATAGT-GGTATTTGTTCC
1 ACCGATAAGAATAGTGGTTTTTGTTCGAACC-ATGCCACCGGTAAGAATAGTAGCT-TTTG-TCC
*
90016 AAATTGTGCC
63 AAATCGTGCC
** * * * *
90026 ATTGGTAAGAATAGTGGTTTTTGTTCTAAACCATGCCACCGGATTAGAATAGTAGTTTTTGT
1 ACCGATAAGAATAGTGGTTTTTGTTC-GAACCATGCCACCGG-TAAGAATAGTAGCTTTTGT
90088 TCTAACCTAT
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
73 9 0.08
74 75 0.69
75 23 0.21
76 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (72 bp):
ACCGATAAGAATAGTGGTTTTTGTTCGAACCATGCCACCGGTAAGAATAGTAGCTTTTGTCCAAA
TCGTGCC
Found at i:91552 original size:25 final size:26
Alignment explanation
Indices: 91524--91572 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
91514 GTTTTTTTTT
*
91524 GAAA-AAAGGGTTGGAGTATCCCCTC
1 GAAAGAAAGGATTGGAGTATCCCCTC
*
91549 GAAAGAATGGATTGGAGTATCCCC
1 GAAAGAAAGGATTGGAGTATCCCC
91573 AACAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (26 bp):
GAAAGAAAGGATTGGAGTATCCCCTC
Found at i:93883 original size:20 final size:20
Alignment explanation
Indices: 93858--93909 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
93848 ATTTACCTGC
93858 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
*
93878 ATGTATCGATACATTGTATA
1 ATGTATCGATACATTGAATA
93898 ATGTATCGATAC
1 ATGTATCGATAC
93910 GTCTAGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:94351 original size:20 final size:20
Alignment explanation
Indices: 94306--94377 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
94296 AACCCTTATT
* *
94306 TGTATCAATACACA-TGCAGA
1 TGTATCGATACAAATTGCA-A
* *
94326 TATATCGATACAAGTTGCAA
1 TGTATCGATACAAATTGCAA
*
94346 TGTATCGATACAAATTGTAA
1 TGTATCGATACAAATTGCAA
94366 TGTATCGATACA
1 TGTATCGATACA
94378 TTATAGAAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 40 0.91
21 4 0.09
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAATTGCAA
Found at i:95805 original size:13 final size:13
Alignment explanation
Indices: 95787--95812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95777 CAATTTTTTG
95787 TGTATCGATACAT
1 TGTATCGATACAT
95800 TGTATCGATACAT
1 TGTATCGATACAT
95813 ACTTGTTGTA
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:96550 original size:21 final size:21
Alignment explanation
Indices: 96509--96552 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
96499 CTCTCCTTTA
* *
96509 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
96530 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
96551 TC
1 TC
96553 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:98376 original size:13 final size:13
Alignment explanation
Indices: 98358--98383 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98348 ATAATCACCC
98358 TGTATCGATACAA
1 TGTATCGATACAA
98371 TGTATCGATACAA
1 TGTATCGATACAA
98384 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:100476 original size:15 final size:15
Alignment explanation
Indices: 100456--100486 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100446 ATTTCGTTTG
*
100456 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
100471 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
100486 G
1 G
100487 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:104557 original size:13 final size:13
Alignment explanation
Indices: 104539--104564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104529 CAATTTTTTG
104539 TGTATCGATACAT
1 TGTATCGATACAT
104552 TGTATCGATACAT
1 TGTATCGATACAT
104565 ACTTGTCGTA
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:104648 original size:20 final size:20
Alignment explanation
Indices: 104603--104678 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
104593 CTACCAAGAA
***
104603 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGAATC
104624 ATGTATCGATACATTGCAA-C
1 ATGTATCGATACATTG-AATC
* *
104644 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATC
*
104664 GTGTATCGATACATT
1 ATGTATCGATACATT
104679 TAAGGGTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.04
20 30 0.65
21 14 0.30
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGAATC
Found at i:116632 original size:3 final size:3
Alignment explanation
Indices: 116626--116668 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
116616 TATTGTTGTC
116626 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
116669 GAAGGAACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:117696 original size:55 final size:55
Alignment explanation
Indices: 117626--117738 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
117616 GAAATAAAAG
* *
117626 TTTATCATGTTAAAAAGAAAATATTGCCTTCATTATGAACATAGATCTAATTAAA
1 TTTACCATGTTAAAAAGAAAATATTGCCTGCATTATGAACATAGATCTAATTAAA
*
117681 TTTACCATGTTAAAAAGAAAATATTGCCTGCATTATGAATATAGATCTAATTAAA
1 TTTACCATGTTAAAAAGAAAATATTGCCTGCATTATGAACATAGATCTAATTAAA
117736 TTT
1 TTT
117739 GATGTTTAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (55 bp):
TTTACCATGTTAAAAAGAAAATATTGCCTGCATTATGAACATAGATCTAATTAAA
Found at i:118024 original size:22 final size:21
Alignment explanation
Indices: 117999--118039 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
117989 ATCTCTATCT
*
117999 ATATTATAAATAAATAATTATA
1 ATATTAT-AATAAAAAATTATA
118021 ATATTATAATAAAAAATTA
1 ATATTATAATAAAAAATTA
118040 CAAGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATATTATAATAAAAAATTATA
Found at i:119225 original size:15 final size:15
Alignment explanation
Indices: 119190--119246 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
119180 ACATATGAAA
*
119190 ATTATATTAAT-TGAT
1 ATTAT-TTAATATAAT
119205 ATTATTTAAATATAAT
1 ATTATTT-AATATAAT
119221 A-TA-TTAA-ATAAT
1 ATTATTTAATATAAT
119233 ATTATTTAATATAA
1 ATTATTTAATATAA
119247 ATCAAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
14 8 0.22
15 14 0.39
16 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTATTTAATATAAT
Found at i:119234 original size:28 final size:26
Alignment explanation
Indices: 119192--119261 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 26
119182 ATATGAAAAT
* *
119192 TATATTAATTGATATTATTTAAATATAA
1 TATATTAAATAATATTATTT-AATAT-A
119220 TATATTAAATAATATTATTTAATATA
1 TATATTAAATAATATTATTTAATATA
*
119246 -A-ATCAAATAATATTAT
1 TATATTAAATAATATTAT
119262 AATATCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 14 0.36
25 1 0.03
26 1 0.03
27 5 0.13
28 18 0.46
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
TATATTAAATAATATTATTTAATATA
Found at i:119256 original size:24 final size:28
Alignment explanation
Indices: 119203--119261 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 28
119193 ATATTAATTG
*
119203 ATATTATTTAAATATAATATATTAAATA
1 ATATTATTTAAATATAATATATCAAATA
119231 ATATTATTT-AATAT-A-A-ATCAAATA
1 ATATTATTTAAATATAATATATCAAATA
119255 ATATTAT
1 ATATTAT
119262 AATATCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 14 0.47
25 1 0.03
26 1 0.03
27 5 0.17
28 9 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATTATTTAAATATAATATATCAAATA
Done.