Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008405.1 Hibiscus syriacus cultivar Beakdansim tig00111174_pilon, whole genome shotgun sequence
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: 85389
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Found at i:1056 original size:21 final size:21
Alignment explanation
Indices: 1029--1077 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1019 TGATTACGGT
*
1029 CGTCGCGGGCGCTATTGCGGC
1 CGTCGCGGACGCTATTGCGGC
*
1050 TGTCGCGGACGCTATTGCGGC
1 CGTCGCGGACGCTATTGCGGC
1071 CGTCGCG
1 CGTCGCG
1078 AGTAACTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.33, G:0.41, T:0.20
Consensus pattern (21 bp):
CGTCGCGGACGCTATTGCGGC
Found at i:1262 original size:13 final size:13
Alignment explanation
Indices: 1244--1271 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1234 GCTTAATATA
1244 AATATAAATTAAT
1 AATATAAATTAAT
1257 AATATAAATTAAT
1 AATATAAATTAAT
1270 AA
1 AA
1272 ATTTAACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATAAATTAAT
Found at i:1599 original size:20 final size:20
Alignment explanation
Indices: 1574--1782 Score: 207
Period size: 20 Copynumber: 10.4 Consensus size: 20
1564 GAATTTGTAA
1574 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1594 TCGCAACACA-AAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* *
1613 TCACAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
1633 TCGCAACGC-GATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
1653 TCGCAACGC-GAA-TCTGTAAA-
1 TCGCAACACAGAAGTC---AAAT
1673 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
**
1693 TCGCAATGCA-ATAGTCAAAT
1 TCGCAACACAGA-AGTCAAAT
*
1713 TCGCAACACAAAAAGTCAAAT
1 TCGCAACAC-AGAAGTCAAAT
*
1734 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
* * *
1754 TCGCAACGCGGAATTCAAAT
1 TCGCAACACAGAAGTCAAAT
1774 TCGCAACAC
1 TCGCAACAC
1783 GAATTTAATT
Statistics
Matches: 165, Mismatches: 13, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
18 2 0.01
19 22 0.13
20 114 0.69
21 24 0.15
22 3 0.02
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:2744 original size:24 final size:24
Alignment explanation
Indices: 2717--2770 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
2707 GTATTCAAAA
2717 TTTGATCTTGGTCAATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
2741 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
2765 TTTGAT
1 TTTGAT
2771 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:5012 original size:18 final size:18
Alignment explanation
Indices: 4991--5026 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4981 CAAGCAAAGG
*
4991 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
5009 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
5027 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:5369 original size:20 final size:20
Alignment explanation
Indices: 5346--5391 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
5336 AATAAGCGTT
*
5346 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
5366 GCGAAAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
5386 GTGAAA
1 GCGAAA
5392 TCGCAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:5631 original size:66 final size:65
Alignment explanation
Indices: 5549--5724 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 65
5539 AATTTAAAAC
5549 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATC-AATT
5614 A
65 A
* *
5615 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
5679 AACAAATCAACTTTCAATGTA-AAATTCAATTAAACAAGCAAAAAAA
1 AACAAATCAAC-TT---T-TACAAA-TCAATTAAACAAGCAAAAAAA
5725 GTGTACCCCA
Statistics
Matches: 101, Mismatches: 2, Indels: 10
0.89 0.02 0.09
Matches are distributed among these distances:
64 16 0.16
65 25 0.25
66 34 0.34
68 4 0.04
69 16 0.16
70 6 0.06
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAATTA
Found at i:7101 original size:21 final size:21
Alignment explanation
Indices: 7058--7155 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
7048 GCATGCGGGA
*
7058 CCTCTTGAACGATGATA-GGG
1 CCTCTTGAACGATGAGAGGGG
* *
7078 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
7099 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
* * *
7120 TCTCTTGAACAAT-AGGAGGCG
1 CCTCTTGAACGATGA-GAGGGG
*
7141 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
7156 TAGGTGCATC
Statistics
Matches: 60, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
20 16 0.27
21 42 0.70
22 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:7565 original size:21 final size:21
Alignment explanation
Indices: 7537--7586 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7527 ACCATTATCT
* *
7537 TCACGTAAAGTATCAACCTCA
1 TCACGTAAAGCACCAACCTCA
* *
7558 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCAACCTCA
7579 TCACGTAA
1 TCACGTAA
7587 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCAACCTCA
Found at i:9279 original size:20 final size:20
Alignment explanation
Indices: 9249--9316 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
9239 TTTTAAAACT
*
9249 AAAATTCGCAACACGAAAATG
1 AAAA-TCGCAACGCGAAAATG
9270 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
*
9290 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
9309 AAAATCGC
1 AAAATCGC
9317 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.18
20 33 0.73
21 4 0.09
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:9367 original size:20 final size:19
Alignment explanation
Indices: 9329--9367 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9319 TGCGATTTTG
* *
9329 GTGTTGCGATTTTCATTTC
1 GTGTTGCGAATTTAATTTC
