Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold242
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: 756895
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:566191 original size:91 final size:91
Alignment explanation
Indices: 566019--566196 Score: 234
Period size: 91 Copynumber: 2.0 Consensus size: 91
566009 TATATTATTT
* * * *
566019 AATGTATCAATACATTTGGGTAAAAAGACAGAATGTATCAATACGTTGAAGAATGTATCGATGCA
1 AATGTATCAATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCAAGAATGTATCGATACA
* * *
566084 TTCATACATGTTTCGATACATTGAAA
66 TTAAAAAATGTTTCGATACATTGAAA
* * *
566110 AATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACATTCATA-CATGTATCGATAC
1 AATGTATCAATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCA-AGAATGTATCGATAC
566174 ATTAAAAAAT-TTATCGATACATT
65 ATTAAAAAATGTT-TCGATACATT
566197 TGGGTAAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
90 2 0.03
91 72 0.96
92 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (91 bp):
AATGTATCAATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCAAGAATGTATCGATACA
TTAAAAAATGTTTCGATACATTGAAA
Found at i:566256 original size:20 final size:20
Alignment explanation
Indices: 566210--566265 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
566200 GTAAAAAGAC
566210 AAAATGTATCGATACATTCA
1 AAAATGTATCGATACATTCA
* * *
566230 TACATGTATCGATACATTGA
1 AAAATGTATCGATACATTCA
*
566250 AAAATGTATCAATACA
1 AAAATGTATCGATACA
566266 CATGGGTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (20 bp):
AAAATGTATCGATACATTCA
Found at i:566581 original size:37 final size:38
Alignment explanation
Indices: 566526--566609 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
566516 GACCTTACAT
*
566526 GCTTTAACTCAAACCTAGGCTGCCATCAACTTGTGTGG
1 GCTTTAACTCAAACCTAGGCTACCATCAACTTGTGTGG
** * * *
566564 GCTTTAACTCGGA-CTAGGTTACCATGAGCTTGTGTGG
1 GCTTTAACTCAAACCTAGGCTACCATCAACTTGTGTGG
566601 GCTTTAACT
1 GCTTTAACT
566610 TAGGTGCTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 29 0.73
38 11 0.28
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (38 bp):
GCTTTAACTCAAACCTAGGCTACCATCAACTTGTGTGG
Found at i:567111 original size:13 final size:13
Alignment explanation
Indices: 567089--567169 Score: 85
Period size: 13 Copynumber: 6.2 Consensus size: 13
567079 ACACAAGTTT
567089 TTCTTGACAAAAG
1 TTCTTGACAAAAG
*
567102 TTCATGACAAAAG
1 TTCTTGACAAAAG
* *
567115 TTTCCTGATGAAAAG
1 -TTCTTGA-CAAAAG
* *
567130 GTCTTGACACAAG
1 TTCTTGACAAAAG
567143 TTCTTGACAAAA-
1 TTCTTGACAAAAG
567155 TTCTTGAC-AAAG
1 TTCTTGACAAAAG
567167 TTC
1 TTC
567170 CTAACAAACG
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
11 3 0.05
12 11 0.20
13 26 0.46
14 11 0.20
15 5 0.09
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (13 bp):
TTCTTGACAAAAG
Found at i:567596 original size:27 final size:28
Alignment explanation
Indices: 567531--567600 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
567521 TCGTCCTGGT
* * *
567531 TCCACTAGGGATTG-GAATTTTCTTGAT
1 TCCACTAGGGATTGTAAATTTTCTAGAC
*
567558 TCCA-TTGAGGATTGTAAATTTTCTAG-C
1 TCCACTAG-GGATTGTAAATTTTCTAGAC
567585 TCCACTAGGGATTGTA
1 TCCACTAGGGATTGTA
567601 GGTTGTCTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
27 22 0.63
28 11 0.31
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (28 bp):
TCCACTAGGGATTGTAAATTTTCTAGAC
Found at i:568582 original size:41 final size:43
Alignment explanation
Indices: 568503--568581 Score: 112
Period size: 40 Copynumber: 1.9 Consensus size: 43
568493 TCATCTAGAC
568503 TTTTTTTTTATTATTTTATACATTTTTTGACATTTTTTTAATT
1 TTTTTTTTTATTATTTTATACATTTTTTGACATTTTTTTAATT
*
568546 TTTTGTTTTTATT-TTTT-TA-A-TTTTTGACCTTTTTTT
1 TTTT-TTTTTATTATTTTATACATTTTTTGACATTTTTTT
568582 TGCGAAAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 15 0.44
41 1 0.03
42 2 0.06
43 8 0.24
44 8 0.24
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (43 bp):
TTTTTTTTTATTATTTTATACATTTTTTGACATTTTTTTAATT
Found at i:572320 original size:166 final size:164
Alignment explanation
Indices: 572123--572538 Score: 494
Period size: 164 Copynumber: 2.5 Consensus size: 164
572113 GAAATTCCTT
* * **
572123 TATTTCCAAAATATAGAGTTTTCTTCTCCGTAAATATTTTTGAGATGATTTTTCTTGGTTTGTAA
1 TATTTTCAAAATATAGAGTTTTCTACTCCGTAAATATTTTTGAGA-GATTTTTCTTGGTTTAAAA
* * *
572188 TTTTTAGAATTCATCAAATATCATCATTTAATTCATAGTTAAGCAGTTTTAAAAAATTCATTTAT
65 TTTTTA-AATTCATCAAATATCATCATTTAATTCATAGTAAAGCAATTTTAAAAAATTCATTAAT
* * *
572253 TTTCATA-AGTTTTTGATTTTTTTCTTGAAATTTTCC
129 TTTCA-AGAGTTTTTCATTTTTTCCTTAAAATTTTCC
** * * * ** *
572289 TATTTTTGAAATACAGAGTTTTCTACTCCGTAAATATTTTTGAGGGGTTTTTCTCAGTTCAAAA-
1 TATTTTCAAAATATAGAGTTTTCTACTCCGTAAATATTTTTGAGAGATTTTTCTTGGTTTAAAAT
* ** *
572353 TTTTAATATTCATCAAATATCATCATTTAGTTCATAGTAAATTAATTTTCAAAAATTCATTAATT
66 TTTTAA-ATTCATCAAATATCATCATTTAATTCATAGTAAAGCAATTTTAAAAAATTCATTAATT
*
572418 TTCAAGAGTTTTTCATTTTTTCCTTAAAATTTTTC
130 TTCAAGAGTTTTTCATTTTTTCCTTAAAATTTTCC
* * * * * *
572453 TATTTTCAAAAAATTGAGTTTTCTATTCTGTAAATGTTTTTGAGGAGATTTTTCTTGATTTAAAA
1 TATTTTCAAAATATAGAGTTTTCTACTCCGTAAATATTTTTGA-GAGATTTTTCTTGGTTTAAAA
*
572518 TTTTTAAAATTCATCTAATAT
65 TTTTT-AAATTCATCAAATAT
572539 TGTCATTAGA
Statistics
Matches: 207, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
163 2 0.01
164 120 0.58
165 28 0.14
166 55 0.27
167 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (164 bp):
TATTTTCAAAATATAGAGTTTTCTACTCCGTAAATATTTTTGAGAGATTTTTCTTGGTTTAAAAT
TTTTAAATTCATCAAATATCATCATTTAATTCATAGTAAAGCAATTTTAAAAAATTCATTAATTT
TCAAGAGTTTTTCATTTTTTCCTTAAAATTTTCC
Found at i:574002 original size:52 final size:51
Alignment explanation
Indices: 573940--574199 Score: 220
Period size: 52 Copynumber: 5.0 Consensus size: 51
573930 AAGGATACAA
* * * * * *
573940 AAAATGATAAAAGTGCTAATATGTTGATTCACGGCTAGCGATATCGGGCTT
1 AAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * * * *
573991 GAAAATGATAAAGGTGCCAATGTGGTAATTCAAGGCCAGTGACATTGGACTT
1 -AAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* ** *
574043 AAAGATGACAAAAGTGCCAATATGCTGATTCAAGGTTAGTGATATTGGACTT
1 AAA-ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
574095 AAGAAAGA-AAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATT-AAGCTT
1 AA-AATGATAAAAG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGA-CTT
* * * * * *
574147 AAGAAAGA-AAATGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGCACTT
1 AA-AATGATAAA-AGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
574199 A
1 A
574200 GAAAGAGATG
Statistics
Matches: 173, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
51 9 0.05
52 161 0.93
53 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (51 bp):
AAAATGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:574311 original size:32 final size:32
Alignment explanation
Indices: 574275--574734 Score: 272
Period size: 32 Copynumber: 14.2 Consensus size: 32
574265 GATGCCATCA
*
574275 ACTTGTGTGGACTTTTAAAAGGGTTGCCACTG
1 ACTTGTGTGGGCTTTTAAAAGGGTTGCCACTG
** *
574307 ACTTGTGTGGGCTTTTGAAGGGGGTTGTCA-TCG
1 ACTTGTGTGGGCTTTT-AAAAGGGTTGCCACT-G
* * * *
574340 ACTTATGTGGGC-TTTAGAAGAAG-TGCCATTG
1 ACTTGTGTGGGCTTTTAAAAG-GGTTGCCACTG
**
574371 ACTTGTGTGGGC-TTTAGAAAGGGGTTGCCACCA
1 ACTTGTGTGGGCTTTTA-AAA-GGGTTGCCACTG
*
574404 ACTTGTGTGGGC-TTTAGAACGGGTTGCCACTG
1 ACTTGTGTGGGCTTTTA-AAAGGGTTGCCACTG
* *
574436 ACTTGTGTGGGCTTTAAAAGAGGGTTGCCATTG
1 ACTTGTGTGGGCTTTTAAA-AGGGTTGCCACTG
* * * * **
574469 ACTCGTGTGGAC-TTTATAAGGGGTTGTCACCA
1 ACTTGTGTGGGCTTTTA-AAAGGGTTGCCACTG
* **
574501 ACTTATGTGGGC-TTTAGAGGGGGTTGCCAGC-G
1 ACTTGTGTGGGCTTTTA-AAAGGGTTGCCA-CTG
* *
574533 ACTTGTGTGGGCTTTT-GAAGAGGTTGCCAC-C
1 ACTTGTGTGGGCTTTTAAAAG-GGTTGCCACTG
* * **
574564 AGTTTATGTGGGC-TTTAGAGAAGGG-TGCCACCA
1 A-CTTGTGTGGGCTTTTA-A-AAGGGTTGCCACTG
* *
574597 ACTTGTGTGGGCGTTTCAAAA-GGTTTCCACT-
1 ACTTGTGTGGGC-TTTTAAAAGGGTTGCCACTG
574628 AGCTTGTGTGGG-TTTTAGAGAAGGGTTGCCACTG
1 A-CTTGTGTGGGCTTTTA-A-AAGGGTTGCCACTG
* * *
574662 GCTTGTGTAGGTTTTTGAAGAA--GTTGCCACT-
1 ACTTGTGTGGGCTTTT-AA-AAGGGTTGCCACTG
* * *
574693 AGCTTGTGTGGGCTTTAAAGAATGGTTGCCACTT
1 A-CTTGTGTGGGCTTTTAA-AAGGGTTGCCACTG
574727 ACTTGTGT
1 ACTTGTGT
574735 AGGTTTAAAG
Statistics
Matches: 337, Mismatches: 59, Indels: 63
0.73 0.13 0.14
Matches are distributed among these distances:
30 4 0.01
31 37 0.11
32 165 0.49
