Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold585
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: 63318
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Found at i:375 original size:27 final size:27
Alignment explanation
Indices: 328--385 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
318 TAAAAGAACT
* * **
328 TTTACTAAAATTAATACAATAATTAAA
1 TTTAATAAAATTAATAAAATAAAAAAA
355 TTTAATAAAATTTAA-AAAATAAAAAAA
1 TTTAATAAAA-TTAATAAAATAAAAAAA
382 TTTA
1 TTTA
386 TCAGCCATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (27 bp):
TTTAATAAAATTAATAAAATAAAAAAA
Found at i:1761 original size:20 final size:19
Alignment explanation
Indices: 1722--1761 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
1712 ATGTTTTGTG
**
1722 TCATAATATATTTATTATA
1 TCATAATATATTTAAAATA
1741 TCATAATTATATTTAAAATA
1 TCATAA-TATATTTAAAATA
1761 T
1 T
1762 TTAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
TCATAATATATTTAAAATA
Found at i:1805 original size:18 final size:17
Alignment explanation
Indices: 1784--1839 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
1774 TCAATTTTAA
1784 TATATTAATTATTTATAT
1 TATA-TAATTATTTATAT
*
1802 TATATAAAT-TTTA-AT
1 TATATAATTATTTATAT
* *
1817 TATATAATCATATCATAT
1 TATATAATTAT-TTATAT
1835 TATAT
1 TATAT
1840 TTAATGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 6 0.19
18 11 0.35
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATAATTATTTATAT
Found at i:1812 original size:15 final size:15
Alignment explanation
Indices: 1776--1823 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1766 TATTTACATC
1776 AATTTTAA-TATATTA
1 AATTTTAATTATA-TA
*
1791 ATTATTTATATTATATA
1 AAT-TTTA-ATTATATA
1808 AATTTTAATTATATA
1 AATTTTAATTATATA
1823 A
1 A
1824 TCATATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 11 0.39
16 8 0.29
17 5 0.18
18 4 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTTTAATTATATA
Found at i:1821 original size:33 final size:33
Alignment explanation
Indices: 1744--1839 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 33
1734 TATTATATCA
* * *
1744 TAATTATATTTAAAATATTTAATATTTACATCAATTT
1 TAATTATA-TT-AATTATTT-ATA-TTATATAAATTT
1781 TAA-TATATTAATTATTTATATTATATAAATTT
1 TAATTATATTAATTATTTATATTATATAAATTT
* *
1813 TAATTATA-TAATCATATCATATTATAT
1 TAATTATATTAATTAT-TTATATTATAT
1840 TTAATGACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
32 19 0.37
33 17 0.33
34 7 0.13
35 2 0.04
36 4 0.08
37 3 0.06
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (33 bp):
TAATTATATTAATTATTTATATTATATAAATTT
Found at i:1955 original size:4 final size:4
Alignment explanation
Indices: 1946--1970 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1936 TGGAGAGTTC
1946 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
1971 CATTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2183 original size:10 final size:11
Alignment explanation
Indices: 2164--2206 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
2154 AATTTCTCAA
2164 TTTTATAAATT
1 TTTTATAAATT
2175 TTTTA-AAATTT
1 TTTTATAAA-TT
*
2186 TTTTATATATT
1 TTTTATAAATT
2197 TTTTA-AAATT
1 TTTTATAAATT
2207 ATGACACATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 7 0.25
11 19 0.68
12 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTTATAAATT
Found at i:2189 original size:22 final size:22
Alignment explanation
Indices: 2164--2206 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2154 AATTTCTCAA
2164 TTTTATAAATTTTTTAAAATTT
1 TTTTATAAATTTTTTAAAATTT
*
2186 TTTTATATATTTTTTAAAATT
1 TTTTATAAATTTTTTAAAATT
2207 ATGACACATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATAAATTTTTTAAAATTT
Found at i:7173 original size:34 final size:34
Alignment explanation
Indices: 7134--7285 Score: 205
Period size: 34 Copynumber: 4.5 Consensus size: 34
7124 TATCTTTTAG
*
7134 CCATTTAGTCAACAATGGCAAATCACCAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* *
7168 CCATTTAATCAACAATAGCAAACCACCAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* * *
7202 CCATTTAATCAACAATGGCAAACTACCAAATCAT
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* * * *
7236 CCATTTAGTCAATAATGGTAAACCATCAAATCAT
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
*
7270 CTATTTAGTCAACAAT
1 CCATTTAGTCAACAAT
7286 AACTGGTGCT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 105 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (34 bp):
CCATTTAGTCAACAATGGCAAACCACCAAATCAC
Found at i:7479 original size:21 final size:21
Alignment explanation
Indices: 7455--7500 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7445 AATTAAAAAA
* *
7455 TTAAATTAATTAAATTAATAT
1 TTAAAATAATTAAAGTAATAT
*
7476 TTAAAATATTTAAAGTAATAT
1 TTAAAATAATTAAAGTAATAT
7497 TTAA
1 TTAA
7501 TAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAAATAATTAAAGTAATAT
Found at i:7983 original size:17 final size:17
Alignment explanation
Indices: 7954--7998 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7944 TAATTAAATT
**
7954 TAATTTAAAATAATTTTA
1 TAATTT-AAATAATAATA
*
7972 TTATTTAAATAATAATA
1 TAATTTAAATAATAATA
7989 TAATTTAAAT
1 TAATTTAAAT
7999 TAAAAATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTTAAATAATAATA
Found at i:8005 original size:24 final size:24
Alignment explanation
Indices: 7978--8025 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
7968 TTTATTATTT
7978 AAATAATAATATAATTTAAATTAA
1 AAATAATAATATAATTTAAATTAA
* * * *
8002 AAATTATATTTTAATTTAATTTAA
1 AAATAATAATATAATTTAAATTAA
8026 TATAAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATAATAATATAATTTAAATTAA
Found at i:8837 original size:2 final size:2
Alignment explanation
Indices: 8830--8858 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8820 AATGGTGGTT
8830 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8859 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13254 original size:20 final size:20
Alignment explanation
Indices: 13229--13299 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
13219 TACCCAGATG
* *
13229 TATCGATACTTTTTTCAATA
1 TATCGATACATTCTTCAATA
* *** * *
13249 TATCGATGCATAGATGAATG
1 TATCGATACATTCTTCAATA
13269 TATCGATACATTCTTCAATA
1 TATCGATACATTCTTCAATA
13289 TATCGATACAT
1 TATCGATACAT
13300 CTAATTAAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCTTCAATA
Found at i:21521 original size:25 final size:29
Alignment explanation
Indices: 21493--21558 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 29
21483 ATCATTATAT
21493 AAATATTATATAA-ATAAA-AT-AA-TTA
1 AAATATTATATAATATAAATATAAATTTA
*
21518 AAATATAATATAATATAAATATAAATTTTA
1 AAATATTATATAATATAAATATAAA-TTTA
21548 AAAT-TTATATA
1 AAATATTATATA
21559 GTACGAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 12 0.35
26 5 0.15
27 2 0.06
28 2 0.06
29 6 0.18
30 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATTATATAATATAAATATAAATTTA
Found at i:21525 original size:16 final size:16
Alignment explanation
Indices: 21488--21542 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
21478 TAAACATCAT
*
21488 TATATAAATATTATATAA
1 TATA-AAATAATATA-AA
21506 -ATAAAATAAT-TAAAA
1 TATAAAATAATAT-AAA
*
21521 TATAATATAATATAAA
1 TATAAAATAATATAAA
21537 TATAAA
1 TATAAA
21543 TTTTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 3 0.10
16 24 0.77
17 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATAAAATAATATAAA
Found at i:21534 original size:30 final size:31
Alignment explanation
Indices: 21489--21551 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