9348 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAA-TTTC
9368 AAAACTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.15, C:0.13, G:0.23, T:0.49
Consensus pattern (19 bp):
GTGTTGCGAATTTAATTTC
Found at i:9882 original size:20 final size:20
Alignment explanation
Indices: 9857--10038 Score: 186
Period size: 20 Copynumber: 9.1 Consensus size: 20
9847 TAATATTGTG
9857 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
9877 TTTCGCGTTTCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
9897 TATCACGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
9917 TATCGCGTTGCGGATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* * *
9937 TTTTGTGTTGCGAATTTGAA
1 TTTCGCGTTGCGAATTTGAC
* * *
9957 ATTCAGTGTTGTGAATTTGAC
1 TTTC-GCGTTGCGAATTTGAC
***
9978 TTTTATGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
9998 TATCGCATTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
* *
10018 TTT-GTGTTGCGGATTTGAC
1 TTTCGCGTTGCGAATTTGAC
10037 TT
1 TT
10039 CTGTGTGCGA
Statistics
Matches: 133, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
19 15 0.11
20 102 0.77
21 16 0.12
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:9967 original size:21 final size:21
Alignment explanation
Indices: 9941--9996 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
9931 TTTGACTTTT
9941 GTGTTGCGAATTTGAAATTCA
1 GTGTTGCGAATTTGAAATTCA
* ** *
9962 GTGTTGTGAATTTGACTTTTA
1 GTGTTGCGAATTTGAAATTCA
9983 -TGTTGCGAATTTGA
1 GTGTTGCGAATTTGA
9997 CTATCGCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (21 bp):
GTGTTGCGAATTTGAAATTCA
Found at i:9988 original size:81 final size:79
Alignment explanation
Indices: 9863--10035 Score: 231
Period size: 81 Copynumber: 2.2 Consensus size: 79
9853 TGTGTTTCGC
** *
9863 GTTGCGAATTTGACTTTCGCGTTTCGAATTTGACTATCACGTTGCGAATTTGACTATCGCGTTGC
1 GTTGCGAATTTGAAATTCGCGTTTCGAATTTGACTATCACGTTGCGAATTTGACTATCGCATTGC
*
9928 GGATTTGACTTTTGT
66 GAATTTGAC-TTTGT
* * * *
9943 GTTGCGAATTTGAAATTCAGTGTTGT-GAATTTGACTTTTATGTTGCGAATTTGACTATCGCATT
1 GTTGCGAATTTGAAATTC-GCGTT-TCGAATTTGACTATCACGTTGCGAATTTGACTATCGCATT
10007 GCGAATTTGACTTTGT
64 GCGAATTTGACTTTGT
*
10023 GTTGCGGATTTGA
1 GTTGCGAATTTGA
10036 CTTCTGTGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
80 33 0.40
81 48 0.59
82 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (79 bp):
GTTGCGAATTTGAAATTCGCGTTTCGAATTTGACTATCACGTTGCGAATTTGACTATCGCATTGC
GAATTTGACTTTGT
Found at i:10069 original size:20 final size:20
Alignment explanation
Indices: 10044--10089 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10034 GACTTCTGTG
10044 TGCGATTTACAGATTCACGT
1 TGCGATTTACAGATTCACGT
* *
10064 TGCGATTTACATATTCGCGT
1 TGCGATTTACAGATTCACGT
10084 TGCGAT
1 TGCGAT
10090 ATTGGAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
TGCGATTTACAGATTCACGT
Found at i:12120 original size:35 final size:35
Alignment explanation
Indices: 12081--12157 Score: 154
Period size: 35 Copynumber: 2.2 Consensus size: 35
12071 TCCTCCCCAC
12081 CCCCTTTTTTTCCACCATGTTTATCACCTCCTTTA
1 CCCCTTTTTTTCCACCATGTTTATCACCTCCTTTA
12116 CCCCTTTTTTTCCACCATGTTTATCACCTCCTTTA
1 CCCCTTTTTTTCCACCATGTTTATCACCTCCTTTA
12151 CCCCTTT
1 CCCCTTT
12158 GTACTTTTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.13, C:0.39, G:0.03, T:0.45
Consensus pattern (35 bp):
CCCCTTTTTTTCCACCATGTTTATCACCTCCTTTA
Found at i:12407 original size:12 final size:12
Alignment explanation
Indices: 12390--12480 Score: 91
Period size: 12 Copynumber: 7.8 Consensus size: 12
12380 GACCAAATTC
12390 CTCATCATCAAA
1 CTCATCATCAAA
12402 CTCATCATC--A
1 CTCATCATCAAA
12412 -TCATCATCAAA
1 CTCATCATCAAA
*
12423 CTCATCATCGAA
1 CTCATCATCAAA
* * *
12435 TTCATCGTCGAA
1 CTCATCATCAAA
* *
12447 CTCGTCATCGAA
1 CTCATCATCAAA
12459 CTCATCATCATAA
1 CTCATCATCA-AA
12472 -TCATCATCA
1 CTCATCATCA
12481 CTCCCATCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
9 8 0.12
10 1 0.01
11 1 0.01
12 55 0.82
13 2 0.03
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (12 bp):
CTCATCATCAAA
Found at i:13959 original size:50 final size:51
Alignment explanation
Indices: 13842--13965 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 51
13832 CCACGTAGGG
* * *
13842 TATAGCGCGGATCATGTACCACGCTATACCTTTACTCCCGACATAATTTTA
1 TATAGCGCGGATCAGGTACCGCGCTATACATTTACTCCCGACATAATTTTA
** * *
13893 TATAGCGCGGGGCAGGTATCGCGAC-ATACATTTACT-CTGACATAATTTTA
1 TATAGCGCGGATCAGGTACCGCG-CTATACATTTACTCCCGACATAATTTTA
13943 TATAGCGCGGATCAGGTACCGCG
1 TATAGCGCGGATCAGGTACCGCG
13966 TTTTGTATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 33 0.53
51 28 0.45
52 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
TATAGCGCGGATCAGGTACCGCGCTATACATTTACTCCCGACATAATTTTA
Found at i:17554 original size:26 final size:25
Alignment explanation
Indices: 17525--17596 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 25
17515 AAAGTCCAAC
*
17525 AAATTTAACAAAATAAAGTAAGTATT
1 AAATTTAACAAAATAAAGTAA-AATT
*
17551 AAA-TGAGA-AATAATAAA--AAAATT
1 AAATTTA-ACAA-AATAAAGTAAAATT
17574 ACAATTTAACAAAATAAAGTAAA
1 A-AATTTAACAAAATAAAGTAAA
17597 TACAAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
23 4 0.11
24 11 0.31
25 8 0.22
26 13 0.36
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (25 bp):
AAATTTAACAAAATAAAGTAAAATT
Found at i:19889 original size:20 final size:19
Alignment explanation
Indices: 19861--19899 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
19851 CCTTAAAAAG
*
19861 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGA-AAATTT
19881 AGAGAATTTGAGAAAATTT
1 AGAGAATTTGAGAAAATTT
19900 GGTGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