33 115 0.34
34 15 0.04
35 1 0.00
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.33
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTTAAAAGGGTTGCCACTG
Found at i:574373 original size:64 final size:65
Alignment explanation
Indices: 574267--574709 Score: 363
Period size: 64 Copynumber: 6.9 Consensus size: 65
574257 TAGAAGGAGA
* * * *
574267 TGCCATCAACTTGTGTGGACTTTTAAAAG-GGTTGCCACTGACTTGTGTGGGCTTTTGAAGGGGG
1 TGCCATCGACTTGTGTGGGC-TTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGGG
574331 T
65 T
* * * * *
574332 TGTCATCGACTTATGTGGGCTTTAGAAGAAG-TGCCATTGACTTGTGTGGGCTTTAGAAAGGGGT
1 TGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGGGT
* * * *
574396 TGCCACCAACTTGTGTGGGCTTTAGAACG-GGTTGCCACTGACTTGTGTGGGCTTTAAAAGAGGG
1 TGCCATCGACTTGTGTGGGCTTTAGAA-GAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGGG
574460 T
65 T
* * * * * * ** *
574461 TGCCATTGACTCGTGTGGACTTTATAAGGGGTTGTCACCAACTTATGTGGGCTTTAG-AGGGGGT
1 TGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGGGT
* * * * * *
574525 TGCCAGCGACTTGTGTGGGCTTTTGAAGAGGTTGCCAC-CAGTTTATGTGGGCTTTAG-AGAAGG
1 TGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGA-CTTGTGTGGGCTTTAGAAG-GGG
574588 G-
64 GT
* * * * *
574589 TGCCACCAACTTGTGTGGGCGTTTCA-AA-AGGTTTCCACT-AGCTTGTGTGGGTTTTAG-AGAA
1 TGCCATCGACTTGTGTGGGC-TTT-AGAAGAGGTTGCCACTGA-CTTGTGTGGGCTTTAGAAG-G
574650 GGGT
62 GGGT
* * * * *
574654 TGCCA-CTGGCTTGTGTAGGTTTTTGAAGAAGTTGCCACT-AGCTTGTGTGGGCTTTA
1 TGCCATC-GACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGA-CTTGTGTGGGCTTTA
574710 AAGAATGGTT
Statistics
Matches: 309, Mismatches: 56, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
63 1 0.00
64 170 0.55
65 138 0.45
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (65 bp):
TGCCATCGACTTGTGTGGGCTTTAGAAGAGGTTGCCACTGACTTGTGTGGGCTTTAGAAGGGGGT
Found at i:574524 original size:129 final size:128
Alignment explanation
Indices: 574267--574562 Score: 342
Period size: 129 Copynumber: 2.3 Consensus size: 128
574257 TAGAAGGAGA
* * * ** *
574267 TGCCATCAACTTGTGTGGACTTTTAAAAGGGTTGCCACTGACTTGTGTGGGCTTTTGAAGGGGGT
1 TGCCACCAACTTGTGTGGGC-TTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAGAGGGT
* * * *** *
574332 TGTCATCGACTTATGTGGGCTTTAGAAGAAGTGCCATTGACTTGTGTGGGCTTTAGAAAGGGGT
65 TGCCATCGACTCATGTGGACTTTAGAAGAAGTGCCACCAACTTATGTGGGCTTTAGAAAGGGGT
574396 TGCCACCAACTTGTGTGGGCTTTAGAACGGGTTGCCACTGACTTGTGTGGGCTTTAAAAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAA-GGGTTGCCACTGACTTGTGTGGGCTTTAAAAGAGGGT
* * * ** * *
574461 TGCCATTGACTCGTGTGGACTTTATAAGGGGTTGTCACCAACTTATGTGGGCTTTAG-AGGGGGT
65 TGCCATCGACTCATGTGGACTTTAGAAGAAG-TGCCACCAACTTATGTGGGCTTTAGAAAGGGGT
* * *
574525 TGCCAGCGACTTGTGTGGGCTTTTGAAGAGGTTGCCAC
1 TGCCACCAACTTGTGTGGGCTTTAGAAG-GGTTGCCAC
574563 CAGTTTATGT
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
128 7 0.05
129 114 0.81
130 20 0.14
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (128 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAGAGGGTT
GCCATCGACTCATGTGGACTTTAGAAGAAGTGCCACCAACTTATGTGGGCTTTAGAAAGGGGT
Found at i:574589 original size:129 final size:127
Alignment explanation
Indices: 574371--574724 Score: 333
Period size: 129 Copynumber: 2.7 Consensus size: 127
574361 AGTGCCATTG
* * *
574371 ACTTGTGTGGGCTTTAGAAAGGGGTTGCCACCAACTTGTGTGGGCTTTAGAACG-GGTTGCCA-C
1 ACTTGTGTGGGCTTTAG-AGGGGGTTGCCA-CGACTTGTGTGGGCTTTTGAA-GAGGTTGCCACC
* * *** *
574434 TGACTTGTGTGGGCTTTAAAAGAGGGTTGCCATTGACTCGTGTGGAC-TTT-ATAAGGGGTTGT-
63 AG-CTTGTGTGGGCTTTAAGA-AGGGTTGCCACCAACTCGTGTGGACGTTTCA-AA-AGGTT-TC
574496 CACCA
123 CACCA
*
574501 ACTTATGTGGGCTTTAGAGGGGGTTGCCAGCGACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAG
1 ACTTGTGTGGGCTTTAGAGGGGGTTGCCA-CGACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAG
* * * * *
574566 TTTATGTGGGCTTTAGAGAAGGG-TGCCACCAACTTGTGTGGGCGTTTCAAAAGGTTTCCACTA
65 CTTGTGTGGGCTTTA-AGAAGGGTTGCCACCAACTCGTGTGGACGTTTCAAAAGGTTTCCACCA
* * * * * * * *
574629 GCTTGTGTGGGTTTTAGAGAAGGGTTGCCACTGGCTTGTGTAGGTTTTTGAAGAAGTTGCCACTA
1 ACTTGTGTGGGCTTTAGAG-GGGGTTGCCAC-GACTTGTGTGGGCTTTTGAAGAGGTTGCCACCA
*
574694 GCTTGTGTGGGCTTTAAAGAATGGTTGCCAC
64 GCTTGTGTGGGCTTT-AAGAAGGGTTGCCAC
574725 TTACTTGTGT
Statistics
Matches: 186, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
127 1 0.01
128 41 0.22
129 116 0.62
130 28 0.15
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (127 bp):
ACTTGTGTGGGCTTTAGAGGGGGTTGCCACGACTTGTGTGGGCTTTTGAAGAGGTTGCCACCAGC
TTGTGTGGGCTTTAAGAAGGGTTGCCACCAACTCGTGTGGACGTTTCAAAAGGTTTCCACCA
Found at i:574742 original size:32 final size:32
Alignment explanation
Indices: 574616--574746 Score: 117
Period size: 33 Copynumber: 4.1 Consensus size: 32
574606 GGCGTTTCAA
* * *
574616 AAGGTTTCCAC-TAGCTTGTGTGGGTTTTAGAG
1 AAGGTTGCCACTTA-CTTGTGTAGGTTTTAAAG
** *
574648 AAGGGTTGCCACTGGCTTGTGTAGGTTTTTGAAG
1 AA-GGTTGCCACTTACTTGTGTAGG-TTTTAAAG
* *
574682 AA-GTTGCCAC-TAGCTTGTGTGGGCTTTAAAG
1 AAGGTTGCCACTTA-CTTGTGTAGGTTTTAAAG
574713 AATGGTTGCCACTTACTTGTGTAGG-TTTAAAG
1 AA-GGTTGCCACTTACTTGTGTAGGTTTTAAAG
574745 AA
1 AA
574747 AAAAATGTGC
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
31 8 0.10
32 28 0.35
33 34 0.43
34 10 0.12
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (32 bp):
AAGGTTGCCACTTACTTGTGTAGGTTTTAAAG
Found at i:574818 original size:34 final size:33
Alignment explanation
Indices: 574761--574878 Score: 132
Period size: 34 Copynumber: 3.6 Consensus size: 33
574751 ATGTGCCACG
*
574761 GAGTTGTGGAC-TTAAAAGCAAAAGGGTGCCATA
1 GAGTTGTGGACTTTAAAAG-AAAAGGGTACCATA
* * * *
574794 GAGTTGTGGACTTTAAAAGAAAAAGAGTTCCGTG
1 GAGTTGTGGACTTTAAAAG-AAAAGGGTACCATA
* *
574828 GAGTTGTGGACTTTAAAAGAAAAGGATACCAAA
1 GAGTTGTGGACTTTAAAAGAAAAGGGTACCATA
*
574861 GAGTTGTGGA-GTTAAAAG
1 GAGTTGTGGACTTTAAAAG
574879 GGTGCCACAA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
32 7 0.10
33 29 0.40
34 36 0.50
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (33 bp):
GAGTTGTGGACTTTAAAAGAAAAGGGTACCATA
Found at i:583658 original size:20 final size:19
Alignment explanation
Indices: 583590--583659 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
583580 AAAAACCCAA
* * *
583590 AATGTATCAATACAATGAGG
1 AATGTATCGATACATTTA-G
583610 AATGTATCGATACAATTATAAG
1 AATGTATCGATAC-ATT-T-AG
*
583632 CATGTATCGATACATTTAG
1 AATGTATCGATACATTTAG
583651 TAATGTATC
1 -AATGTATC
583660 ATTATATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.05
20 20 0.49
21 5 0.12
22 13 0.32
23 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTTAG
Found at i:583734 original size:19 final size:20
Alignment explanation
Indices: 583706--583759 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
583696 ATCAATACAT
*
583706 TGTATTGATACAAAACT-TA
1 TGTATCGATACAAAACTATA
** *
583725 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACTATA
583746 TGTATCGATACAAA
1 TGTATCGATACAAA
583760 TTGCAAAAAG
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
TGTATCGATACAAAACTATA
Found at i:587617 original size:27 final size:27
Alignment explanation
Indices: 587586--587638 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
587576 TTAATTGTAG
587586 TTGAAAGGATAAGGTTAGAGTATCCCT
1 TTGAAAGGATAAGGTTAGAGTATCCCT
** *
587613 TTGAAAGGATGGGGTTGGAGTATCCC
1 TTGAAAGGATAAGGTTAGAGTATCCC
587639 CGTGGATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.28
Consensus pattern (27 bp):
TTGAAAGGATAAGGTTAGAGTATCCCT
Found at i:589979 original size:13 final size:13
Alignment explanation
Indices: 589961--589995 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
589951 ACTTTTTACT
589961 ATGTATCCATACA
1 ATGTATCCATACA
*
589974 ATGTATCGATACA
1 ATGTATCCATACA
589987 ATGTA-CCAT
1 ATGTATCCAT
589996 GAATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (13 bp):
ATGTATCCATACA
Found at i:590816 original size:19 final size:19
Alignment explanation
Indices: 590785--590822 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
590775 TTCTTTGTTT
590785 TTTTAAAAGAAAATCTCTC
1 TTTTAAAAGAAAATCTCTC
*
590804 TTTTATAAA-AAAATTTCTC
1 TTTTA-AAAGAAAATCTCTC
590823 CCCTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.13, G:0.03, T:0.42
Consensus pattern (19 bp):
TTTTAAAAGAAAATCTCTC
Found at i:591041 original size:16 final size:16
Alignment explanation