21479 AAACATCATT
*
21489 ATATAAATATTATATAAATA-AAATAATTAAA
1 ATATAAATATAATATAAATATAAAT-ATTAAA
*
21520 ATAT-AATATAATATAAATATAAATTTTAAA
1 ATATAAATATAATATAAATATAAATATTAAA
21550 AT
1 AT
21552 TTATATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATAAATATAATATAAATATAAATATTAAA
Found at i:21538 original size:11 final size:11
Alignment explanation
Indices: 21489--21541 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
21479 AAACATCATT
*
21489 ATATAAATATT
1 ATATAAATATA
21500 ATATAAATA-A
1 ATATAAATATA
* *
21510 A-ATAATTAAA
1 ATATAAATATA
21520 ATAT-AATATA
1 ATATAAATATA
21530 ATATAAATATA
1 ATATAAATATA
21541 A
1 A
21542 ATTTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.17
10 11 0.31
11 18 0.51
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAATATA
Found at i:21656 original size:36 final size:36
Alignment explanation
Indices: 21616--21685 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
21606 AAATATAATT
21616 ATGACATAATAAAATATATAAATA-TAATATAAATAC
1 ATGAC-TAATAAAATATATAAATATTAATATAAATAC
* * * *
21652 ATGACTTATTAAATATCTAAATATTAATTTAAAT
1 ATGACTAATAAAATATATAAATATTAATATAAAT
21686 GAAATACATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (36 bp):
ATGACTAATAAAATATATAAATATTAATATAAATAC
Found at i:21717 original size:3 final size:3
Alignment explanation
Indices: 21709--21743 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
21699 AATTCTTGAG
21709 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21744 ATTTAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23969 original size:16 final size:16
Alignment explanation
Indices: 23950--24017 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
23940 TTTTTTTCGG
23950 GTTCAAGCCTTTTCAA
1 GTTCAAGCCTTTTCAA
* **
23966 GTTCAAGTCTTTTCGG
1 GTTCAAGCCTTTTCAA
***
23982 GTTTGGGCCTTTTCAA
1 GTTCAAGCCTTTTCAA
* * *
23998 GTTCAGGCTTTTTCGA
1 GTTCAAGCCTTTTCAA
24014 GTTC
1 GTTC
24018 CAGTTAGTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.43
Consensus pattern (16 bp):
GTTCAAGCCTTTTCAA
Found at i:24011 original size:32 final size:31
Alignment explanation
Indices: 23942--24017 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
23932 AAGTTTAGTT
23942 TTTTTCGGGTTCAAGCCTTTTCAAGTTCAAG
1 TTTTTCGGGTTCAAGCCTTTTCAAGTTCAAG
*** *
23973 TCTTTTCGGGTTTGGGCCTTTTCAAGTTCAGG
1 T-TTTTCGGGTTCAAGCCTTTTCAAGTTCAAG
*
24005 CTTTTTCGAGTTC
1 -TTTTTCGGGTTC
24018 CAGTTAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 35 0.95
33 1 0.03
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (31 bp):
TTTTTCGGGTTCAAGCCTTTTCAAGTTCAAG
Found at i:24392 original size:18 final size:18
Alignment explanation
Indices: 24358--24391 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24348 TTACTTGTAT
*
24358 TTGTATTATATAATTTTG
1 TTGTATTATAAAATTTTG
24376 TTGTATT-TAAAATTTT
1 TTGTATTATAAAATTTT
24392 TAATTGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (18 bp):
TTGTATTATAAAATTTTG
Found at i:25192 original size:22 final size:22
Alignment explanation
Indices: 25140--25182 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
25130 AAAGTTCATT
25140 ATATAATTTACTTTTTGATAAG
1 ATATAATTTACTTTTTGATAAG
25162 ATATAATTTACTTTTTGATAA
1 ATATAATTTACTTTTTGATAA
25183 ATTACTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
ATATAATTTACTTTTTGATAAG
Found at i:25439 original size:32 final size:32
Alignment explanation
Indices: 25377--25496 Score: 84
Period size: 32 Copynumber: 3.8 Consensus size: 32
25367 AGTTCTCTTG
*
25377 GGTTCGAGTTTTTTCGAGTTTGGGTCCTTTCA
1 GGTTCGAGTTTTTTCGAGTTTGAGTCCTTTCA
* * * *
25409 GGTTCGA-TTTCTTTCGGGTTTGATTTCTTTCG
1 GGTTCGAGTTT-TTTCGAGTTTGAGTCCTTTCA
* * *
25441 GGTTTGAGCTATTTT-GAGTTT-AGACCATTTCA
1 GGTTCGAG-TTTTTTCGAGTTTGAGTCC-TTTCA
* * * *
25473 GGCTCGAGCTATTTCGGGTTTGAG
1 GGTTCGAGTTTTTTCGAGTTTGAG
25497 CTATTTCGGG
Statistics
Matches: 64, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
31 8 0.12
32 49 0.77
33 5 0.08
34 2 0.03
ACGTcount: A:0.12, C:0.15, G:0.28, T:0.45
Consensus pattern (32 bp):
GGTTCGAGTTTTTTCGAGTTTGAGTCCTTTCA
Found at i:25454 original size:20 final size:16
Alignment explanation
Indices: 25403--25447 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
25393 AGTTTGGGTC
* *
25403 CTTTCAGGTTCGATTT
1 CTTTCGGGTTTGATTT
25419 CTTTCGGGTTTGATTT
1 CTTTCGGGTTTGATTT
25435 CTTTCGGGTTTGA
1 CTTTCGGGTTTGA
25448 GCTATTTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (16 bp):
CTTTCGGGTTTGATTT
Found at i:25504 original size:16 final size:16
Alignment explanation
Indices: 25420--25510 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 16
25410 GTTCGATTTC
** *
25420 TTTCGGGTTTGATTTC
1 TTTCGGGTTTGAGCTA
25436 TTTCGGGTTTGAGCTA
1 TTTCGGGTTTGAGCTA
* * *
25452 TTTTGAGTTT-AGACCA
1 TTTCGGGTTTGAG-CTA
* * *
25468 TTTCAGGCTCGAGCTA
1 TTTCGGGTTTGAGCTA
25484 TTTCGGGTTTGAGCTA
1 TTTCGGGTTTGAGCTA
25500 TTTCGGGTTTG
1 TTTCGGGTTTG
25511 GATTTTTCGA
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
15 2 0.03
16 54 0.93
17 2 0.03
ACGTcount: A:0.13, C:0.14, G:0.27, T:0.45
Consensus pattern (16 bp):
TTTCGGGTTTGAGCTA
Found at i:25551 original size:21 final size:21
Alignment explanation
Indices: 25505--25551 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25495 AGCTATTTCG
25505 GGTTTGGATTTTTCGAGTTCA
1 GGTTTGGATTTTTCGAGTTCA
* * *
25526 AGTTTGGGTTTTTCGAGTTTA
1 GGTTTGGATTTTTCGAGTTCA
25547 GGTTT
1 GGTTT
25552 TTGATCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.06, G:0.30, T:0.51
Consensus pattern (21 bp):
GGTTTGGATTTTTCGAGTTCA
Found at i:26382 original size:38 final size:39
Alignment explanation
Indices: 26340--26441 Score: 143
Period size: 38 Copynumber: 2.6 Consensus size: 39
26330 GCCTTTAGGA
*
26340 TCATTTTAGCAATTTCATGTCAAAACCAAG-CCTCAGGG
1 TCATTTTAGCAATTTCATGTCAAAACCAAGTCCTCAAGG
* * * *
26378 TCATTTTAGTAATTTCAAGTCAAAACCAAGTCTTTAAGG
1 TCATTTTAGCAATTTCATGTCAAAACCAAGTCCTCAAGG
*
26417 TCATTTTAGCATTTTCATGTCAAAA
1 TCATTTTAGCAATTTCATGTCAAAA
26442 TCAAACTATT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 28 0.51
39 27 0.49
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (39 bp):
TCATTTTAGCAATTTCATGTCAAAACCAAGTCCTCAAGG
Found at i:26433 original size:39 final size:38
Alignment explanation
Indices: 26332--26500 Score: 142
Period size: 39 Copynumber: 4.4 Consensus size: 38
26322 GATTGAGAGC
*
26332 CTTT-AGGATCATTTTAGCAATTTCATGTCAAAACCAAG
1 CTTTAAGG-TCATTTTAGCAATTTCAAGTCAAAACCAAG
* * * *
26370 CCTCAGGGTCATTTTAGTAATTTCAAGTCAAAACCAAG
1 CTTTAAGGTCATTTTAGCAATTTCAAGTCAAAACCAAG
* * * *
26408 TCTTTAAGGTCATTTTAGCATTTTCATGTCAAAATCAAA
1 -CTTTAAGGTCATTTTAGCAATTTCAAGTCAAAACCAAG
* ** * ** **
26447 CTATTAGGGTTGTTTTATCACCTTCAAGTCAAAACCGGG
1 CT-TTAAGGTCATTTTAGCAATTTCAAGTCAAAACCAAG
26486 CCTTTAAGGTCATTT
1 -CTTTAAGGTCATTT
26501 CATTAATTTC
Statistics
Matches: 100, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
38 32 0.32
39 66 0.66
40 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (38 bp):
CTTTAAGGTCATTTTAGCAATTTCAAGTCAAAACCAAG
Found at i:26491 original size:78 final size:77
Alignment explanation
Indices: 26329--26500 Score: 195
Period size: 78 Copynumber: 2.2 Consensus size: 77
26319 TTGGATTGAG
* * *
26329 AGCCTTT-AGGATCATTTTAGCAATTTCATGTCAAAACCAAGCCTCAGGGTCATTTTAGTAATTT
1 AGCCTTTAAGG-TCATTTTAGCAATTTCATGTCAAAACCAAACATCAGGGTCATTTTAGTAACTT
26393 CAAGTCAAAACCA
65 CAAGTCAAAACCA
* * * * ** *
26406 AGTCTTTAAGGTCATTTTAGCATTTTCATGTCAAAATCAAACTATTAGGGTTGTTTTA-TCACCT
1 AGCCTTTAAGGTCATTTTAGCAATTTCATGTCAAAACCAAAC-ATCAGGGTCATTTTAGT-AACT