AGAGAATTTGAGAAAATTT
Found at i:20476 original size:30 final size:28
Alignment explanation
Indices: 20427--20482 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 28
20417 TATGATTTTA
20427 AAAATAAATAAAATTTAAATATTAAAAT
1 AAAATAAATAAAATTTAAATATTAAAAT
*
20455 AAAATAAATAATGATTTTAAATATTAAA
1 AAAATAAATAA--AATTTAAATATTAAA
20483 TGTGTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 11 0.44
30 14 0.56
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
AAAATAAATAAAATTTAAATATTAAAAT
Found at i:22227 original size:25 final size:23
Alignment explanation
Indices: 22184--22233 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
22174 TATTTAATTA
*
22184 TATTATTTTTAAATTATTTTTAT
1 TATTATTTTTAAATTATTTTAAT
*
22207 TATTATATTTTAATTTAATTTTAAT
1 TATTAT-TTTTAAATT-ATTTTAAT
22232 TA
1 TA
22234 CGTGTCGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 8 0.35
25 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATTTTTAAATTATTTTAAT
Found at i:26441 original size:22 final size:20
Alignment explanation
Indices: 26399--26478 Score: 105
Period size: 18 Copynumber: 4.1 Consensus size: 20
26389 GAATATTTAT
26399 CCGAAGGACCACTATA--TC
1 CCGAAGGACCACTATATGTC
26417 CCGAAGGACCACTGTATATGTC
1 CCGAAGGACCAC--TATATGTC
26439 CCGAAGGACCAC--TATGTC
1 CCGAAGGACCACTATATGTC
*
26457 CCGAAGGACCACTATATATC
1 CCGAAGGACCACTATATGTC
26477 CC
1 CC
26479 TCGACTCTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
18 30 0.55
20 11 0.20
22 14 0.25
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (20 bp):
CCGAAGGACCACTATATGTC
Found at i:26443 original size:40 final size:40
Alignment explanation
Indices: 26399--26475 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
26389 GAATATTTAT
*
26399 CCGAAGGACCACTATATCCCGAAGGACCACTGTATATGTC
1 CCGAAGGACCACTATATCCCGAAGGACCACTATATATGTC
*
26439 CCGAAGGACCACTATGTCCCGAAGGACCACTATATAT
1 CCGAAGGACCACTATATCCCGAAGGACCACTATATAT
26476 CCCTCGACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (40 bp):
CCGAAGGACCACTATATCCCGAAGGACCACTATATATGTC
Found at i:29428 original size:21 final size:22
Alignment explanation
Indices: 29380--29429 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
29370 GGGTCTACGC
*
29380 GGTCCTTTGGGACATATATGTA
1 GGTCCTTTGGAACATATATGTA
*
29402 --TCCTTTGGAACATCTATG-A
1 GGTCCTTTGGAACATATATGTA
29421 GGTCCTTTG
1 GGTCCTTTG
29430 ATACACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 16 0.67
21 7 0.29
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (22 bp):
GGTCCTTTGGAACATATATGTA
Found at i:29553 original size:23 final size:23
Alignment explanation
Indices: 29507--29553 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
29497 ATTTTTATGA
*
29507 AATTCTACGCGGCACTTCATTGC
1 AATTCTACGCGGCACTTCAGTGC
* * *
29530 AATTCTATGTGGCACTTCGGTGC
1 AATTCTACGCGGCACTTCAGTGC
29553 A
1 A
29554 TTTATACGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (23 bp):
AATTCTACGCGGCACTTCAGTGC
Found at i:31061 original size:19 final size:19
Alignment explanation
Indices: 31031--31079 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
31021 AACTTAAACT
*
31031 ATTTTA-AATTTTGTTGTA
1 ATTTTATAATTTTGTTATA
*
31049 ATTTTATAATTTTTTTATA
1 ATTTTATAATTTTGTTATA
*
31068 TTTTTAT-ATTTT
1 ATTTTATAATTTT
31080 TATATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
ATTTTATAATTTTGTTATA
Found at i:31070 original size:18 final size:18
Alignment explanation
Indices: 31030--31088 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 18
31020 AAACTTAAAC
31030 TATTTTA-AATTTTGTTGTA
1 TATTTTATAATTTT-TT-TA
31049 -ATTTTATAATTTTTTTA
1 TATTTTATAATTTTTTTA
*
31066 TATTTT-T-ATATTTTTA
1 TATTTTATAATTTTTTTA
31082 TATTTTA
1 TATTTTA
31089 ATTTTAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 14 0.39
17 3 0.08
18 13 0.36
19 6 0.17
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTATAATTTTTTTA
Found at i:31166 original size:14 final size:15
Alignment explanation
Indices: 31139--31172 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31129 ATGTTATGTA
31139 TTTTAAAGTTTTATG
1 TTTTAAAGTTTTATG
*
31154 TTTTAAA-TTTTATT
1 TTTTAAAGTTTTATG
31168 TTTTA
1 TTTTA
31173 TGTAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTAAAGTTTTATG
Found at i:36338 original size:15 final size:15
Alignment explanation
Indices: 36307--36345 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
36297 CCCTTAAATT
*
36307 ATCTAAAAT-TCTTA
1 ATCTAAAATCTCTAA
*
36321 ATCTTAAATCTCTAA
1 ATCTAAAATCTCTAA
36336 ATCTAAAATC
1 ATCTAAAATC
36346 AACCACCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (15 bp):
ATCTAAAATCTCTAA
Found at i:36862 original size:21 final size:21
Alignment explanation
Indices: 36836--36884 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
36826 ATTTTAACCA
*
36836 AACCAAAAGT-AATCCGAATCT
1 AACCAAAA-TCAACCCGAATCT
*
36857 AACCAAAATCAACCCGAATTT
1 AACCAAAATCAACCCGAATCT
36878 AACCAAA
1 AACCAAA
36885 TCGAAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.51, C:0.27, G:0.06, T:0.16
Consensus pattern (21 bp):
AACCAAAATCAACCCGAATCT
Found at i:36977 original size:2 final size:2
Alignment explanation
Indices: 36972--37015 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
36962 AAATATATCA
*
36972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37014 AT
1 AT
37016 GATTTGACTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:38605 original size:37 final size:37
Alignment explanation
Indices: 38529--38605 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
38519 TTTTTATATT
*
38529 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