Indices: 591020--591055 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
591010 TTCATTAAGA
*
591020 AAAGTTAAATACAAGC
1 AAAGTTAAAAACAAGC
591036 AAAGTTAAAAACAAGC
1 AAAGTTAAAAACAAGC
591052 AAAG
1 AAAG
591056 AAATAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAGTTAAAAACAAGC
Found at i:592740 original size:31 final size:32
Alignment explanation
Indices: 592703--592778 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
592693 GTATCCATAT
**
592703 AATGTATTGATAC-AATATCCTTGTATACCCA
1 AATGTATCAATACTAATATCCTTGTATACCCA
592734 AATGTATCAATACTAATATCCTTGTATACCTC-
1 AATGTATCAATACTAATATCCTTGTATACC-CA
*
592766 GATGTATCAATAC
1 AATGTATCAATAC
592779 ATTTTGGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.28
32 28 0.70
33 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (32 bp):
AATGTATCAATACTAATATCCTTGTATACCCA
Found at i:595946 original size:92 final size:94
Alignment explanation
Indices: 595795--596035 Score: 346
Period size: 92 Copynumber: 2.6 Consensus size: 94
595785 GCCCAGTTCC
* * * * *
595795 CCCTTTCCATGTTGT-CCATGTGCTGCACATTTTTTCTTGCTATTACACGTTGCTTGTTGCATGT
1 CCCTCTCCATGCTGTCCCACGTGCTGCACATTTCTTCTTGCT-TTGCACGTTGCTTGTTGCATGT
*
595859 TTTATCTTCTATTG-AATT-TTTT-AATCA
65 TTTATCTCCTATTGCAATTCTTTTAAATCA
* *
595886 CCCTCTCCATGCTGTCCCACGTGCTTGCACGTTTCTTCTTGCTTTGCACGTTGTTTGTTGCATGT
1 CCCTCTCCATGCTGTCCCACGTGC-TGCACATTTCTTCTTGCTTTGCACGTTGCTTGTTGCATGT
*
595951 TTTATCTCCTATTGCATTTCTTTTAAATCA
65 TTTATCTCCTATTGCAATTCTTTTAAATCA
*
595981 CCCTCTCCATGCTGTCCCACGTGCTGCACATTTCTTCTTGCTTTGCGCGTTGCTT
1 CCCTCTCCATGCTGTCCCACGTGCTGCACATTTCTTCTTGCTTTGCACGTTGCTT
596036 TTGTTCATTT
Statistics
Matches: 133, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
91 13 0.10
92 40 0.30
93 19 0.14
94 32 0.24
95 29 0.22
ACGTcount: A:0.13, C:0.27, G:0.15, T:0.45
Consensus pattern (94 bp):
CCCTCTCCATGCTGTCCCACGTGCTGCACATTTCTTCTTGCTTTGCACGTTGCTTGTTGCATGTT
TTATCTCCTATTGCAATTCTTTTAAATCA
Found at i:596708 original size:14 final size:14
Alignment explanation
Indices: 596682--596754 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
596672 AATTAATTAT
596682 TATTTTTATATTTTA
1 TATTTTTA-ATTTTA
*
596697 TATTTTTGATTTT-
1 TATTTTTAATTTTA
** * *
596710 T-TGATTGATTTTT
1 TATTTTTAATTTTA
*
596723 TCATTTTTAATTTTT
1 T-ATTTTTAATTTTA
*
596738 TATTTTCAATTTTA
1 TATTTTTAATTTTA
596752 TAT
1 TAT
596755 AAAAAATAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
12 9 0.19
13 2 0.04
14 19 0.40
15 17 0.36
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (14 bp):
TATTTTTAATTTTA
Found at i:601439 original size:3 final size:3
Alignment explanation
Indices: 601431--601462 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
601421 GCCAACCACT
*
601431 TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
601463 TTTGATGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:603238 original size:20 final size:21
Alignment explanation
Indices: 603215--603253 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
603205 CAAAGCAATT
603215 TGTATCGATAC-TTCTAGGTC
1 TGTATCGATACTTTCTAGGTC
603235 TGTATCGATACTTTCTAGG
1 TGTATCGATACTTTCTAGG
603254 GTTTTGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGTC
Found at i:611137 original size:21 final size:21
Alignment explanation
Indices: 611093--611149 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
611083 GCCAAGGGAA
*
611093 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
*
611113 TGTATCGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
611134 TGTATCGATACATCTA
1 TGTATCGATACATCTA
611150 GGAAGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:613544 original size:51 final size:52
Alignment explanation
Indices: 613488--613874 Score: 274
Period size: 53 Copynumber: 7.4 Consensus size: 52
613478 AATTCTCCAC
* * *
613488 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACCCTAATTTTCT-AT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACCCTAATTTTCTCAT
* *
613539 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACC-AA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAAC-CCTAATTTTC-TCAT
* * * * * *** * *
613593 AATCGGGGATACTCCAACCCCG--TTAATCATCGAGGATACTCTAACCCTGTTAT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA--AAACCCTAATTTTCTCAT
* * *** *
613646 -TTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTT-TCAT
1 AAT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACCCTAATTTTCTCAT
* * * * *
613699 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACCCTAA-TTTTCTCAT
* * *
613752 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACC-AATTTTC-CTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAC-CCTAATTTTCTC-AT
* *
613804 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACC-AATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAC-CCTAATTTTCTCAT
*
613856 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
613875 TCGTTATTTC
Statistics
Matches: 264, Mismatches: 50, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
51 66 0.25
52 65 0.25
53 76 0.29
54 32 0.12
55 18 0.07
56 3 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACCCTAATTTTCTCAT
Found at i:613624 original size:27 final size:28
Alignment explanation
Indices: 613594--613669 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
613584 TTTCTTCACA
613594 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* * * *
613621 ATCGAGGATACTCTAACCCTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
613649 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
613670 ACTTTATTTC
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:613780 original size:104 final size:104
Alignment explanation
Indices: 613488--613874 Score: 294
Period size: 104 Copynumber: 3.7 Consensus size: 104
613478 AATTCTCCAC
* * * *
613488 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAAC-CCTAA-TTTTCTATAATCGGGGATA
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACC-AATTTTTC-ACAATCGGGGATA
* * * *
613550 CTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
64 CTCCAACCCCGACTTTATTTCC--AAAACACCAATTTTCCT-AT
* * * ** *
613593 AATCGGGGATACTCCAACCCCG--TTAATCATCGAGGATACTCTAAC-CCTGTTATTTC-CGA--
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA--A-A----AACACCAATT-TTTCACAATC
* *** *
613652 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-AT
57 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTAT
* * *
613699 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTTTCACAATCGGGGATA
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAA--TTTTTCACAATCGGGGATA
** * *
613763 CTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
64 CTCCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTAT
* *
613804 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACT
613869 CCAACC
66 CCAACC
613875 TCGTTATTTC
Statistics
Matches: 218, Mismatches: 42, Indels: 45
0.71 0.14 0.15
Matches are distributed among these distances:
99 3 0.01
100 1 0.00
101 4 0.02
102 4 0.02
103 5 0.02
104 65 0.30
105 48 0.22
106 36 0.17
107 7 0.03
108 7 0.03
109 27 0.12
111 1 0.00
112 6 0.03
113 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (104 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACT
CCAACCCCGACTTTATTTCCAAAACACCAATTTTCCTAT
Found at i:613831 original size:52 final size:52
Alignment explanation
Indices: 613488--613874 Score: 256
Period size: 51 Copynumber: 7.4 Consensus size: 52
613478 AATTCTCCAC
* * * *
613488 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAAC-CCTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACC-AATTTTCTTT
* *
613539 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAAACACCAATTTTCTT--T
* * * * * * * * *
613593 AATCGGGGATACTCCAACCCCG--TTAATCATCGAGGATACTCTAACCCTGTTATTT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCA-AAAACACCAA---TTTTCTTT
**** * * *** *
613648 CCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTT-TCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCT-TT
* * *
613699 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTT-TTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCTTT
* *
613749 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 ---AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTT-CTTT
* **
613804 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCT-TT