*
26470 TCAAGTCAAAACCG
64 TCAAGTCAAAACCA
*
26484 GGCCTTTAAGGTCATTT
1 AGCCTTTAAGGTCATTT
26501 CATTAATTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
77 35 0.44
78 44 0.56
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (77 bp):
AGCCTTTAAGGTCATTTTAGCAATTTCATGTCAAAACCAAACATCAGGGTCATTTTAGTAACTTC
AAGTCAAAACCA
Found at i:26607 original size:39 final size:39
Alignment explanation
Indices: 26550--26663 Score: 104
Period size: 39 Copynumber: 2.9 Consensus size: 39
26540 GCACATTTAT
* * * * * *
26550 GTCAAAACCAAGCTTTTAGGGTTATTTTAATATTTTTAA
1 GTCAAAATCGAGCCTTTAGGATTATTTTAGTATTTTCAA
* * * *
26589 GTC-AAATCTGAGCCTTTAGGTTTATTATAGTACTTTCAT
1 GTCAAAATC-GAGCCTTTAGGATTATTTTAGTATTTTCAA
* *
26628 GTCAAAATCGAGCTTTTAAGATTATTTTAGTATTTT
1 GTCAAAATCGAGCCTTTAGGATTATTTTAGTATTTT
26664 GAGTTAAACC
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 4 0.07
39 50 0.85
40 5 0.08
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (39 bp):
GTCAAAATCGAGCCTTTAGGATTATTTTAGTATTTTCAA
Found at i:27562 original size:61 final size:61
Alignment explanation
Indices: 27460--27580 Score: 179
Period size: 61 Copynumber: 2.0 Consensus size: 61
27450 TGTAAGGGTA
* * *
27460 CTCATTCTTTCCATATGTAATTGACTTTCAAACCCAATTTTTTTTTAGTTTATAAGCAGTG
1 CTCATTCTTTCCATACGTAATTGACTCTCAAACCCTATTTTTTTTTAGTTTATAAGCAGTG
* *
27521 CTCATTCTTTCCATACGTAATTGACTCTCAAACCTCTTTTTTTTTTTTATTTTATAAGCA
1 CTCATTCTTTCCATACGTAATTGACTCTCAAACC-C-TATTTTTTTTTAGTTTATAAGCA
27581 AACTTTGGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
61 32 0.60
62 1 0.02
63 20 0.38
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.48
Consensus pattern (61 bp):
CTCATTCTTTCCATACGTAATTGACTCTCAAACCCTATTTTTTTTTAGTTTATAAGCAGTG
Found at i:30260 original size:89 final size:88
Alignment explanation
Indices: 30130--30366 Score: 273
Period size: 89 Copynumber: 2.7 Consensus size: 88
30120 ATTTTTCATA
* * * *
30130 AAGAATAGAGTTGGAGAATCCTCTCGGAATAGT-GAGGATGGAGTTTCCTCAAAGATAAAACTAT
1 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGA-GATGGAGTTTCCTCAAGGATAAAACTAT
**
30194 A-GAAAGGTAAATTTGAAATTTATGG
65 ATGAAA-AAAAATTT-AAATTTATGG
* * *
30219 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGATATGGAGTTTCCTCAAGGATAAAATTGTA
1 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAACTATA
*
30284 TGAAAAAAAATTTAAATTTATGT
66 TGAAAAAAAATTTAAATTTATGG
* * * * * *
30307 TAGAA-CGGGATTTGAGTATCCTCTAGGAATAGTGGGGATGGAGTTTCCCCAAGGATAAAA
1 AAGAATAGGG-TTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAA
30367 TTGTACAACG
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
87 3 0.02
88 58 0.45
89 61 0.48
90 6 0.05
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (88 bp):
AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAACTATA
TGAAAAAAAATTTAAATTTATGG
Found at i:30341 original size:88 final size:89
Alignment explanation
Indices: 30130--30386 Score: 288
Period size: 88 Copynumber: 2.9 Consensus size: 89
30120 ATTTTTCATA
* * * * * *
30130 AAGAATAGAGTTGGAGAATCCTCTCGGAATAGT-GAGGATGGAGTTTCCTCAAAGATAAAACTAT
1 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGA-GATGGAGTTTCCTCAAGGATAAAATTGT
**
30194 AGAAAGGTAAATTTGAAATTTATGG
65 AGAAAGAAAAATTTGAAATTTATGG
*
30219 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGATATGGAGTTTCCTCAAGGATAAAATTGTA
1 AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAATTGTA
*
30284 TGAAA-AAAAATTT-AAATTTATGT
66 -GAAAGAAAAATTTGAAATTTATGG
* * * * * *
30307 TAGAA-CGGGATTTGAGTATCCTCTAGGAATAGTGGGGATGGAGTTTCCCCAAGGATAAAATTGT
1 AAGAATAGGG-TTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAATTGT
* * *
30371 ACAACGAGAAATTTGA
65 AGAAAGAAAAATTTGA
30387 TTTTTTTTTA
Statistics
Matches: 143, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
87 5 0.03
88 70 0.49
89 62 0.43
90 6 0.04
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (89 bp):
AAGAATAGGGTTAGAGTATCCTCTCGGAATAGTGGAGATGGAGTTTCCTCAAGGATAAAATTGTA
GAAAGAAAAATTTGAAATTTATGG
Found at i:32931 original size:21 final size:20
Alignment explanation
Indices: 32885--32934 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
32875 TTTTCTTTCA
*
32885 GTATCGATACTTTGAAGTAG
1 GTATCGATACTTTCAAGTAG
* *
32905 GTATCGATACTTTCTAGATAT
1 GTATCGATACTTTCAAG-TAG
32926 GTATCGATA
1 GTATCGATA
32935 TATTAACTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (20 bp):
GTATCGATACTTTCAAGTAG
Found at i:33491 original size:32 final size:32
Alignment explanation
Indices: 33450--33529 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
33440 AAAAATAGTA
* *
33450 AATGTATCGATACAAAAGTGTTGTCTCGATAT
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
*
33482 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACAAAAGTGTTGTATCGATAC
33514 AATGTATC-ACTACAAA
1 AATGTATCGA-TACAAA
33530 GCTACTGCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 1 0.02
32 42 0.98
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACAAAAGTGTTGTATCGATAC
Found at i:33508 original size:19 final size:19
Alignment explanation
Indices: 33452--33514 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
33442 AAATAGTAAA
*
33452 TGTATCGATACAAAAGTGT
1 TGTATCGATACATAAGTGT
*
33471 TGTCTCGAT--ATAA----
1 TGTATCGATACATAAGTGT
33484 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
33503 TGTATCGATACA
1 TGTATCGATACA
33515 ATGTATCACT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 8 0.23
15 4 0.11
17 3 0.09
19 20 0.57
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:33569 original size:20 final size:20
Alignment explanation
Indices: 33544--33618 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
33534 CTGCCAAGGA
*
33544 AATGTATCGATGCATTATTC
1 AATGTATCGATACATTATTC
33564 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
*
33584 AATGTATCGATACATCATTC
1 AATGTATCGATACATTATTC
33604 AATGTATCGATACAT
1 AATGTATCGATACAT
33619 GTAGGCAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:41785 original size:31 final size:31
Alignment explanation
Indices: 41742--41949 Score: 260
Period size: 31 Copynumber: 6.7 Consensus size: 31
41732 ATCTCTCTTC
*
41742 TCAAAGTCCATGACTCAGTGGCATCTTTTCTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTC-T
* * *
41774 TC-AAGTTCATGACTCAGTGGCATCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
41804 TCCCAAAGTCCACGACTCAGTGGCATCTCTTCT
1 T--CAAAGTCCACGACTCAGTGGCATCTTTTCT
*
41837 TCAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
41868 TCAAAGTCCACGACTCAGTGGCATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
41899 -CAAAGTCCACGACTTAGTGGCATCTTCTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
41929 TCAAAGCCCACAACTCCGTGG
1 TCAAAGTCCACGACTCAGTGG
41950 TACCTTTTTC
Statistics
Matches: 155, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
29 3 0.02
30 26 0.17
31 94 0.61
32 7 0.05
33 25 0.16
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:41857 original size:64 final size:62
Alignment explanation
Indices: 41742--41949 Score: 276
Period size: 64 Copynumber: 3.3 Consensus size: 62
41732 ATCTCTCTTC
* * * * * *
41742 TCAAAGTCCATGACTCAGTGGCATCTTTTCTTTC-AAGTTCATGACTCAGTGGCATCTTTTTT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTC-TTCAAAGTCCACGACTTAGTGGCATCTTTTCT
41804 TCCCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCT
1 T--CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCT
* *
41868 TCAAAGTCCACGACTCAGTGGCATCTCTT-TCCAAAGTCCACGACTTAGTGGCATCTTCTCT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCT
* * *
41929 TCAAAGCCCACAACTCCGTGG
1 TCAAAGTCCACGACTCAGTGG
41950 TACCTTTTTC
Statistics
Matches: 132, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
61 48 0.36
62 29 0.22
63 3 0.02
64 52 0.39
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (62 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCT
Found at i:41928 original size:95 final size:93
Alignment explanation
Indices: 41735--41949 Score: 276
Period size: 95 Copynumber: 2.3 Consensus size: 93
41725 TCTTCAAATC
* * *
41735 TCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTTTCTTTCAAGTTCATGACTCAGTGGCATCTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTTCAAGTCCACGACTCAGTGGCATC-T
*
41800 TTTTTCCCAAAGTCCACGACTCAGTGGCA
65 TCTTTCCCAAAGTCCACGACTCAGTGGCA
*
41829 TCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTC-TTCAAAGTCCACGACTCAGTGGCATC
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTTC-AAGTCCACGACTCAGTGGCATC
*
41893 -TCTTT-CCAAAGTCCACGACTTAGTGGCA
64 TTCTTTCCCAAAGTCCACGACTCAGTGGCA
* * *
41921 TCT-TCTCTTCAAAGCCCACAACTCCGTGG
1 TCTCT-TC-TCAAAGTCCACGACTCAGTGG
41950 TACCTTTTTC
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
91 1 0.01
92 45 0.42
93 4 0.04
94 10 0.09
95 48 0.44
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (93 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTTCAAGTCCACGACTCAGTGGCATCTT
CTTTCCCAAAGTCCACGACTCAGTGGCA
Found at i:41957 original size:92 final size:94
Alignment explanation
Indices: 41735--42256 Score: 260
Period size: 92 Copynumber: 5.4 Consensus size: 94
41725 TCTTCAAATC
* ** * * *
41735 TCTCTTC-TCAAAGTCCATGACTCAGTGGCATCTTTTCTTTCAAGTTCATGACTCAGTGGCATCT
1 TCTCTTCTTCAAAGCCCACAACTCAGTGGCACCTTTTCTTTCAAGTCCACGACTCAGTGGCATC-
*
41799 TTTTTTCCCAAAGTCCACGACTCAGTGGCA
65 TTCTTTCCCAAAGTCCACGACTCAGTGGCA
* * * *
41829 TCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTC-TTCAAAGTCCACGACTCAGTGGCATC
1 TCTCTTCTTCAAAGCCCACAACTCAGTGGCACCTTTTCTTTC-AAGTCCACGACTCAGTGGCATC
*
41893 -TCTTT-CCAAAGTCCACGACTTAGTGGCA
65 TTCTTTCCCAAAGTCCACGACTCAGTGGCA
* * *
41921 TCT-TCTCTTCAAAGCCCACAACTCCGTGGTACCTTTTTCTTTTCAAAGCCTTCCACGACTCCGT
1 TCTCT-TCTTCAAAGCCCACAACTCAGTGGCACC-TTTTC-TTTC-AAG---TCCACGACTCAGT
* ** * * *
41985 GGCACCATT-TTTCCTTTTAAGCCCACAACTCCGTGGCA
59 GGCATC-TTCTTTCC--CAAAGTCCACGACTCAGTGGCA
* ** * * * * *
42023 CTCTTTTCCCTTTTAAGTCCACAACTCCA-TGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTG
1 -TCTCTT--CTTCAAAGCCCACAACT-CAGTGGCA-CCTTTT-CTTTCAAGTCCACGACTCAGTG
* * * *
42087 GCA-C-CCTTT---GAAGTCCACAACTCCGTGGCA
60 GCATCTTCTTTCCCAAAGTCCACGACTCAGTGGCA
* * ** * * * *
42117 CCTAGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACGACTCCGTGGCA
1 TCT-CTT-CTTCAAAGCCCACAACTCAGTGGCACCTTTTC-TTTCAAGTCCACGACTCAGTGGCA
* * * * *
42182 CCTT-TTACCCTTTTAAGTCCACAACTCCGTGGCA
63 TCTTCTTTCCC---AAAGTCCACGACTCAGTGGCA
* ** *
42216 TCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCACCCTTTTC
1 TC--TCTTCTTCAAAGCCCACAACTCAGTGGCA-CCTTTTC
42257 AAAAGCCCAC
Statistics
Matches: 347, Mismatches: 45, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
91 2 0.01
92 76 0.22
93 37 0.11
94 31 0.09
95 55 0.16
98 17 0.05
99 49 0.14
100 11 0.03
101 17 0.05
102 16 0.05
103 4 0.01
104 4 0.01
105 25 0.07
106 3 0.01
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (94 bp):
TCTCTTCTTCAAAGCCCACAACTCAGTGGCACCTTTTCTTTCAAGTCCACGACTCAGTGGCATCT
TCTTTCCCAAAGTCCACGACTCAGTGGCA
Found at i:42021 original size:34 final size:33
Alignment explanation
Indices: 41936--42256 Score: 352
Period size: 33 Copynumber: 9.7 Consensus size: 33
41926 TCTTCAAAGC
*
41936 CCACAACTCCGTGGTACCTTTTT-CTTTTCAAAGCCTT
1 CCACAACTCCGTGGCACCTTTTTCCTTTT--AAG---T
* *
41973 CCACGACTCCGTGGCACCATTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACC-TTTTTCCTTTTAAGT
*
42007 CCACAACTCCGTGGCACTCTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGT
* *
42041 CCACAACTCCATGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
42074 CCACAACTCCGTGGCA-C-----CCTTTGAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
**
42101 CCACAACTCCGTGGCACCTAGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
42134 CCACAACTCCGTGGCACC-TTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
* *
42166 CCACGACTCCGTGGCACCTTTTACCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTT-TCCTTTTAAGT
* * *
42200 CCACAACTCCGTGGCATCTTTCTCCTTTTAAGC
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
* * *
42233 CCACAAGTCAGTGGCACCCTTTTC
1 CCACAACTCCGTGGCACCTTTTTC
42257 AAAAGCCCAC
Statistics
Matches: 245, Mismatches: 28, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
27 25 0.10
28 1 0.00
32 29 0.12
33 88 0.36
34 72 0.29
35 1 0.00
37 19 0.08
38 5 0.02
39 5 0.02
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.33
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
Found at i:42104 original size:60 final size:60
Alignment explanation
Indices: 42030--42215 Score: 255
Period size: 60 Copynumber: 3.0 Consensus size: 60
42020 GCACTCTTTT
* *
42030 CCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* **
42090 CCCTTTGAAGTCCACAACTCCGTGGCACCTAGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* *
42150 CCTTTTCTTTTTAAGTCCACGACTCCGTGGCACCTTTTACCCTTTTAAGTCCACAACTCCGTGGC
1 CC----C-TTTTAAGTCCACAACTCCGTGGCACCTTTT-TCCTTTTAAGTCCACAACTCCGTGGC
42215 A
60 A
42216 TCTTTCTCCT
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
60 57 0.52
64 1 0.01
65 26 0.24
66 26 0.24
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (60 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:42149 original size:93 final size:93
Alignment explanation
Indices: 41997--42183 Score: 279
Period size: 92 Copynumber: 2.0 Consensus size: 93
41987 CACCATTTTT
* * *
41997 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTT
1 CCTTTGAAGCCCACAACTCCGTGGCACTCTGTTCCCTTTTAAGTCCACAACTCCATGGCA-CCTT
42062 TTCCTTTTAAGTCCACAACTCCGTGGCAC
65 TTCCTTTTAAGTCCACAACTCCGTGGCAC
* *
42091 CCTTTGAAGTCCACAACTCCGTGGCAC-CTAGTT-CCTTTTAAGTCCACAACTCCGTGGCACCTT
1 CCTTTGAAGCCCACAACTCCGTGGCACTCT-GTTCCCTTTTAAGTCCACAACTCCATGGCACCTT
* *
42154 TTCTTTTTAAGTCCACGACTCCGTGGCAC
65 TTCCTTTTAAGTCCACAACTCCGTGGCAC
42183 C
1 C
42184 TTTTACCCTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
92 31 0.36
93 27 0.32
94 27 0.32
ACGTcount: A:0.20, C:0.35, G:0.14, T:0.32
Consensus pattern (93 bp):
CCTTTGAAGCCCACAACTCCGTGGCACTCTGTTCCCTTTTAAGTCCACAACTCCATGGCACCTTT
TCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:42295 original size:28 final size:29
Alignment explanation
Indices: 42229--42324 Score: 115
Period size: 30 Copynumber: 3.3 Consensus size: 29
42219 TTCTCCTTTT
*
42229 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
42259 AAGCCCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
* ** *
42287 AAGCACACAAGTTGGT-ACAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGCAA-CCTTTCAA
42316 AAGCCCACA
1 AAGCCCACA
42325 CAAGTTGGTG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.05
28 20 0.34
29 13 0.22
30 22 0.38
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:42449 original size:39 final size:39
Alignment explanation
Indices: 42395--42907 Score: 265
Period size: 39 Copynumber: 12.0 Consensus size: 39
42385 CCTTTGTCTT
* *
42395 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
42434 TAAGACCAATATCGCTGG-CTTCGAATAAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTT-GAATCAGCACATTGGCA
* * * *
42473 CCTTGTCTCCAAGACCAATGTCGTTGGCCTTGAGTCAACACATTGGCA