38566 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
38603 TTT
1 TTT
38606 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:38768 original size:18 final size:19
Alignment explanation
Indices: 38745--38787 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
38735 CTAGTAATCC
*
38745 TATTCC-CTGATAATCTTT
1 TATTCCACTGATAATCTTA
38763 TATTCCTACTGATAATCTTA
1 TATTCC-ACTGATAATCTTA
38783 TATTC
1 TATTC
38788 TGTGAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:39827 original size:60 final size:60
Alignment explanation
Indices: 39729--39844 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
39719 ATAGTCAAAT
* * ** *
39729 GACTATTTTGTAACTTTTAATAGTTTAGAGACTCAATAAAAT-ATCACCATATAATTAAGA
1 GACTATTTTATAACTTTTAATAATCGAGAGACTAAATAAAATAAT-ACCATATAATTAAGA
* * *
39789 GACTGTTTTATAACTTTTAATAATCGAGATACTAAATAAAATAATATCATATAATT
1 GACTATTTTATAACTTTTAATAATCGAGAGACTAAATAAAATAATACCATATAATT
39845 GGAATACTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 45 0.96
61 2 0.04
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (60 bp):
GACTATTTTATAACTTTTAATAATCGAGAGACTAAATAAAATAATACCATATAATTAAGA
Found at i:40899 original size:2 final size:2
Alignment explanation
Indices: 40894--40935 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
40884 TTCATATGTG
40894 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40936 CATACACAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42665 original size:3 final size:3
Alignment explanation
Indices: 42659--42709 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
42649 TTTCATTTTT
* * * * *
42659 TTA TTA TAA ATA TTA TTA TTA ATA TTA TTT TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42707 TTA
1 TTA
42710 CAAATAGGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:42708 original size:15 final size:15
Alignment explanation
Indices: 42669--42709 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
42659 TTATTATAAA
42669 TATTATTATTAATAT
1 TATTATTATTAATAT
*
42684 TATTTTTATTAATAT
1 TATTATTATTAATAT
42699 TATTATTATTA
1 TATTATTATTA
42710 CAAATAGGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTATTAATAT
Found at i:47799 original size:20 final size:20
Alignment explanation
Indices: 47736--47799 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
47726 GCCAGGTAGA
47736 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
47756 G-TCAT-CTGAAGAAGAAGAA
1 GTTCATAATG-AGAAGAACTT
* *
47775 ATTCATAATGAGAAGAATTT
1 GTTCATAATGAGAAGAACTT
47795 GTTCA
1 GTTCA
47800 GCCTTTTGCT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:47920 original size:113 final size:113
Alignment explanation
Indices: 47586--48485 Score: 928
Period size: 113 Copynumber: 7.8 Consensus size: 113
47576 GCAAAGATTA
* *
47586 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAA
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
47651 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * * * *
47699 GAATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTTGTCATCT
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAAC---TCATCT
* *
47763 GAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAGCCTTTTGCTC
62 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
*
47811 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
47876 AAGGAAGAAGAAGTTCATAATGAGAAGAATGTGTTCAACATTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * * * * *
47924 GAATTCATCATTTGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCAT-C
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGA
* * *
47987 TGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
64 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * *
48036 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
48101 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * * * * * *
48149 GAATTCATCATTTGCTGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAATAACTCATCTGAA
1 AAATCCATCACTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAA
* * ** *
48213 GAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * * * *
48262 AATTCTATCACAGAAGCAGATAGATTAGCATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
1 AA----ATC-C---ATCA-CTTGA-T-GGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* ** *
48327 CTCATCT---GAA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGCAT
55 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
* * *
48382 AATTCTATCACAAAAGGATATAGATTAGCATCAAAC-TTTCCAGAGAAAGTTCATAATGAGAAGA
1 AAATCCATCAC-------T-T-GA-T-GGATC-AACTTTTCCAGAGAAAGTTCATAATGAGAAGA
*
48446 ACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGA
54 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
48486 GCTTATTCAA
Statistics
Matches: 657, Mismatches: 89, Indels: 71
0.80 0.11 0.09
Matches are distributed among these distances:
109 12 0.02
110 4 0.01
111 2 0.00
112 178 0.27
113 271 0.41
114 2 0.00
115 4 0.01
116 13 0.02
117 2 0.00
118 2 0.00
120 92 0.14
121 8 0.01
122 2 0.00
123 4 0.01
124 60 0.09
125 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTT
Found at i:47977 original size:225 final size:223
Alignment explanation
Indices: 47586--48378 Score: 1184
Period size: 225 Copynumber: 3.5 Consensus size: 223
47576 GCAAAGATTA
*
47586 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
47651 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTTGAATTCATCATTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTTGAATTCATCATTTGATG
47716 GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTTGTCATCTGAAGAAGAAGAAATTCAT
131 GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAAC-T-TCATCTGAAGAAGAAGAAATTCAT