*
613856 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
613875 TCGTTATTTC
Statistics
Matches: 263, Mismatches: 50, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
50 5 0.02
51 71 0.27
52 57 0.22
53 69 0.26
54 30 0.11
55 21 0.08
56 2 0.01
57 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTCTTT
Found at i:613893 original size:28 final size:30
Alignment explanation
Indices: 613857--613933 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 30
613847 ATTTTTCACA
* *
613857 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
613885 ATCGGGGATACTCCAACCCCGTTACTTTCG
1 ATCGGGGATACTCCAACCCCGTTACTTTCG
613915 A--GGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
613934 ACTTTATTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 40 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACTTTCG
Found at i:613955 original size:264 final size:264
Alignment explanation
Indices: 613485--613984 Score: 819
Period size: 264 Copynumber: 1.9 Consensus size: 264
613475 CTCAATTCTC
* *
613485 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACCCTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACCCTAATTTTCTATAATCGGGGATA
*
613550 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* * *
613615 TTAATCATCGAGGATACTCTAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
*
613680 CAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTT
196 CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTT
613745 TTTT
261 TTTT
* *
613749 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACC-AATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAC-CCTAATTTT-CTATAATCGGGGA
*
613813 TACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCACAATCGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
613876 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCCAACCCCGACTTTA
129 CGTTA-ATCATCGAGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCCAACCCCGACTTTA
*
613940 TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
192 TTCCCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
613985 TTATTTTCGA
Statistics
Matches: 219, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
263 28 0.13
264 150 0.68
265 41 0.19
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (264 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACCCTAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTT
TTTT
Found at i:614000 original size:107 final size:107
Alignment explanation
Indices: 613808--614012 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
613798 TCCTTTAATC
* * *
613808 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
*
613873 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTTCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTTCGA
* * *** * * *
613916 GGGGATACTCCAACCCCGACTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
*
613980 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
614013 ATTTTTTTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 57 0.70
108 22 0.27
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTTCGA
Found at i:614066 original size:78 final size:79
Alignment explanation
Indices: 613885--614090 Score: 256
Period size: 78 Copynumber: 2.6 Consensus size: 79
613875 TCGTTATTTC
* *
613885 ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
* *
613950 ATTGATTTCTCATA
66 ATCGATTTCTCACA
* * * ** *
613964 ATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGA-TTTTTTTTC-TAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
614027 CATCGATTTCTCACA
66 -ATCGATTTCTCACA
* * *
614042 ATCGGGGATACTCTAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
614091 TTATTATCTC
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
77 8 0.07
78 56 0.51
79 46 0.42
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT
ATCGATTTCTCACA
Found at i:626488 original size:1 final size:1
Alignment explanation
Indices: 626482--626534 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
626472 CCTTCTCTTC
* * * * * *
626482 AAAAAAAAACAAAAAAAAAACAAAAAAACAAAACAAAGAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
626535 TCTGCTTAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:626496 original size:10 final size:10
Alignment explanation
Indices: 626481--626534 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
626471 ACCTTCTCTT
626481 CAAAAAAAAA
1 CAAAAAAAAA
626491 CAAAAAAAAA
1 CAAAAAAAAA
*
626501 -ACAAAAAAA
1 CAAAAAAAAA
*
626510 C-AAAACAAA
1 CAAAAAAAAA
*
626519 GAAAAAAAAA
1 CAAAAAAAAA
*
626529 GAAAAA
1 CAAAAA
626535 TCTGCTTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 14 0.38
10 23 0.62
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (10 bp):
CAAAAAAAAA
Found at i:626508 original size:19 final size:18
Alignment explanation
Indices: 626482--626534 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
626472 CCTTCTCTTC
626482 AAAAAAAAACAAAAAAAA
1 AAAAAAAAACAAAAAAAA
*
626500 AACAAAAAAACAAAACAAAG
1 AA-AAAAAAACAAAA-AAAA
*
626520 AAAAAAAAAGAAAAA
1 AAAAAAAAACAAAAA
626535 TCTGCTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 3 0.10
19 23 0.74
20 5 0.16
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAA
Found at i:627712 original size:59 final size:59
Alignment explanation
Indices: 627501--628168 Score: 1058
Period size: 59 Copynumber: 11.3 Consensus size: 59
627491 TCCGCTTTTT
* **
627501 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * **
627562 AGTCCTCAAAGAGCAGGACACCTTTTTCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
627623 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
627682 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
627741 AGTCCTCCAAGAGTAGGACGCCTTTTCTTTTAAAGCCCACACATGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
627800 AGTCCTCAAAGAGCGGGACCCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
627859 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
627918 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
627977 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
628036 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACATGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
628096 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
628151 AGTCCTCAAAGAGTAGGA
1 AGTCCTCAAAGAGCAGGA
628169 TACACTTTAT
Statistics
Matches: 580, Mismatches: 25, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
55 41 0.07
59 401 0.69
60 58 0.10
61 80 0.14
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:628826 original size:13 final size:13
Alignment explanation
Indices: 628808--628833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
628798 CATTTTTCTG
628808 TGTATCGATACAT
1 TGTATCGATACAT
628821 TGTATCGATACAT
1 TGTATCGATACAT
628834 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:628851 original size:34 final size:33
Alignment explanation
Indices: 628788--628854 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
628778 GCCAAGGGAA
*
628788 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
628821 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
628855 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:631064 original size:51 final size:52
Alignment explanation
Indices: 631008--631393 Score: 263
Period size: 53 Copynumber: 7.3 Consensus size: 52
630998 AATTCTCCAC
* * *
631008 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
631059 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCAT
* * * *** * * * *
631113 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCTGTT-AT
1 AATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA--TTTTTCAT
* * * * ***
631166 -TTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTTCAT
1 AAT-C--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
* * * * * *
631219 AATCTGGGATACTCCAAC-CTCGGTTTTA-TTGCTAAAACACTAATTTTTTTCAC
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAA--TTTTTCAT
* * * *
631272 AATCGGGGATACTCCAAC-CTCGGTTTTATTTTC-AAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTC-AT
*
631324 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
*
631376 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
631394 CTCGTTATTT
Statistics
Matches: 263, Mismatches: 49, Indels: 45
0.74 0.14 0.13