1 -------T--AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
42521 CAAGACCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTG---GC--A
* *
42565 TCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAGTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
42608 TAAGCCCAATATCACTGGCCTTGAAACAACATATTGGCACCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG---CA
* * *
42650 TCTTTAAGACCAATGTCGTTAGCCTTGAATCAGCACATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
42693 CAAG-CCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCACCA
1 TAAGACC-AATATCGCTGGCCTTGAATCAGCACATTGG------CA
* *
42738 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
42781 CAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCACCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGG------CA
* *
42826 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 ----TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * ** *
42869 CAAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
42908 CCACCATCAT
Statistics
Matches: 362, Mismatches: 63, Indels: 98
0.69 0.12 0.19
Matches are distributed among these distances:
38 5 0.01
39 185 0.51
42 3 0.01
43 7 0.02
44 1 0.00
45 5 0.01
46 30 0.08
48 60 0.17
49 64 0.18
50 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:42518 original size:48 final size:47
Alignment explanation
Indices: 42435--43008 Score: 228
Period size: 39 Copynumber: 12.8 Consensus size: 47
42425 ACATTAGCAT
* * *
42435 AAGACCAATATCGCTGG-CTTCGAATAAGCATATTGGCACCTTGTCTCC
1 AAGACCAATGTCGCTGGCCTT-GAATCAGCACATTGGCACCTT-TCTCC
* * *
42483 AAGACCAATGTCGTTGGCCTTGAGTCAACACATTGGCA--------C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* * * *
42522 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTATCTCT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TCTCC
*
42570 AAGACCAATGTCGCTGGCCTTGAATCAGCACAGTGGCA------T--
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* * * * * * * **
42609 AAGCCCAATATCACTGGCCTTGAAACAACATATTGGCACC-ATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* *
42655 AAGACCAATGTCGTTAGCCTTGAATCAGCACATTGGCA--------C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* * * ** **
42694 AAG-CCTAATATCGCTGGCCTTGAATTAGCATATTGGCACCACCATCTTT
1 AAGACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTCTCC
*
42743 AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--------C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* * * ** **
42782 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTCTCC
*
42831 AAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCA--------C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
* * ** * ** *
42870 AAGCCCAATATCATTGGCCTTGAATCAGCATATTGGCACC-ACCATCATT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTC-TC--C
* * * ** *
42919 AAGACCGATGTCGTTGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT--TC-TC--C
42971 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
43009 TCTTCAGCTT
Statistics
Matches: 402, Mismatches: 72, Indels: 100
0.70 0.13 0.17
Matches are distributed among these distances:
38 2 0.00
39 162 0.40
41 1 0.00
44 1 0.00
46 30 0.07
48 62 0.15
49 102 0.25
50 2 0.00
52 40 0.10
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (47 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTCTCC
Found at i:42761 original size:49 final size:49
Alignment explanation
Indices: 42704--43046 Score: 294
Period size: 49 Copynumber: 7.3 Consensus size: 49
42694 AAGCCTAATA
* *
42704 TCGCTGGCCTTGAATTAGCATATTGGCACCACCATCTTTAAAACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
* * *
42753 TCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
42792 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
* * * *
42841 TCGTTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
** * *
42880 TCATTGGCCTTGAATCAGCATATTGGCACCACCATCATTAAGACCGATG
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
* * **
42929 TCGTTGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGC-AC--CACCATCTTTAAGACCAATG
* * ** * * *
42981 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCAGCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
*
43030 TCGTTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCA
43047 ATGTATTGGC
Statistics
Matches: 239, Mismatches: 32, Indels: 46
0.75 0.10 0.15
Matches are distributed among these distances:
39 64 0.27
42 2 0.01
43 4 0.02
45 4 0.02
46 2 0.01
49 121 0.51
50 1 0.00
52 41 0.17
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATG
Found at i:42776 original size:88 final size:88
Alignment explanation
Indices: 42353--42955 Score: 786
Period size: 88 Copynumber: 6.9 Consensus size: 88
42343 TTTTAAGTCT
* * * * **** *
42353 AATATCACTGGCCTTGAATCAACATATCGCCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
* * *
42418 AATCAGCACATTAGCATAAGACC
66 AATCAGCACATTGGCACAAGCCC
* *** **
42441 AATATCGCTGG-CTTCGAATAAGCATATTGGCACC-TTGTCTCCAAGACCAATGTCGTTGGCCTT
1 AATATCGCTGGCCTT-GAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTT
* * *
42504 GAGTCAACACATTGGCACAAGACC
65 GAATCAGCACATTGGCACAAGCCC
* ** * *
42528 AATATCGCTGGCCTTGAATCAGCATATTGACACC-TTATCTCTAAGACCAATGTCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
* *
42592 AATCAGCACAGTGGCATAAGCCC
66 AATCAGCACATTGGCACAAGCCC
* * * *
42615 AATATCACTGGCCTTGAAACAACATATTGG---CACCATCTTTAAGACCAATGTCGTTAGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
*
42677 AATCAGCACATTGGCACAAGCCT
66 AATCAGCACATTGGCACAAGCCC
* * *
42700 AATATCGCTGGCCTTGAATTAGCATATTGGCACCACCATCTTTAAAACCAATGTCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
42765 AATCAGCACATTGGCACAAGCCC
66 AATCAGCACATTGGCACAAGCCC
42788 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
42853 AATCAGCACATTGGCACAAGCCC
66 AATCAGCACATTGGCACAAGCCC
** * *
42876 AATATCATTGGCCTTGAATCAGCATATTGGCACCACCATCATTAAGACCGATGTCGTTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
*
42941 AATCAGCATATTGGC
66 AATCAGCACATTGGC
42956 GTCTTCGTCA
Statistics
Matches: 459, Mismatches: 50, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
84 1 0.00
85 71 0.15
87 148 0.32
88 239 0.52
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (88 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTTAAGACCAATGTCGTTGGCCTTG
AATCAGCACATTGGCACAAGCCC
Found at i:42994 original size:52 final size:51
Alignment explanation
Indices: 42884--43110 Score: 196
Period size: 52 Copynumber: 4.5 Consensus size: 51
42874 CCAATATCAT
** * * *
42884 TGGCCTTGAATCAGCATATTGGCA-C-CACCATCATTAAGACCGATGTCGT
1 TGGCCTTGAATCAGCATATTGGCATCTCGTCATCTTTAAGACCAATGTCGC
*
42933 TGGCCTTGAATCAGCATATTGGCGTCTTCGTCATCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCATC-TCGTCATCTTTAAGACCAATGTCGC
* * * * *
42985 TGGCCTTGAATCAGCACATTGGCATCT--TCAGCTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCATCTCGTCATCTTTAAGACCAATGTCGC
*** * * *
43034 TGGCCTTGAATCAATGTATTGGCATCTTCAGT-AT-TCCTAAGCCCAATGACGC
1 TGGCCTTGAATCAGCATATTGGCATC-TC-GTCATCT-TTAAGACCAATGTCGC
** *
43086 TGGCCTTGTCTCAGCACATTGGCAT
1 TGGCCTTGAATCAGCATATTGGCAT
43111 TCTTCTTCAC
Statistics
Matches: 142, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
49 63 0.44
50 2 0.01
51 2 0.01
52 74 0.52
53 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (51 bp):
TGGCCTTGAATCAGCATATTGGCATCTCGTCATCTTTAAGACCAATGTCGC
Found at i:43054 original size:101 final size:101
Alignment explanation
Indices: 42884--43115 Score: 261
Period size: 101 Copynumber: 2.3 Consensus size: 101