*
47781 AATGAGAAGAATTTGTTCAGCCTTTTGCTC
194 AATGAGAAGAATTTGTTCAACCTTTTGCTC
47811 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
47876 AAGGAAGAAGAAGTTCATAATGAGAAGAATGTGTTCAACATTTTGTTTGAATTCATCATTTGATG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTTGAATTCATCATTTGATG
*
47941 GATCAACATTACCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGAAGAAGAAATTCAT
131 GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT--TCATCTGAAGAAGAAGAAATTCAT
48006 AATGAGAAGAATTTGTTCAACCTTTTGCTC
194 AATGAGAAGAATTTGTTCAACCTTTTGCTC
* *
48036 AAATCCATCACTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTAAAG
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
48101 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGCTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTTGAATTCATCATTTGATG
*
48166 GATCAACATTGCCAGGTAGAGTTCATAATGAGAATAAC-TCATCTGAAGAAGAAAGAAGAAGTTC
131 GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAAGAAG-AAG-A-AA-TTC
* **
48230 ACAATGAGAAGAGCTTGTTCAACCTTTTGCAT-
192 ATAATGAGAAGAATTTGTTCAACCTTTTGC-TC
* * * *
48262 AATTCTATCACAGAAGCAGATAGATTAGCATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
1 AA----ATC-C---ATCA-CTTGA-T-GGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* ** *
48327 CTCATCT---GAA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTG
55 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTG
48379 CATAATTCTA
Statistics
Matches: 528, Mismatches: 23, Indels: 26
0.92 0.04 0.05
Matches are distributed among these distances:
222 13 0.02
223 3 0.01
224 2 0.00
225 381 0.72
226 32 0.06
227 1 0.00
230 3 0.01
231 1 0.00
233 39 0.07
234 6 0.01
235 3 0.01
236 1 0.00
237 43 0.08
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (223 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGTTTGAATTCATCATTTGATG
GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTTCATCTGAAGAAGAAGAAATTCATAA
TGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:48330 original size:124 final size:122
Alignment explanation
Indices: 48185--48590 Score: 563
Period size: 120 Copynumber: 3.3 Consensus size: 122
48175 TGCCAGGTAG
*
48185 AGTTCATAATGAGAATAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
* * *
48250 AACCTTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCAGCTTTTCCAGAGAA
66 AACCTTTTGCATAATTCTATCACAAAAGGAAATAGATTAGCATCA-C-TTTCCAGAGAA
48309 AGTTCATAATGAGAAGAACTCATCT---GAAG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
*
48370 AACCTTTTGCATAATTCTATCACAAAAGGATATAGATTAGCATCAAACTTTCCAGAGAA
66 AACCTTTTGCATAATTCTATCACAAAAGGAAATAGATTAGCATC--ACTTTCCAGAGAA
* *
48429 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
* * * * * * * * **
48494 AACCCTTTGAATGACTCTATCACATAAGGAAATAGGTCAACATCA-TCCCCAGAGAAA
66 AACCTTTTGCATAATTCTATCACAAAAGGAAATAGATTAGCATCACTTTCCAGAG-AA
*
48551 AGTTCATAATGAGAAGAACTCATCTGAAGAA-AGAGAAGAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA
48591 TTTATTCAAC
Statistics
Matches: 257, Mismatches: 18, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
120 109 0.42
121 20 0.08
122 35 0.14
123 4 0.02
124 89 0.35
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (122 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTC
AACCTTTTGCATAATTCTATCACAAAAGGAAATAGATTAGCATCACTTTCCAGAGAA
Found at i:48753 original size:15 final size:15
Alignment explanation
Indices: 48735--48775 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
48725 TAATTATAAA
*
48735 TATTATTATTAATAT
1 TATTATTATTAAAAT
*
48750 TATTTTTATTAAAAT
1 TATTATTATTAAAAT
48765 TATTATTATTA
1 TATTATTATTA
48776 CAAACAGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTATTAAAAT
Found at i:48770 original size:12 final size:13
Alignment explanation
Indices: 48727--48772 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
48717 TCATTTTTTA
48727 ATTA-TAAATATT
1 ATTATTAAATATT
48739 ATTATTAATATTATT
1 ATTATTAA-A-TATT
*
48754 TTTATTAAA-ATT
1 ATTATTAAATATT
48766 ATTATTA
1 ATTATTA
48773 TTACAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 13 0.45
13 3 0.10
14 2 0.07
15 11 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATTATTAAATATT
Found at i:49236 original size:11 final size:12
Alignment explanation
Indices: 49218--49251 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
49208 AACCAACAGG
49218 AGAAAAAAAACA
1 AGAAAAAAAACA
49230 A-AAAAAAAACA
1 AGAAAAAAAACA
*
49241 AGAGAAAAAAC
1 AGAAAAAAAAC
49252 GAACAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAACA
Found at i:50225 original size:28 final size:27
Alignment explanation
Indices: 50151--50226 Score: 64
Period size: 29 Copynumber: 2.7 Consensus size: 27
50141 GTTCTAATTG
** *
50151 TATTTTTATTATTGTT-TATTTATGTTT
1 TATTTTTATTATT-TTATATTTAAATAT
* *
50178 TAATTTTACTTGTTTATATATTTAAATAT
1 TATTTTTA-TTATTT-TATATTTAAATAT
50207 TATTTTTATTATTATTATAT
1 TATTTTTATTATT-TTATAT
50227 AGTCATATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
27 8 0.21
28 14 0.37
29 16 0.42
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (27 bp):
TATTTTTATTATTTTATATTTAAATAT
Found at i:50526 original size:29 final size:30
Alignment explanation
Indices: 50493--50550 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
50483 ATATTTCTAA
50493 ATAAATAAATATTTTATTT-ATAAATATAT
1 ATAAATAAATATTTTATTTCATAAATATAT
* * *
50522 ATAAATTAATATTTTTTTTCATAATTATA
1 ATAAATAAATATTTTATTTCATAAATATA
50551 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATAAATAAATATTTTATTTCATAAATATAT
Found at i:58483 original size:23 final size:23
Alignment explanation