Matches are distributed among these distances:
50 4 0.02
51 62 0.24
52 54 0.21
53 82 0.31
54 33 0.13
55 22 0.08
56 2 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:631144 original size:27 final size:28
Alignment explanation
Indices: 631114--631189 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
631104 TTTCTTCACA
631114 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
631141 ATCGGGGATACTCCAACCCTGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
631169 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
631190 ACTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:631300 original size:104 final size:104
Alignment explanation
Indices: 631172--631397 Score: 260
Period size: 104 Copynumber: 2.2 Consensus size: 104
631162 TTATTTCCGA
* * *** * *
631172 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTC-ATAATCTGGGATACTCCAA
1 GGGGATACTCCAACCTCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
* * * *
631236 C-CTCGGTTTTA-TTGCTAAAACACTAATTTTTTTCACAATC
66 CTC-CGATTTTATTTCCAAAAACACCAA--TTTTTCACAATC
** * *
631276 GGGGATACTCCAACCTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGGATACTCCAACCTCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
631341 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
66 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
*
631380 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
631398 TTATTTCATC
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
104 65 0.63
105 25 0.24
106 13 0.13
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (104 bp):
GGGGATACTCCAACCTCGACTTTATTTCCAAAACACCAATTTTCCTATAATCGGGGATACTCCAA
CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
Found at i:631413 original size:28 final size:28
Alignment explanation
Indices: 631377--631453 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
631367 ATTTTTCACA
* * *
631377 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
631405 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
631433 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
631454 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:631475 original size:264 final size:264
Alignment explanation
Indices: 631005--631501 Score: 822
Period size: 264 Copynumber: 1.9 Consensus size: 264
630995 CTCAATTCTC
* *
631005 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
*
631070 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
* * *
631135 TTAATCATCGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTC
131 TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
*
631200 CAAAATATTGATTTTTCATAATCT-GGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATT
196 CAAAATATTGATTTCTCATAAT-TGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATT
631264 TTTTT
260 TTTTT
* *
631269 CACAATCGGGGATACTCCAAC-CTCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 CACAATCGGGGATACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGA
*
631333 TACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TTCACAATCGAGGATACTCCAACCT
64 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
631396 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTAT
129 CGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTAT
631461 TCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
193 TCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
631502 CTGTTATTTT
Statistics
Matches: 217, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
263 30 0.14
264 151 0.70
265 36 0.17
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (264 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
TTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTCC
CAAAATATTGATTTCTCATAATTGGGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTT
TTTT
Found at i:636899 original size:13 final size:13
Alignment explanation
Indices: 636881--636907 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
636871 AAGGAAAGTG
636881 TTAATGATGTCCA
1 TTAATGATGTCCA
636894 TTAATGATGTCCA
1 TTAATGATGTCCA
636907 T
1 T
636908 GAACCTATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTAATGATGTCCA
Found at i:638875 original size:33 final size:33
Alignment explanation
Indices: 638833--638905 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
638823 TACGTCGGTT
638833 AAGTGAACTAAAGTGCTCATCCACGCGCTGTGA
1 AAGTGAACTAAAGTGCTCATCCACGCGCTGTGA
*
638866 AAGTGAACTAAAGTGCTCATCCATGCGCTGTGA
1 AAGTGAACTAAAGTGCTCATCCACGCGCTGTGA
638899 AAGTGAA
1 AAGTGAA
638906 GTGATCAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (33 bp):
AAGTGAACTAAAGTGCTCATCCACGCGCTGTGA
Found at i:640407 original size:13 final size:13
Alignment explanation
Indices: 640389--640425 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
640379 GTAACCCATA
*
640389 TATCGATACATTG
1 TATCGATACAATG
640402 TATCGATACAATG
1 TATCGATACAATG
*
640415 TATCAATACAA
1 TATCGATACAA
640426 AGAACATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:646728 original size:20 final size:19
Alignment explanation
Indices: 646699--646758 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
646689 TAGTTACTGC
646699 CAAT-TTCATGTATCGATA
1 CAATGTTCATGTATCGATA
* *
646717 CATTTGTTCATGTAGCGATA
1 CA-ATGTTCATGTATCGATA
*
646737 CAATGTACATGTATCGATA
1 CAATGTTCATGTATCGATA
646756 CAA
1 CAA
646759 AGCATAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 2 0.06
19 18 0.51
20 15 0.43
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
CAATGTTCATGTATCGATA
Found at i:654638 original size:15 final size:15
Alignment explanation
Indices: 654618--654655 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
654608 TTATCTAGTC
654618 TTGTTTTGTTTCATT
1 TTGTTTTGTTTCATT
*
654633 TTGTTTTGTTTTATT
1 TTGTTTTGTTTCATT
*
654648 TTATTTTG
1 TTGTTTTG
654656 CTCGAGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.03, G:0.13, T:0.76
Consensus pattern (15 bp):
TTGTTTTGTTTCATT
Found at i:654643 original size:20 final size:20
Alignment explanation
Indices: 654618--654655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
654608 TTATCTAGTC
*
654618 TTGTTTTGTTTCATTTTGTT
1 TTGTTTTATTTCATTTTGTT
*
654638 TTGTTTTATTTTATTTTG
1 TTGTTTTATTTCATTTTG
654656 CTCGAGAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.13, T:0.76
Consensus pattern (20 bp):
TTGTTTTATTTCATTTTGTT
Found at i:658429 original size:2 final size:2
Alignment explanation
Indices: 658422--658458 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
658412 CAAGATGCAT
658422 TA TA TA TA 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 TA TA TA TA T
658459 CATCAATCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:674923 original size:56 final size:56
Alignment explanation
Indices: 674862--675085 Score: 165
Period size: 57 Copynumber: 3.9 Consensus size: 56
674852 CCTAATATGT
* *
674862 ATGAAATTGCATAAGGTTCCTATATCATGGAAAATAACTAAAAT-GATATAAAAATG-
1 ATGAAATTGCATAAAGTTCCTA-ATCATGAAAAATAACTAAAATGGATATAAAAA-GC
* * *
674918 ATGAAATGGCATAAAAGTTCCTAATCATGAAAAATTACTAAAATGGCTATAAAAAGC
1 ATGAAATTGCAT-AAAGTTCCTAATCATGAAAAATAACTAAAATGGATATAAAAAGC
* * * * * *
674975 ATGAAATTGTATAAAAG-TCTTTAATTTATGGAAAATGACTAAAACT-G-T-TCAAAAATC
1 ATGAAATTGCAT-AAAGTTC-CTAA-TCATGAAAAATAACTAAAA-TGGATAT-AAAAAGC
* * * * *
675032 ACGAAATTACATAATAGTCCCTAATTCATGAAAAACAGCTAAAAT-GATATAAAA
1 ATGAAATTGCATAA-AGTTCCTAA-TCATGAAAAATAACTAAAATGGATATAAAA
675086 TGTGTGAAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
56 38 0.28
57 77 0.57
58 19 0.14
59 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (56 bp):
ATGAAATTGCATAAAGTTCCTAATCATGAAAAATAACTAAAATGGATATAAAAAGC
Found at i:675218 original size:58 final size:58
Alignment explanation
Indices: 674886--675250 Score: 255
Period size: 58 Copynumber: 6.3 Consensus size: 58
674876 GGTTCCTATA
* * * ** *
674886 TCATGGAAAATAACTAAAATGA-TATAAAA-ATGATGAAATGGCATAAAAGTTCCTAA-
1 TCATGAAAAATGACTAAAATGATTATAAAATA-CATGAAATTACATAAAAGTCCCTAAT
* ** ** **
674942 TCATGAAAAATTACTAAAATGGCTATAAAA-AGCATGAAATTGTATAAAAGTCTTTAAT
1 TCATGAAAAATGACTAAAATGATTATAAAATA-CATGAAATTACATAAAAGTCCCTAAT
* * * *
675000 TTATGGAAAATGACTAAAACTG-TTCA-AAAAT-CACGAAATTACATAATAGTCCCTAAT
1 TCATGAAAAATGACTAAAA-TGATT-ATAAAATACATGAAATTACATAAAAGTCCCTAAT
* *** * * *
675057 TCATGAAAAA-CAGCTAAAATGA-TATAAAATGTGTGAAATGACATAAAAAGTCCCCAAG