42874 CCAATATCAT
* * ** * * * *
42884 TGGCCTTGAATCAGCATATTGGCACCACCATCATTAAGACCGATGTCGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCATCTTCAGCATTAAGACCAATATCGTTGGCCTTGAATCAACA
* * *
42949 TATTGGCGTCTTC-GTCA-TCTTTAAGACCAATGTCGC
66 TATTGGCATCTTCAGT-ATTC-CTAAGACCAATGACGC
* * **
42985 TGGCCTTGAATCAGCACATTGGCATCTTCAGCTTTAAGTCCAATATCGTTGGCCTTGAATCAATG
1 TGGCCTTGAATCAGCACATTGGCATCTTCAGCATTAAGACCAATATCGTTGGCCTTGAATCAACA
*
43050 TATTGGCATCTTCAGTATTCCTAAGCCCAATGACGC
66 TATTGGCATCTTCAGTATTCCTAAGACCAATGACGC
**
43086 TGGCCTTGTCTCAGCACATTGGCATTCTTC
1 TGGCCTTGAATCAGCACATTGGCA-TCTTC
43116 TTCACGCCTA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
101 101 0.92
102 9 0.08
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (101 bp):
TGGCCTTGAATCAGCACATTGGCATCTTCAGCATTAAGACCAATATCGTTGGCCTTGAATCAACA
TATTGGCATCTTCAGTATTCCTAAGACCAATGACGC
Found at i:43880 original size:21 final size:20
Alignment explanation
Indices: 43852--43890 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
43842 ACTATTTTTA
43852 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
43872 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
43891 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:52349 original size:31 final size:31
Alignment explanation
Indices: 52303--52510 Score: 258
Period size: 31 Copynumber: 6.7 Consensus size: 31
52293 ATCTCTCTTC
52303 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
** * * *
52334 TTGAAGTTCATGACTCAGTGGCATCTATTTTCC
1 TCAAAGTCCACGACTCAGTGGCATC--TTTTCT
* *
52367 CCAAAGTCCACGACTCAGTGGCATCTCTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
*
52398 TCAAAGTCCACGACTTAGTGGCATCTTTTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
52429 TCAAAGTCCACGACTCAGTGGCATCTCTTTC-
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTCT
* *
52460 -CAAAGTCCACGACTTAGTGGCATCTTCTCT
1 TCAAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
52490 TCAAAGCCCACAACTCCGTGG
1 TCAAAGTCCACGACTCAGTGG
52511 TACCTTTTTC
Statistics
Matches: 150, Mismatches: 22, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
29 3 0.02
30 24 0.16
31 94 0.63
32 4 0.03
33 25 0.17
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (31 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:52418 original size:64 final size:63
Alignment explanation
Indices: 52304--52485 Score: 260
Period size: 64 Copynumber: 2.9 Consensus size: 63
52294 TCTCTCTTCT
* ** * * *
52304 CAAAGTCCACGACTCAGTGGCATCTTTTCTTTGAAGTTCATGACTCAGTGGCATCTATTTTCCC
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCT-TTTTCCC
**
52368 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATC-TTTTCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTTCCC
*
52430 CAAAGTCCACGACTCAGTGGCATCTCTT-TCCAAAGTCCACGACTTAGTGGCATCTT
1 CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTT
52486 CTCTTCAAAG
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
61 25 0.23
62 34 0.31
64 49 0.45
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (63 bp):
CAAAGTCCACGACTCAGTGGCATCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTTCCC
Found at i:52489 original size:95 final size:93
Alignment explanation
Indices: 52296--52510 Score: 283
Period size: 95 Copynumber: 2.3 Consensus size: 93
52286 TCTTCAAATC
** * *
52296 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTTGAAGTTCATGACTCAGTGGCATCTA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTA
*
52361 TTTTCCCCAAAGTCCACGACTCAGTGGCA
66 CTTT-CCCAAAGTCCACGACTCAGTGGCA
*
52390 TCTCTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCT
*
52455 -CTTT-CCAAAGTCCACGACTTAGTGGCA
65 ACTTTCCCAAAGTCCACGACTCAGTGGCA
* * *
52482 TCT-TCTCTTCAAAGCCCACAACTCCGTGG
1 TCTCT-TC-TCAAAGTCCACGACTCAGTGG
52511 TACCTTTTTC
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
91 1 0.01
92 45 0.42
94 10 0.09
95 52 0.48
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (93 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATCTA
CTTTCCCAAAGTCCACGACTCAGTGGCA
Found at i:52582 original size:34 final size:33
Alignment explanation
Indices: 52497--52817 Score: 336
Period size: 33 Copynumber: 9.7 Consensus size: 33
52487 TCTTCAAAGC
*
52497 CCACAACTCCGTGGTACCTTTTT-CTTTTCAAAGCCTT
1 CCACAACTCCGTGGCACCTTTTTCCTTTT--AAG---T
* *
52534 CCACGACTCCGTGGCACCATTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACC-TTTTTCCTTTTAAGT
*
52568 CCACAACTCCGTGGCACTCTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCCTTTTAAGT
* *
52602 CCACAACTCCATGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
52635 CCACAACTCCGTGGCA-C-----CCTTTGAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
52662 CCACAACTCCGTGGCACCTTGTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
*
52695 CCACAACTCCGTGGCACC-TTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
* * *
52727 CCACGACTCTGTGGCACCCTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCA-CCTTTTTCCTTTTAAGT
* * *
52761 CCACAACTCCATGGCATCTTTCTTCC-TTTAAGC
1 CCACAACTCCGTGGCACCTTT-TTCCTTTTAAGT
* * *
52794 CCACAAGTCAGTGGCACCCTTTTC
1 CCACAACTCCGTGGCACCTTTTTC
52818 AAAAGCCCAC
Statistics
Matches: 243, Mismatches: 29, Indels: 29
0.81 0.10 0.10
Matches are distributed among these distances:
27 25 0.10
28 1 0.00
32 30 0.12
33 85 0.35
34 72 0.30
35 1 0.00
37 19 0.08
38 5 0.02
39 5 0.02
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTTCCTTTTAAGT
Found at i:52665 original size:60 final size:60
Alignment explanation
Indices: 52591--52776 Score: 246
Period size: 60 Copynumber: 3.0 Consensus size: 60
52581 GCACTCTTTT
* *
52591 CCCTTTTAAGTCCACAACTCCATGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* *
52651 CCCTTTGAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* * * *
52711 CCTTTTCTTTTTAAGTCCACGACTCTGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCATGGC
1 CC----C-TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTTAAGTCCACAACTCCGTGGC
52776 A
60 A
52777 TCTTTCTTCC
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
60 58 0.53
64 1 0.01
65 21 0.19
66 30 0.27
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (60 bp):
CCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:52710 original size:93 final size:93
Alignment explanation
Indices: 52558--52748 Score: 287
Period size: 92 Copynumber: 2.1 Consensus size: 93
52548 CACCATTTTT
* *
52558 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTT
1 CCTTTGAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCATGGCA-CCTT
52623 TTCCTTTTAAGTCCACAACTCCGTGGCAC
65 TTCCTTTTAAGTCCACAACTCCGTGGCAC
* *
52652 CCTTTGAAGTCCACAACTCCGTGGCAC-CTTGTT-CCTTTTAAGTCCACAACTCCGTGGCACCTT
1 CCTTTGAAGCCCACAACTCCGTGGCACTCTT-TTCCCTTTTAAGTCCACAACTCCATGGCACCTT
* * *
52715 TTCTTTTTAAGTCCACGACTCTGTGGCAC
65 TTCCTTTTAAGTCCACAACTCCGTGGCAC
52744 CCTTT
1 CCTTT
52749 TCCCTTTTAA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
92 34 0.38
93 28 0.31
94 27 0.30
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.34
Consensus pattern (93 bp):
CCTTTGAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCATGGCACCTTT
TCCTTTTAAGTCCACAACTCCGTGGCAC
Found at i:52741 original size:159 final size:161
Alignment explanation
Indices: 52497--52815 Score: 457
Period size: 159 Copynumber: 2.0 Consensus size: 161
52487 TCTTCAAAGC
* * *
52497 CCACAACTCCGTGGTACCTTTTTCTTTTCAAAGCCTTCCACGACTCCGTGGCACCATTTTTCCTT
1 CCACAACTCCGTGGCACCTTTTCCTTTT-AAAG-C-TCCACAACTCCGTGGCACCA-TTTTCCTT
*
52562 TTAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTT-TTC