Indices: 58457--58504 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
58447 ATAAAGTACA
*
58457 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
58480 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
58503 AT
1 AT
58505 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:58957 original size:23 final size:23
Alignment explanation
Indices: 58931--58993 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
58921 ATATAACCAC
58931 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
58954 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
58977 TACCTATTACATCATAT
1 TACCTATTACATTATAT
58994 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:59453 original size:34 final size:34
Alignment explanation
Indices: 59413--59478 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
59403 AAGTTGTAGA
*
59413 TTTTGATTTCCTTTTGCTTGGCATCATATGAGAT
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
59447 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
1 TTTTGATTTCCTTTTGCTTGGCACCATATGAG
59479 CTTTGGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (34 bp):
TTTTGATTTCCTTTTGCTTGGCACCATATGAGAT
Found at i:59774 original size:18 final size:18
Alignment explanation
Indices: 59751--59787 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59741 CGAAATATAT
59751 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
59769 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
59787 A
1 A
59788 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:60250 original size:23 final size:23
Alignment explanation
Indices: 60224--60286 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
60214 ATATAACCAC
60224 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
60247 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
60270 TACCTATTACATCATAT
1 TACCTATTACATTATAT
60287 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:60685 original size:25 final size:25
Alignment explanation
Indices: 60628--60693 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
60618 CACTCAAAAG
*
60628 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
60653 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
60678 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
60694 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:63474 original size:183 final size:183
Alignment explanation
Indices: 63162--63834 Score: 1197
Period size: 183 Copynumber: 3.7 Consensus size: 183
63152 TTAAAATTAC
* *
63162 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAGCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
63226 TATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
* *
63291 TATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* * *
63345 CGATACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
63409 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGT
63474 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 TATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
63528 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
63593 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
63658 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGGAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
63711 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
1 CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
*
63776 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACCGGTATATTTATA
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
63835 ATATGTTGAA
Statistics
Matches: 475, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
183 472 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:65306 original size:3 final size:3
Alignment explanation
Indices: 65298--65378 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
65288 ACTTGTTTGG
* * * **
65298 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
65346 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
65379 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:65315 original size:12 final size:12
Alignment explanation
Indices: 65302--65390 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
65292 GTTTGGATCA
* *
65302 TCATCTTCATCA
1 TCATCGTCATCT
* *
65314 TCATCATCATCA
1 TCATCGTCATCT
* *
65326 TCGTCATCATCT
1 TCATCGTCATCT
* *
65338 TCATCGCCAGCT
1 TCATCGTCATCT
*
65350 TCATCGTCATCA
1 TCATCGTCATCT
65362 TCATCGTCATCT
1 TCATCGTCATCT
*
65374 TCATCGTCAGCT
1 TCATCGTCATCT
65386 TCATC
1 TCATC
65391 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:65321 original size:18 final size:18
Alignment explanation
Indices: 65302--65393 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
65292 GTTTGGATCA
* *
65302 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
65320 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
65338 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
65356 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
65374 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
65392 TC
1 TC
65394 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:65354 original size:36 final size:36
Alignment explanation
Indices: 65314--65390 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
65304 ATCTTCATCA
*
65314 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
65350 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
65386 TCATC
1 TCATC
65391 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:65393 original size:6 final size:6
Alignment explanation
Indices: 65302--65393 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
65292 GTTTGGATCA
* * * * * * * *