1 TCATGAAAAATGA-CTAAAATGATTATAAAATACATGAAATTACAT-AAAAGTCCCTAAT
** * ** * * * *
675115 TCACAAAAAATGACTAAAATGCAAT-TAAAATGTATGAAATGACATAAAAATCCTTAAG
1 TCATGAAAAATGACTAAAATG-ATTATAAAATACATGAAATTACATAAAAGTCCCTAAT
* * **
675173 TCATGAAAAATGACTAAAATGATTCTAAAATACATGTAATTACATAATTGTCCCTAAT
1 TCATGAAAAATGACTAAAATGATTATAAAATACATGAAATTACATAAAAGTCCCTAAT
675231 TCATGAAAAATGACATAAAA
1 TCATGAAAAATGAC-TAAAA
675251 ATGTATGAAA
Statistics
Matches: 245, Mismatches: 49, Indels: 27
0.76 0.15 0.08
Matches are distributed among these distances:
55 1 0.00
56 28 0.11
57 72 0.29
58 114 0.47
59 29 0.12
60 1 0.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (58 bp):
TCATGAAAAATGACTAAAATGATTATAAAATACATGAAATTACATAAAAGTCCCTAAT
Found at i:675979 original size:14 final size:14
Alignment explanation
Indices: 675942--675983 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
675932 AAGCTATCCC
675942 TCTTCCTTTCATTATTT
1 TCTTCCTTT--TT-TTT
675959 T-TTCCTTTTTTTT
1 TCTTCCTTTTTTTT
675972 TCTTCCTTTTTT
1 TCTTCCTTTTTT
675984 GCTCTTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 12 0.50
16 7 0.29
17 1 0.04
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (14 bp):
TCTTCCTTTTTTTT
Found at i:677925 original size:354 final size:354
Alignment explanation
Indices: 677259--678320 Score: 1800
Period size: 354 Copynumber: 3.0 Consensus size: 354
677249 TTTACCTTTA
* *
677259 ACCTTAGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCACGCTAGAATCCAAGAGCACTCTA
1 ACCTTGGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCATGCTAGAATCCAAGAGCACTCTA
* * *
677324 TCAAGGATTGTGTTGCATGAAAAACATAGTTAAAAGCTTTATAAAAATAGGAATACTAAGGTTTG
66 TCAAGGATTGTATTGCATGAAAAACAAAGTTAAAAGCTTTATAAAAGTAGGAATACTAAGGTTTG
* * *
677389 AGGCAGAAAGTGGACCAAGTGGCAAAGAGACCAATTACTTCTAAACCATTTAATCCAGGCAAATT
131 AGGTAGAAAGTGGACCAAGTGACAAAGAGACCAATTACTTCTAAACCATTTAATCCAAGCAAATT
* *
677454 AGGAAACAATTAAGATAAGAGTCTAGCCAACCAAATTCCTATATCTTACATTAAACTACTACCTT
196 AGGAAACAATTAAGATAAGAGTCAAGTCAACCAAATTCCTATATCTTACATTAAACTACTACCTT
* * * * * *
677519 GACTCATTTAAAATCACATTCTAATCCCGTGCACATGGGGCCATTAAAACCTTCATACCTAAACT
261 GACTCGTTCAAAATCACCTTCTAATCCCGTGCACATAGGGCCATTGAAACCTTCATACCTAAGCT
*
677584 AGTATAATGCTAATGAGAGTTGCGATTAT
326 AGTATAACGCTAATGAGAGTTGCGATTAT
677613 ACCTTGGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCATGCTAGAATCCAAGAGCACTCTA
1 ACCTTGGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCATGCTAGAATCCAAGAGCACTCTA
* *
677678 TCAAGGATTGTATTGCATGTAAAACAAAGTTAAAAGCTTTATAAAAGTAGAAATACTAAGGTTTG
66 TCAAGGATTGTATTGCATGAAAAACAAAGTTAAAAGCTTTATAAAAGTAGGAATACTAAGGTTTG
* * *
677743 AGGTAGAAAGTGGACCAACTGACAAAGAGACCAATTACTTCTAAACCATTTAATCAAAGTAAATT
131 AGGTAGAAAGTGGACCAAGTGACAAAGAGACCAATTACTTCTAAACCATTTAATCCAAGCAAATT
* *
677808 AGGAAACAATTGAGATAAGAGTCAAGTCAACCAAATTCCTATATCTTACATTGAACTACTACCTT
196 AGGAAACAATTAAGATAAGAGTCAAGTCAACCAAATTCCTATATCTTACATTAAACTACTACCTT
* *
677873 GACTTGTTCAAAATCACCTTCTAATCCCGTGCACATAGGGCAATTGAAACCTTCATACCTAAGCT
261 GACTCGTTCAAAATCACCTTCTAATCCCGTGCACATAGGGCCATTGAAACCTTCATACCTAAGCT
677938 AGTATAACGCTAATGAGAGTTGCGATTAT
326 AGTATAACGCTAATGAGAGTTGCGATTAT
* *
677967 ACCTTGGGAATGGTTTGATCCCAAAGCCCATTATGAATATCATGCTAGAATCTAAGAGCACTCTA
1 ACCTTGGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCATGCTAGAATCCAAGAGCACTCTA
*
678032 TCAAGGATTGTATTGCATGCAAAACAAAGTTAAAAGCTTTATAAAAGTAGGAATACTAAGGTTTG
66 TCAAGGATTGTATTGCATGAAAAACAAAGTTAAAAGCTTTATAAAAGTAGGAATACTAAGGTTTG
678097 AGGTAGAAAGTGGACCAAGTGACAAAGAGACCAATTACTTCTAAACCATTTAATCCAAGCAAATT
131 AGGTAGAAAGTGGACCAAGTGACAAAGAGACCAATTACTTCTAAACCATTTAATCCAAGCAAATT
* *
678162 AGGAAACAATTAAGATAAGAGTAAAGTCAACCAAATTCCTATATCTTACATTAAATTACTACCTT
196 AGGAAACAATTAAGATAAGAGTCAAGTCAACCAAATTCCTATATCTTACATTAAACTACTACCTT
** ** *
678227 GACTCGTTCAAAATCACCTTCTAATCCTATGCATTTAGGGCCATTGAAACCTTCATACTTAAGCT
261 GACTCGTTCAAAATCACCTTCTAATCCCGTGCACATAGGGCCATTGAAACCTTCATACCTAAGCT
678292 AGTATAACGCTAATGAGAGTTGCGATTAT
326 AGTATAACGCTAATGAGAGTTGCGATTAT
678321 CATTCTAGCA
Statistics
Matches: 664, Mismatches: 44, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
354 664 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (354 bp):
ACCTTGGGAATGGTTTGATCCCAAAGCCCATTGTGAATATCATGCTAGAATCCAAGAGCACTCTA
TCAAGGATTGTATTGCATGAAAAACAAAGTTAAAAGCTTTATAAAAGTAGGAATACTAAGGTTTG
AGGTAGAAAGTGGACCAAGTGACAAAGAGACCAATTACTTCTAAACCATTTAATCCAAGCAAATT
AGGAAACAATTAAGATAAGAGTCAAGTCAACCAAATTCCTATATCTTACATTAAACTACTACCTT
GACTCGTTCAAAATCACCTTCTAATCCCGTGCACATAGGGCCATTGAAACCTTCATACCTAAGCT
AGTATAACGCTAATGAGAGTTGCGATTAT
Found at i:678776 original size:20 final size:20
Alignment explanation
Indices: 678738--678776 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
678728 AACAATGTTA
* *
678738 ATTCATTCATTCATCTATTT
1 ATTCATTCATGCATATATTT
678758 ATTCATTCATGCATATATT
1 ATTCATTCATGCATATATT
678777 CAATTCCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTCATTCATGCATATATTT
Found at i:680557 original size:29 final size:29
Alignment explanation
Indices: 680523--680646 Score: 167
Period size: 29 Copynumber: 4.3 Consensus size: 29
680513 TTTATTATCT
**
680523 TGCAATTTACTTTCTTACAATTTAACCTA
1 TGCAATTTACTTTCTTACAATTTAATTTA
*
680552 TGCAATTTACTTTCTTGCAATTTAATTTA
1 TGCAATTTACTTTCTTACAATTTAATTTA
* * * *
680581 AGCAATTTATTTTTTTGCAATTTAATTTA
1 TGCAATTTACTTTCTTACAATTTAATTTA
*
680610 TACAATTTACTTTCTTACAATTTAATTTA
1 TGCAATTTACTTTCTTACAATTTAATTTA
*
680639 AGCAATTT
1 TGCAATTT
680647 TTTTTAGTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (29 bp):
TGCAATTTACTTTCTTACAATTTAATTTA
Found at i:680602 original size:58 final size:58
Alignment explanation
Indices: 680524--680651 Score: 186
Period size: 58 Copynumber: 2.2 Consensus size: 58
680514 TTATTATCTT
* * * *
680524 GCAATTTACTTTCTTACAATTTAACCTATGCAATTTACTTTCTTGCAATTTAATTTAA
1 GCAATTTATTTTTTTACAATTTAACCTATACAATTTACTTTCTTACAATTTAATTTAA
* **
680582 GCAATTTATTTTTTTGCAATTTAATTTATACAATTTACTTTCTTACAATTTAATTTAA
1 GCAATTTATTTTTTTACAATTTAACCTATACAATTTACTTTCTTACAATTTAATTTAA
680640 GCAATTT-TTTTT
1 GCAATTTATTTTT
680652 AGTAATTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
57 5 0.08
58 58 0.92
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.52
Consensus pattern (58 bp):
GCAATTTATTTTTTTACAATTTAACCTATACAATTTACTTTCTTACAATTTAATTTAA
Found at i:680630 original size:15 final size:15
Alignment explanation
Indices: 680511--680633 Score: 71
Period size: 15 Copynumber: 8.4 Consensus size: 15
680501 TCATATAATT
*
680511 AATTTA-TTATCTTGC
1 AATTTACTT-TCTTAC
680526 AATTTACTTTCTTAC
1 AATTTACTTTCTTAC
*
680541 AATTTAAC---CTATGC
1 AATTT-ACTTTCT-TAC
*
680555 AATTTACTTTCTTGC
1 AATTTACTTTCTTAC
* *
680570 AATTTA-ATT-TAAGC
1 AATTTACTTTCTTA-C
* * *
680584 AATTTATTTTTTTGC
1 AATTTACTTTCTTAC
* *
680599 AATTTAATTT-ATAC
1 AATTTACTTTCTTAC
680613 AATTTACTTTCTTAC
1 AATTTACTTTCTTAC
680628 AATTTA
1 AATTTA
680634 ATTTAAGCAA
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
13 5 0.06
14 27 0.32
15 46 0.54
16 7 0.08
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (15 bp):
AATTTACTTTCTTAC
Found at i:680675 original size:15 final size:15
Alignment explanation
Indices: 680552--680738 Score: 129
Period size: 15 Copynumber: 12.9 Consensus size: 15
680542 ATTTAACCTA
* *
680552 TGCAATTTACTTTCT
1 TGCAATTTAATTTTT
*
680567 TGCAATTTAA-TTTA
1 TGCAATTTAATTTTT
* *
680581 AGCAATTTATTTTTT
1 TGCAATTTAATTTTT
*
680596 TGCAATTTAA-TTTA
1 TGCAATTTAATTTTT
* * *
680610 TACAATTTACTTTCT
1 TGCAATTTAATTTTT
* *
680625 TACAATTTAA-TTTA
1 TGCAATTTAATTTTT
*
680639 AGCAATTT--TTTTT
1 TGCAATTTAATTTTT
* *
680652 AGTAATTTAATTTTT
1 TGCAATTTAATTTTT
* *
680667 TGCAGTTTAA-TTTA
1 TGCAATTTAATTTTT
*
680681 TGCAATTTAATTTCT
1 TGCAATTTAATTTTT
*
680696 TGCAATTTAA-TTTA
1 TGCAATTTAATTTTT
*
680710 AGCAATTT-ATTTTCT
1 TGCAATTTAATTTT-T
680725 TGCAATTTTAATTT
1 TGCAA-TTTAATTT
680739 ACGCAATTTA
Statistics
Matches: 130, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
13 11 0.08
14 53 0.41
15 59 0.45
16 3 0.02
17 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (15 bp):
TGCAATTTAATTTTT
Found at i:680676 original size:100 final size:101
Alignment explanation
Indices: 680555--680747 Score: 282
Period size: 100 Copynumber: 1.9 Consensus size: 101
680545 TAACCTATGC
* * *
680555 AATTTACTTTCTTGCAATTTAATTTAAGCAATTTATTTTTTTGCAATTTAATTTATA-CAATTTA