62 TTAAGCCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTTCTTC
* *
52626 CTTTTAAGTCCACAACTCCGTGGCACCCTTTGAAGT
127 C-TTTAAGCCCACAACTCAGTGGCACCCTTTGAAGT
*
52662 CCACAACTCCGTGGCACCTTGTTCCTTTT-AAG-TCCACAACTCCGTGGCACC-TTTTCTTTTTA
1 CCACAACTCCGTGGCACCTT-TTCCTTTTAAAGCTCCACAACTCCGTGGCACCATTTTCCTTTTA
* * *
52724 AGTCCACGACTCTGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTTCTTCCTT
65 AGCCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTTCTTCCTT
*
52789 TAAGCCCACAAGTCAGTGGCACCCTTT
130 TAAGCCCACAACTCAGTGGCACCCTTT
52816 TCAAAAGCCC
Statistics
Matches: 141, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
159 90 0.64
160 4 0.03
161 18 0.13
164 3 0.02
165 19 0.13
166 7 0.05
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (161 bp):
CCACAACTCCGTGGCACCTTTTCCTTTTAAAGCTCCACAACTCCGTGGCACCATTTTCCTTTTAA
GCCCACAACTCCGTGGCACCCTTTTCCCTTTTAAGTCCACAACTCCATGGCATCTTTCTTCCTTT
AAGCCCACAACTCAGTGGCACCCTTTGAAGT
Found at i:52826 original size:30 final size:29
Alignment explanation
Indices: 52790--52885 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 29
52780 TTCTTCCTTT
52790 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCC-TTTCAA
* *
52820 AAGCCCACAAGTCAATGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTCAA
* ** *
52848 AAGCACACAAGTTGGT-ACAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTCAA
52877 AAGCCCACA
1 AAGCCCACA
52886 CAAGTTGGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.02
28 20 0.36
29 13 0.24
30 21 0.38
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:53067 original size:48 final size:45
Alignment explanation
Indices: 52957--53481 Score: 365
Period size: 39 Copynumber: 11.8 Consensus size: 45
52947 CTTTGTCTTT
52957 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---CA---C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
* * *
52996 AAGACCAATATCACTGGCTTTGAATCAGCATATTGGCACCTTATCTTC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--ATC-TC
** * *
53044 AAGACCAATGTCGCTGAACTTGAATCAACACATTGG---CA---C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
* *
53083 AAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--ATCTC
* *
53130 TAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGG---CA--T-
1 -AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
* * *
53170 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATC-TC
*
53216 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTTT
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---CACCATC-TC
* *
53265 AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG---CA---C
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
* *
53304 AAG-CCTAATATCGCTGGCCTTGAATCAGCACATTGG---CA---C
1 AAGACC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
* * *
53343 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATC-TC
* * * * * *
53389 TTTAAGATCGATGTCGTTGGCCTCGAATCAGCATATTGGCGCCTTCCTCATCTTT
1 ---AAGACCAATGTCGCTGGCCTTGAATCAGCATATT-G-G-C--AC-CATC-TC
*
53444 AAGACCAATGTCGCTGGCCTTGAATCAGCATGTTGGCA
1 AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
53482 TCTTCAACTT
Statistics
Matches: 393, Mismatches: 47, Indels: 84
0.75 0.09 0.16
Matches are distributed among these distances:
38 2 0.01
39 162 0.41
40 2 0.01
41 1 0.00
42 6 0.02
43 3 0.01
44 1 0.00
45 3 0.01
46 35 0.09
47 1 0.00
48 63 0.16
49 74 0.19
50 2 0.01
51 2 0.01
52 30 0.08
54 1 0.00
55 5 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (45 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCTC
Found at i:53079 original size:87 final size:87
Alignment explanation
Indices: 52914--53428 Score: 543
Period size: 87 Copynumber: 5.9 Consensus size: 87
52904 TTCTAAGTCT
* ** * *
52914 AATATCGCTGGCCTTGAATCAGCGTATCAGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTCAAGACCAATGTCGCTGGCCTTG
*
52979 AATCAGCATATTGGCACAAGACC
65 AATCAGCACATTGGCACAAGACC
* * **
53002 AATATCACTGGCTTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGCTGAACTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGCTGGCCTTGA
*
53067 ATCAACACATTGGCACAAGACC
66 ATCAGCACATTGGCACAAGACC
*
53089 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC-TCTAAGACCAATGTCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTC-AAGACCAATGTCGCTGGCCTTG
* * *
53153 AATCGGCACATTGGCATAAGCCC
65 AATCAGCACATTGGCACAAGACC
*
53176 AATATCGCTGGCCTTGAATCAGCATATTGGCACC--ATCTTTAAGACCAATGTCGCTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGCTGGCCTTGA
* *
53239 ATCAGCATATTGGCACCACCATCTTTAAAACC
66 ATCAGCACATTGG------CA-C---AAGACC
* * *
53271 AATGTCGCTGGCCTTGAATCAGCACATTGG---C--A----CAAG-CCTAATATCGCTGGCCTTG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACC-AATGTCGCTGGCCTTG
*
53326 AATCAGCACATTGGCACAAGCCC
65 AATCAGCACATTGGCACAAGACC
* * * * * * *
53349 AATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGATCGATGTCGTTGGCCTCG
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTATCTTCAAGACCAATGTCGCTGGCCTTG
*
53414 AATCAGCATATTGGC
65 AATCAGCACATTGGC
53429 GCCTTCCTCA
Statistics
Matches: 359, Mismatches: 44, Indels: 48
0.80 0.10 0.11
Matches are distributed among these distances:
78 31 0.09
81 2 0.01
82 2 0.01
84 1 0.00
85 36 0.10
86 3 0.01
87 158 0.44
88 89 0.25
89 1 0.00
91 2 0.01
92 2 0.01
95 32 0.09
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (87 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTCAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCACAAGACC
Found at i:53294 original size:49 final size:48
Alignment explanation
Indices: 53169--53520 Score: 278
Period size: 49 Copynumber: 7.6 Consensus size: 48
53159 CACATTGGCA
*
53169 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG--CACCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACACCATCTT
*
53215 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCACCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CACCATCTT
* * *
53264 TAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG-----CA-C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACACCATCTT
*
53304 -AAG-CCTAATATCGCTGGCCTTGAATCAGCACATTGG-----CA-C--
1 TAAGACC-AATATCGCTGGCCTTGAATCAGCATATTGGCACACCATCTT
* * *
53343 -AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CACCATCTT
* * * * * * *
53391 TAAGATCGATGTCGTTGGCCTCGAATCAGCATATTGGCGCCTTCCTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC--AC-CATCTT
* * ** *
53443 TAAGACCAATGTCGCTGGCCTTGAATCAGCATGTTGGCATCTTCAACTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CACCATCTT
* *
53492 TAAGTCCAATATCGTTGGCCTTGAATCAG
1 TAAGACCAATATCGCTGGCCTTGAATCAG
53521 TGTATTGGAA
Statistics
Matches: 258, Mismatches: 28, Indels: 37
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.01
39 65 0.25
40 2 0.01
42 1 0.00
43 2 0.01
45 2 0.01
46 36 0.14
49 108 0.42
52 40 0.16
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACACCATCTT
Found at i:53308 original size:134 final size:127
Alignment explanation
Indices: 53043--53428 Score: 504
Period size: 127 Copynumber: 3.0 Consensus size: 127
53033 ACCTTATCTT
* * ** *
53043 CAAGACCAATGTCGCTGAACTTGAATCAACACATTGGCACAAGACCAATATCGCTGGCCTTGAAT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAAT
** * *
53108 CAGCATATTGGCACC-TTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCGGCACATTGGCA
66 CAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
53169 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCTTTAAGACCAATGTCGCTGGC
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG---CA-C---AAGACCAATATCGCTGGC
* *
53234 CTTGAATCAGCATATTGGCACCACCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATT
59 CTTGAATCAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
53299 GGCA
124 GGCA
* * *
53303 CAAGCCTAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGCCTTGAAT
1 CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAAT
* * * * *
53368 CAGCATATTGGCACCATCATCTTTAAGATCGATGTCGTTGGCCTCGAATCAGCATATTGGC
66 CAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
53429 GCCTTCCTCA
Statistics
Matches: 225, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
126 30 0.13
127 76 0.34
129 2 0.01
130 2 0.01
131 2 0.01
133 39 0.17
134 74 0.33
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (127 bp):
CAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACCATCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:53349 original size:173 final size:177
Alignment explanation
Indices: 53141--53473 Score: 530
Period size: 173 Copynumber: 1.9 Consensus size: 177
53131 AAGACCAATG
* *
53141 TCGCTGGCCTTGAATCGGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
*
53206 CA-C-CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-AC-CATCTTTAA
66 CACCACATCTTTAAGACCAATGTCGCTGGCCTCGAATCAGCATATTGGCACCTACTCATCTTTAA
53267 AACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCTAATA
131 AACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCTAATA
*
53314 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGG
1 TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
* * * * *
53379 CACCATCATCTTTAAGATCGATGTCGTTGGCCTCGAATCAGCATATTGGCGCCTTCCTCATCTTT
66 CACCA-CATCTTTAAGACCAATGTCGCTGGCCTCGAATCAGCATATTGGCACC-TACTCATCTTT
*
53444 AAGACCAATGTCGCTGGCCTTGAATCAGCA
129 AAAACCAATGTCGCTGGCCTTGAATCAGCA
53474 TGTTGGCATC
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
173 64 0.44
174 1 0.01
176 42 0.29
178 1 0.01
179 36 0.25
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (177 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
CACCACATCTTTAAGACCAATGTCGCTGGCCTCGAATCAGCATATTGGCACCTACTCATCTTTAA
AACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCTAATA
Found at i:53534 original size:49 final size:49
Alignment explanation
Indices: 53347--53566 Score: 199
Period size: 49 Copynumber: 4.4 Consensus size: 49
53337 TGGCACAAGC
* * * *
53347 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGAT
1 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCATCTTCAACTTTAAG-T
* * * * * *
53397 -CGATGTCGTTGGCCTCGAATCAGCATATTGGCGCCTTCCTCATCTTTAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCATATT-G-G-CATCTTCAACTTTAAGT
* *
53448 CCAATGTCGCTGGCCTTGAATCAGCATGTTGGCATCTTCAACTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCATCTTCAACTTTAAGT
* ** * * *
53497 CCAATATCGTTGGCCTTGAATCAGTGTATTGGAATCTTTAACATTCCTAAGC
1 CCAATGTCGTTGGCCTTGAATCAGCATATTGGCATCTTCAAC-TT--TAAGT
*
53549 CCAATGTCGCTGGCCTTG
1 CCAATGTCGTTGGCCTTG
53567 TCTCAGTACA
Statistics
Matches: 138, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
49 74 0.54
50 4 0.03
51 2 0.01
52 58 0.42
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (49 bp):
CCAATGTCGTTGGCCTTGAATCAGCATATTGGCATCTTCAACTTTAAGT
Found at i:53553 original size:101 final size:101
Alignment explanation
Indices: 53343--53566 Score: 245
Period size: 101 Copynumber: 2.2 Consensus size: 101
53333 ACATTGGCAC
* * * * *
53343 AAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGATCGATGTCGTTG
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCAACTTTAAGATCAATATCGTTG
** ** *
53408 GCCTCGAATCAGCATATTGGCGCCTTCCTCATCTTT
66 GCCTCGAATCAGCATATTGGAACCTTCAACATCTCT
* * * *
53444 AAGACCAATGTCGCTGGCCTTGAATCAGCATGTTGGCATCTTCAACTTTAAG-TCCAATATCGTT
1 AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCAACTTTAAGAT-CAATATCGTT
* ** * *
53508 GGCCTTGAATCAGTGTATTGGAATCTTTAACAT-TCCT
65 GGCCTCGAATCAGCATATTGGAACCTTCAACATCT-CT
53545 AAGCCCAATGTCGCTGGCCTTG
1 AAGCCCAATGTCGCTGGCCTTG
53567 TCTCAGTACA
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
100 2 0.02
101 99 0.98
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (101 bp):
AAGCCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCATCAACTTTAAGATCAATATCGTTG
GCCTCGAATCAGCATATTGGAACCTTCAACATCTCT
Found at i:61599 original size:21 final size:22
Alignment explanation
Indices: 61573--61624 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
61563 AACATAAAGA
*
61573 AACATAATAAATTAACATA-AT
1 AACATAATAAATTAAAATATAT
*
61594 AACATAATAAATTAAAATATTT
1 AACATAATAAATTAAAATATAT
61616 AACATAATA
1 AACATAATA
61625 GACAACAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (22 bp):
AACATAATAAATTAAAATATAT
Found at i:61737 original size:24 final size:27
Alignment explanation
Indices: 61689--61745 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 27
61679 AATAAAAACT
*
61689 TTTTTATATTATTTGAAATAAATATAA
1 TTTTTATATTATTTGAAACAAATATAA
*
61716 TTTTTA-ATT-TTT-AAACAAATAT-T
1 TTTTTATATTATTTGAAACAAATATAA
61739 TTTTTAT
1 TTTTTAT
61746 TGTTTTAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 6 0.22
24 9 0.33
25 3 0.11
26 3 0.11
27 6 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTATATTATTTGAAACAAATATAA
Found at i:61751 original size:24 final size:23
Alignment explanation
Indices: 61688--61752 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
61678 TAATAAAAAC
* *
61688 TTTTTTATATTATTTGAAATAAATA
1 TTTTTT-TATT-TTTTAAACAAATA
* *
61713 TAATTTTTAATTTTTAAACAAATA
1 T-TTTTTTATTTTTTAAACAAATA
61737 TTTTTTTATTGTTTTA
1 TTTTTTTATT-TTTTA
61753 GCCCATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 7 0.22
24 17 0.53
25 4 0.12
26 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTTTTTATTTTTTAAACAAATA
Found at i:63124 original size:32 final size:31
Alignment explanation
Indices: 63088--63182 Score: 129
Period size: 32 Copynumber: 3.0 Consensus size: 31
63078 ATGATTTGTC
63088 ATCGATACATAAAGTTTTGTATCGATACAAGT
1 ATCGATACAT-AAGTTTTGTATCGATACAAGT
*
63120 ATCGATACAT-AGTGTTGTATCGATACAATGGT
1 ATCGATACATAAGTTTTGTATCGATACAA--GT
*
63152 ATCGATACATAAGTTGTGGTATCGATACAAG
1 ATCGATACATAAGTT-TTGTATCGATACAAG
63183 ACAAGTCTAC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
30 17 0.30
32 23 0.41
33 3 0.05
34 13 0.23
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (31 bp):
ATCGATACATAAGTTTTGTATCGATACAAGT
Found at i:63141 original size:18 final size:17
Alignment explanation
Indices: 63118--63180 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 17
63108 ATCGATACAA
63118 GTATCGATACATAGTGTT
1 GTATCGATACATAGTG-T
63136 GTATCGATACA-A-TG-
1 GTATCGATACATAGTGT
63150 GTATCGATACATAAGTTGT
1 GTATCGATACAT-AG-TGT
63169 GGTATCGATACA
1 -GTATCGATACA
63181 AGACAAGTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 11 0.28
16 3 0.08
17 1 0.03
18 13 0.33
20 11 0.28
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (17 bp):
GTATCGATACATAGTGT
Found at i:63155 original size:14 final size:14
Alignment explanation
Indices: 63106--63160 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 14
63096 ATAAAGTTTT
63106 GTATCGATACAA--
1 GTATCGATACAATG
63118 GTATCGATACATAGTG
1 GTATCGATACA-A-TG
63134 TTGTATCGATACAATG
1 --GTATCGATACAATG
63150 GTATCGATACA
1 GTATCGATACA
63161 TAAGTTGTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 11 0.30
13 1 0.03
14 11 0.30
16 2 0.05
17 1 0.03
18 11 0.30
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (14 bp):
GTATCGATACAATG
Done.