65302 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
65350 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
65394 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:67218 original size:199 final size:199
Alignment explanation
Indices: 66977--67986 Score: 1855
Period size: 199 Copynumber: 5.1 Consensus size: 199
66967 GATGATTTTG
66977 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
*
67042 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
67107 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
67172 ATAT
196 ATAT
*
67176 GGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
*
67241 TATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
67306 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTT-T
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
67369 ATAT
196 ATAT
67373 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
* **
67438 TATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAATTGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
67503 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
67568 ATAT
196 ATAT
*
67572 GGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
67637 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
*
67702 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGATCGACACTTTTTAT
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
67767 ATAT
196 ATAT
67771 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
* * * *
67835 TATATTAGTGTCGACGCATTATTTAGACATATTCTCTCATAAAACCGGTAGACTTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
* * *
67900 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTA
67965 TATAT
195 TATAT
67970 GGATCGACACTTTATGG
1 GGATCGACACTTTATGG
67987 TAAATTTGCC
Statistics
Matches: 788, Mismatches: 20, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
197 190 0.24
198 123 0.16
199 475 0.60
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (199 bp):
GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
TATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
ATAT
Found at i:67709 original size:396 final size:398
Alignment explanation
Indices: 66977--67986 Score: 1864
Period size: 396 Copynumber: 2.5 Consensus size: 398
66967 GATGATTTTG
66977 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
67042 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
67107 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
67172 ATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTCTGGAAAAAAAATATCGACAC
196 ATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTCTGGAAAAAAAATATCGACAC
*
67237 AAACTATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAACCGGTATAATTGTACCG
261 AAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCG
*
67302 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TT
326 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGATCGACACTTT
67366 TT-TATAT
391 TTATATAT
67373 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
* * **
67438 TATATTAGTGTCGACACATTATTTATACATATTATCTCATAAAATTGGTATAATTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
67503 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
* *
67568 ATATGGATCGACACTTTATGGGTTCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACAC
196 ATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTCTGGAAAAAAAATATCGACAC
67633 AAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCG
261 AAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCG
67698 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGATCGACACTTT
326 GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGATCGACACTTT
67763 TTATATAT
391 TTATATAT
67771 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
* * *
67835 TATATTAGTGTCGACGCATTATTTAGACATATTCTCTCATAAAACCGGTAGACTTGTACCGGTTA
66 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
* * *
67900 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTA
67965 TATATGGATCGACACTTTATGG
195 TATATGGATCGACACTTTATGG
67987 TAAATTTGCC
Statistics
Matches: 593, Mismatches: 18, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
396 379 0.64
397 116 0.20
398 98 0.17
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (398 bp):
GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTAT
ATATGGATCGACACTTTATGGGTGCACCCTATTTTCCATTCATTCTGGAAAAAAAATATCGACAC
AAACTATATTAGTGTCGACACATTATTTAGACATATTATCTCATAAAACCGGTATAATTGTACCG
GTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTCGGATCGACACTTT
TTATATAT
Found at i:68142 original size:19 final size:19
Alignment explanation
Indices: 68095--68142 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
68085 TTATATTCAC
*
68095 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
68114 ATAC-AAATTATAAATCTT
1 ATACAAAATTATAAATCGT
68132 ATACAAAATTA
1 ATACAAAATTA
68143 ACCCTACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:69969 original size:33 final size:33
Alignment explanation
Indices: 69932--69997 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
69922 CATCTTAATA
*
69932 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
69965 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
69998 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:70056 original size:21 final size:21
Alignment explanation
Indices: 70031--70095 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
70021 CCCCTTATGC
* *
70031 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
70052 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
70073 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
70094 CT
1 CT