1 AATTTAATTTCTTGCAATTTAATTTAAGCAATTTAATTTCTTGCAATTTAATTTA-AGCAATTTA
680619 CTTTCTTACAA-TTTAATTTAAGCAATTTTTTTTAGT
65 CTTTCTTACAATTTTAATTTAAGCAATTTTTTTTAGT
* * * *
680655 AATTTAATTTTTTGCAGTTTAATTTATGCAATTTAATTTCTTGCAATTTAATTTAAGCAATTTAT
1 AATTTAATTTCTTGCAATTTAATTTAAGCAATTTAATTTCTTGCAATTTAATTTAAGCAATTTAC
* *
680720 TTTCTTGCAATTTTAATTTACGCAATTT
66 TTTCTTACAATTTTAATTTAAGCAATTT
680748 ATTTCCTTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.01
100 65 0.79
101 16 0.20
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (101 bp):
AATTTAATTTCTTGCAATTTAATTTAAGCAATTTAATTTCTTGCAATTTAATTTAAGCAATTTAC
TTTCTTACAATTTTAATTTAAGCAATTTTTTTTAGT
Found at i:680679 original size:71 final size:71
Alignment explanation
Indices: 680568--680722 Score: 229
Period size: 71 Copynumber: 2.2 Consensus size: 71
680558 TTACTTTCTT
* * * *
680568 GCAATTTAATTTAAGCAATTTATTTTTTTGCAATTTAATTTATACAATTTACTTTCTTACAATTT
1 GCAATTT-ATTTTAGTAATTTAATTTTTTGCAATTTAATTTATACAATTTAATTTCTTACAATTT
680633 AATTTAA
65 AATTTAA
* * * *
680640 GCAATTTTTTTTAGTAATTTAATTTTTTGCAGTTTAATTTATGCAATTTAATTTCTTGCAATTTA
1 GCAATTTATTTTAGTAATTTAATTTTTTGCAATTTAATTTATACAATTTAATTTCTTACAATTTA
680705 ATTTAA
66 ATTTAA
680711 GCAATTTATTTT
1 GCAATTTATTTT
680723 CTTGCAATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 67 0.91
72 7 0.09
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (71 bp):
GCAATTTATTTTAGTAATTTAATTTTTTGCAATTTAATTTATACAATTTAATTTCTTACAATTTA
ATTTAA
Found at i:680744 original size:15 final size:14
Alignment explanation
Indices: 680568--680748 Score: 91
Period size: 14 Copynumber: 12.6 Consensus size: 14
680558 TTACTTTCTT
*
680568 GCAATTTAATTTAA
1 GCAATTTAATTTAC
* **
680582 GCAATTTATTTTTTT
1 GCAATTTA-ATTTAC
*
680597 GCAATTTAATTTAT
1 GCAATTTAATTTAC
* *
680611 ACAATTTACTTT-C
1 GCAATTTAATTTAC
* *
680624 TTACAATTTAATTTAA
1 --GCAATTTAATTTAC
**
680640 GCAATTTTTTTTA-
1 GCAATTTAATTTAC
* **
680653 GTAATTTAATTTTTT
1 GCAATTTAA-TTTAC
* *
680668 GCAGTTTAATTTAT
1 GCAATTTAATTTAC
680682 GCAATTTAATTT-C
1 GCAATTTAATTTAC
*
680695 TTGCAATTTAATTTAA
1 --GCAATTTAATTTAC
*
680711 GCAATTT-ATTTTC
1 GCAATTTAATTTAC
680724 TTGCAATTTTAATTTAC
1 --GCAA-TTTAATTTAC
680741 GCAATTTA
1 GCAATTTA
680749 TTTCCTTGTA
Statistics
Matches: 128, Mismatches: 26, Indels: 26
0.71 0.14 0.14
Matches are distributed among these distances:
13 10 0.08
14 61 0.48
15 49 0.38
16 3 0.02
17 5 0.04
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (14 bp):
GCAATTTAATTTAC
Found at i:680752 original size:29 final size:29
Alignment explanation
Indices: 680655--680770 Score: 135
Period size: 29 Copynumber: 3.9 Consensus size: 29
680645 TTTTTTTAGT
* * *
680655 AATTTAATTTTTTGCAGTTTAATTTATGC
1 AATTTAATTTCTTGCAATTTAATTTAAGC
680684 AATTTAATTTCTTGCAATTTAATTTAAGC
1 AATTTAATTTCTTGCAATTTAATTTAAGC
* *
680713 AATTTATTTTCTTGCAATTTTAATTTACGC
1 AATTTAATTTCTTGCAA-TTTAATTTAAGC
*
680743 AATTT-ATTTCCTTGTAAATTTATATTTA
1 AATTTAATTT-CTTG-CAATTTA-ATTTA
680771 TTAACTTTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
29 45 0.59
30 24 0.32
31 7 0.09
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.53
Consensus pattern (29 bp):
AATTTAATTTCTTGCAATTTAATTTAAGC
Found at i:686847 original size:21 final size:21
Alignment explanation
Indices: 686814--686854 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
686804 CTAAGTAAAA
686814 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
686835 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
686855 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:686919 original size:20 final size:19
Alignment explanation
Indices: 686894--686964 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
686884 ACCCTGAAAA
686894 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
686914 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
686933 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
686954 GTATCGATACA
1 GTATCGATACA
686965 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:687017 original size:53 final size:53
Alignment explanation
Indices: 686934--687070 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
686924 AAATTGCATA
686934 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
686988 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
687041 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
687071 TTGGTAGTGG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:687146 original size:21 final size:22
Alignment explanation
Indices: 687113--687167 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
687103 ATTACTATTA
687113 ATCACTGTTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
687135 ATCACT-TTCATGTATCGATAC
1 ATCACTGTTCATGTATCGATAC
687156 ATCACTGTTCAT
1 ATCACTGTTCAT
687168 AGGTCACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (22 bp):
ATCACTGTTCATGTATCGATAC
Found at i:687198 original size:14 final size:14
Alignment explanation
Indices: 687181--687209 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
687171 TCACTGTTCA
687181 CACTATTCATGTAT
1 CACTATTCATGTAT
687195 CACTATTCATGTAT
1 CACTATTCATGTAT
687209 C
1 C
687210 GTTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (14 bp):
CACTATTCATGTAT
Found at i:689862 original size:66 final size:66
Alignment explanation
Indices: 689747--689877 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
689737 TCTCTTAGTT
* * * * *
689747 GCATTTGAGTTTATCTTTGTTTATTTTTCTTGTGGGCATATTTTGTAATTCT-AGAATGTTGAAA
1 GCATTTGAGTTTATCTTTGTTTATTCTTCTTGTGGCCATATTCTATAATTATCA-AATGTTGAAA
689811 GC
65 GC
* *
689813 GCATTTGATTTTGTCTTTGTTTATTCTTCTTGTAGGCCA-ATTCTATAATTATCAAATGTTGAAA
1 GCATTTGAGTTTATCTTTGTTTATTCTTCTTGT-GGCCATATTCTATAATTATCAAATGTTGAAA
689877 G
65 G
689878 AAATTGTTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 51 0.91
67 5 0.09
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.49
Consensus pattern (66 bp):
GCATTTGAGTTTATCTTTGTTTATTCTTCTTGTGGCCATATTCTATAATTATCAAATGTTGAAAG
C
Found at i:694435 original size:13 final size:13
Alignment explanation
Indices: 694417--694443 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
694407 AATTTTTTTT
694417 TTGTATCGATACA
1 TTGTATCGATACA
694430 TTGTATCGATACA
1 TTGTATCGATACA
694443 T
1 T
694444 ACTTTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:696557 original size:21 final size:20
Alignment explanation
Indices: 696528--696570 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
696518 GGCTAGTATG
* *
696528 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCAGTCGCGACCT
*
696549 GGGAGTGCCAGTCGCGACCT
1 GGGACTGCCAGTCGCGACCT
696569 GG
1 GG
696571 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCAGTCGCGACCT
Found at i:703220 original size:13 final size:13
Alignment explanation
Indices: 703202--703228 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
703192 CAATTTTTTT
703202 TTGTATCGATACA
1 TTGTATCGATACA
703215 TTGTATCGATACA
1 TTGTATCGATACA
703228 T
1 T
703229 ACTTTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:704188 original size:97 final size:97
Alignment explanation
Indices: 704041--704254 Score: 259
Period size: 97 Copynumber: 2.2 Consensus size: 97
704031 GGAAAAATGA
* * * *
704041 GGTTAGAATATCCCCG-TGGATGATAATTCAAGCAAAGATAAGAATCAAATCTTGATAAGTTTAA
1 GGTTAGAGTATCCCCGAT-GATGACAATTCAAGCAAAAATAAGAATCAAATCTTGACAAGTTTAA
* * *
704105 AAACGGGGCTAAAGTATTTCCTTAGAAGAATAG
65 AAACAGAGCTAAAGTATCTCCTTAGAAGAATAG
* *
704138 GGTTAGAGTATCCCCGATGATGACAATTCAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAA
1 GGTTAGAGTATCCCCGATGATGACAATTCAAGCAAAAATAAGAATCAAATCTTGACAAGTTTAAA
* * ** * *
704203 AATAGAGTTGGAGTATCTCCTTGGAAGAATGG
66 AACAGAGCTAAAGTATCTCCTTAGAAGAATAG
* *
704235 GGTTGGAGTATCCCTGATGA
1 GGTTAGAGTATCCCCGATGA
704255 ATAAAATTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 98 0.99
98 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (97 bp):
GGTTAGAGTATCCCCGATGATGACAATTCAAGCAAAAATAAGAATCAAATCTTGACAAGTTTAAA
AACAGAGCTAAAGTATCTCCTTAGAAGAATAG
Found at i:706818 original size:13 final size:13
Alignment explanation
Indices: 706800--706825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
706790 CAATTTATTG
706800 TGTATCGATACAT
1 TGTATCGATACAT
706813 TGTATCGATACAT
1 TGTATCGATACAT