70096 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:72343 original size:17 final size:18
Alignment explanation
Indices: 72321--72363 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
72311 ATATATCCGG
72321 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
72338 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
72358 TATCAT
1 TATCAT
72364 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:72534 original size:20 final size:20
Alignment explanation
Indices: 72507--72553 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
72497 TCCGGTAACG
72507 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
72526 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
72547 TTTTACC
1 TTTTACC
72554 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:72606 original size:181 final size:182
Alignment explanation
Indices: 72293--72765 Score: 689
Period size: 181 Copynumber: 2.6 Consensus size: 182
72283 CGTACTTACG
* * *
72293 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * * *
72358 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATTGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
72423 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAATGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATCCTTATATT
* *
72474 AAAGTATCGACACTTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
72539 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * *
72604 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATCCTTATATT
* * * * *
72656 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
72720 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
72766 AATTTGGATC
Statistics
Matches: 262, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 163 0.62
182 98 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATCCTTATATT
Found at i:73233 original size:229 final size:228
Alignment explanation
Indices: 72832--73318 Score: 884
Period size: 229 Copynumber: 2.1 Consensus size: 228
72822 ACCTACTTTT
72832 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
72897 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
72962 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
73027 CAAATATAATAATAAATATGTTTTCAACAGTGAA
196 CAAAGATAATAATAAATATATTTTC-ACAGTGAA
*
73061 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* *
73126 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
73191 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
73256 TAAAGATAATAATAAATATATTTTCACAGTGAA
196 CAAAGATAATAATAAATATATTTTCACAGTGAA
*
73289 ATAAGTATGGACACTTTTATAAAAAGGATA
1 ATAAGTATGGACACTTTTATAAAAATGATA
73319 GATAATTTAC
Statistics
Matches: 249, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
228 37 0.15
229 212 0.85
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:78744 original size:21 final size:21
Alignment explanation
Indices: 78698--78744 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
78688 TAATGATAAT
*
78698 GTGACGATCTACGATAATTAC
1 GTGACGATCTACGATAATGAC
*
78719 ATGACGATCTACGATAATGAC
1 GTGACGATCTACGATAATGAC
78740 GTGAC
1 GTGAC
78745 AATTCATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GTGACGATCTACGATAATGAC
Found at i:79365 original size:21 final size:23
Alignment explanation
Indices: 79339--79386 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
79329 GTCCCCTCAA
* *
79339 AATTAT-ATTAAATTT-TAAGTT
1 AATTATCATAAAATTTATAACTT
79360 AATTATCATAAAATTTATAACTT
1 AATTATCATAAAATTTATAACTT
79383 AATT
1 AATT
79387 TCGACTCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATCATAAAATTTATAACTT
Found at i:80925 original size:5 final size:5
Alignment explanation
Indices: 80898--80942 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
80888 GTATCATGTT
* *
80898 TATAA -ATAA TATATA TATAA TGTAA TGTAA TATAA TATAA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATAA
80943 AAATAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 4 0.11
5 27 0.75
6 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:83418 original size:3 final size:3
Alignment explanation
Indices: 83360--83399 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
83350 TTATTTATTT
83360 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
83400 ATATTAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:83643 original size:2 final size:2
Alignment explanation
Indices: 83636--83688 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
83626 CCATTGACTT
*
83636 TA TA TA TA TA TA TA TA TA TA TA T- TA GA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
83676 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
83689 AAATCAACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83687 original size:13 final size:13
Alignment explanation
Indices: 83636--83688 Score: 90
Period size: 13 Copynumber: 4.2 Consensus size: 13
83626 CCATTGACTT
83636 TATATATATA-TA
1 TATATATATATTA
83648 TATATATATATTA
1 TATATATATATTA
*
83661 GATATATATATTA
1 TATATATATATTA
83674 TATATATATATTA
1 TATATATATATTA
83687 TA
1 TA
83689 AAATCAACAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 10 0.26
13 28 0.74
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATATATATATTA
Found at i:84655 original size:2 final size:2
Alignment explanation
Indices: 84648--84700 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
84638 TCATATTAAA
84648 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84688 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
84701 AGGATGATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 47 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.