706826 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:706838 original size:32 final size:33
Alignment explanation
Indices: 706780--706843 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
706770 TACAAGCCAA
*
706780 TGTATCGATACAATTTATTGTGTATCGATACAT
1 TGTATCGATACAATCTATTGTGTATCGATACAT
706813 TGTATCGATAC-ATACT-TTGTGTATCGATACA
1 TGTATCGATACAAT-CTATTGTGTATCGATACA
706844 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTATTGTGTATCGATACAT
Found at i:707820 original size:50 final size:49
Alignment explanation
Indices: 707781--707880 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
707771 GATTTATTAG
*
707781 GGTCAAAAACCCAAAATATATTGATACAATAAAAAATATCGATACATTTA
1 GGTC-AAAACCCAAAATATATCGATACAATAAAAAATATCGATACATTTA
* * * *
707831 GGTCAAAACCCAGAATATATCGATATAATGAAAAATGTATCAATACATTT
1 GGTCAAAACCCAAAATATATCGATACAAT-AAAAA-ATATCGATACATTT
707881 TCTTTCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 22 0.51
50 9 0.21
51 12 0.28
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (49 bp):
GGTCAAAACCCAAAATATATCGATACAATAAAAAATATCGATACATTTA
Found at i:709002 original size:104 final size:105
Alignment explanation
Indices: 708746--709107 Score: 358
Period size: 105 Copynumber: 3.5 Consensus size: 105
708736 ACACCGGACA
* * * ** * * *
708746 TAAAGATGAT-AAGGGTGCCAATCTACTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAAA
1 TAAAGAAGATAAAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAGAA
* * * * * *
708810 AAAGTGCCAATGTGTTGATTCAAAGCCAACAATATTGGACT
66 GAA-TGCCAAAGTGCTGATTCAAGGCCAACAACATTAGACT
* * * * * *
708851 TAAAG-ATA-AAAAGAGTGCCAATGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGTTGAGT
1 TAAAGAAGATAAAAG-GTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAGA
*** *
708914 AGAATG-CAAAGTGCTGATTCAAGGCCAGTGACATTAGATT
65 AGAATGCCAAAGTGCTGATTCAAGGCCAACAACATTAGACT
* * * *
708954 TAGAGAAGATAAAAGGTGCCAATATGCTGATTCCAA-GCTAGTGACATTGGACTTAAAGATAAGA
1 TAAAGAAGATAAAAGGTGCCAATGTGTTGATT-CAAGGCTAGCGACATTGGACTTAAAGATAAGA
* * * *
709018 AGAGTGCCAATGTGCTGATTCAATGCCAACAACATTGGACT
65 AGAATGCCAAAGTGCTGATTCAAGGCCAACAACATTAGACT
*
709059 TAAAGATGAT-AAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGG
1 TAAAGAAGATAAAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGG
709108 GCTTTAGAAG
Statistics
Matches: 205, Mismatches: 45, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
103 32 0.16
104 82 0.40
105 91 0.44
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (105 bp):
TAAAGAAGATAAAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGATAAGAA
GAATGCCAAAGTGCTGATTCAAGGCCAACAACATTAGACT
Found at i:709105 original size:52 final size:52
Alignment explanation
Indices: 708715--709107 Score: 341
Period size: 52 Copynumber: 7.5 Consensus size: 52
708705 AATGTCCTAT
* * * ** * *
708715 TGTGCAGATTTAAGGCCTGCGACACCGGACATAAAGATGATAAGGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAA
* * * * * *
708767 TCTACTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAAAAAAGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-GATAAAGGTGCCAA
* * * * * *
708820 TGTGTTGATTCAAAGCCAACAATATTGGACTTAAAGAT-AAAAAGAGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAG-GTGCCAA
* * *
708872 TGTGTTGATTCAAGGCCAGCAACATTGGACTTAAAGTTGAGTAGAA--TG-CAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-TA-AAGGTGCCAA
* * * * * *
708923 AGTGCTGATTCAAGGCCAGTGACATTAGATTTAGAGAAGATAAAAGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAT-AAAGGTGCCAA
* * *
708976 TATGCTGATTCCAA-GCTAGTGACATTGGACTTAAAGAT-A-AGAAGAGTGCCAA
1 TGTGCTGATT-CAAGGCCAGCGACATTGGACTTAAAGATGATA-AAG-GTGCCAA
* * *
709028 TGTGCTGATTCAATGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAA
* *
709080 TGTGTTGATTCAAGGCTAGCGACATTGG
1 TGTGCTGATTCAAGGCCAGCGACATTGG
709108 GCTTTAGAAG
Statistics
Matches: 275, Mismatches: 51, Indels: 30
0.77 0.14 0.08
Matches are distributed among these distances:
50 4 0.01
51 46 0.17
52 141 0.51
53 77 0.28
54 5 0.02
55 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (52 bp):
TGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAA
Found at i:709117 original size:156 final size:157
Alignment explanation
Indices: 708741--709118 Score: 419
Period size: 156 Copynumber: 2.4 Consensus size: 157
708731 CTGCGACACC
* * * * * *
708741 GGACATAAAGATGATAAGGGTGCCAATCTACTGATTCAAGGCCAACGACATTGGAC-TTA-AAGA
1 GGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTTAGAAGA
* * *
708804 TAAAAAAAAGTGCCAATGTGTTGATTCAAAGCCAACAATATTGGACTTAAAGATAAAAAGAGTGC
66 T--AAAAAAGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAAAGAGTGC
* *
708869 CAATGTGTTGATTCAAGGCCAGCAACATT
129 CAATGTGCTGATTCAAGGCCAACAACATT
* * * * *
708898 GGACTTAAAGTTGAGTAGAA--TG-CAAAGTGCTGATTCAAGGCCAGTGACATT-AGATTTAGAG
1 GGACTTAAAGATGA-TA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTT--AG
* * * *** *
708959 AAGAT-AAAAGGTGCCAATATGCTGATTCCAAGCTAGTGACATTGGACTTAAAGATAAGAAGAGT
62 AAGATAAAAAAGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAAAGAGT
*
709023 GCCAATGTGCTGATTCAATGCCAACAACATT
127 GCCAATGTGCTGATTCAAGGCCAACAACATT
* *
709054 GGACTTAAAGATGATAAAGGTGCCAATGTGTTGATTCAAGGCTAGCGACATTGGGCTTTAGAAGA
1 GGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTTAGAAGA
709119 AAGTGCCACC
Statistics
Matches: 180, Mismatches: 31, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
154 2 0.01
155 2 0.01
156 124 0.69
157 39 0.22
158 7 0.04
159 6 0.03
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (157 bp):
GGACTTAAAGATGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTTAGAAGA
TAAAAAAGTGCCAATATGCTGATTCAAAGCCAACAACATTGGACTTAAAGATAAAAAGAGTGCCA
ATGTGCTGATTCAAGGCCAACAACATT
Found at i:709158 original size:32 final size:32
Alignment explanation
Indices: 709105--709344 Score: 241
Period size: 32 Copynumber: 7.7 Consensus size: 32
709095 CTAGCGACAT
* * * *
709105 TGGGCTTTAGAAGAAAG-TGCCACCAACTTATG
1 TGGGCTTTTGAA-AAGGTTGCCACCGACTTGTG
* * *
709137 TGAGTTTTTGAAAAGGTTGCCATCGACTTGTG
1 TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
709169 TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
* *
709201 TGGGC-TTT-AAAA--AT--CATCGACTTGTG
1 TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
*
709227 TGGGCTTTTGAAAAAGGTTGCTACCGACTTGTG
1 TGGGCTTTTG-AAAAGGTTGCCACCGACTTGTG
* * *
709260 TGGGTTTTTG-AAAGGATGCCACCAACTTGTG
1 TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
*
709291 TAGGC-TTTGAAAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTTGAAAAG-GTTGCCACCGACTTGTG
709323 TGGGC-TTTGAAAATGG-TGCCAC
1 TGGGCTTTTGAAAA-GGTTGCCAC
709345 GAAGCTATGG
Statistics
Matches: 173, Mismatches: 24, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
26 16 0.09
27 3 0.02
28 1 0.01
29 4 0.02
30 8 0.05
31 38 0.22
32 83 0.48
33 20 0.12
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (32 bp):
TGGGCTTTTGAAAAGGTTGCCACCGACTTGTG
Found at i:709297 original size:90 final size:95
Alignment explanation
Indices: 709107--709344 Score: 260
Period size: 90 Copynumber: 2.5 Consensus size: 95
709097 AGCGACATTG
* * * * *
709107 GGCTTTAGAAGAA-AGTGCCACCAACTTATGTGAGTTTTTG-AAAAGGTTGCCATCGACTTGTGT
1 GGCTTT-GAA-AAGAGT-CCACCGACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGT
* * *
709170 GGGCTTTTGAAAAGGTTGCCACCGACTTGTGTG
63 GGGCTTTTGAAAAGGATGCCACCAACTTGTGTA
* *
709203 GGCTTT-AAAA-A-T-CATCGACTTGTGTGGGCTTTTGAAAAAGGTTGCTACCGACTTGTGTGGG
1 GGCTTTGAAAAGAGTCCACCGACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGG
*
709264 TTTTTG-AAAGGATGCCACCAACTTGTGTA
66 CTTTTGAAAAGGATGCCACCAACTTGTGTA
*
709293 GGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGC-TTTGAAAATGG-TGCCAC
1 GGCTTTGAAAAGAG-T-CCACCGACTTGTGTGGGCTTTTGAAAAAGGTTGCCAC
709345 GAAGCTATGG
Statistics
Matches: 121, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
90 43 0.36
91 33 0.27
92 2 0.02
93 3 0.02
94 8 0.07
95 10 0.08
96 22 0.18
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (95 bp):
GGCTTTGAAAAGAGTCCACCGACTTGTGTGGGCTTTTGAAAAAGGTTGCCACCGACTTGTGTGGG
CTTTTGAAAAGGATGCCACCAACTTGTGTA
Found at i:709322 original size:122 final size:122
Alignment explanation
Indices: 709105--709336 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 122
709095 CTAGCGACAT
* * *
709105 TGGGCTTTAGAAGAAAGTGCCACCAACTTATGTGAGTTTTTGAAAAGGTTGCCATCGACTTGTGT
1 TGGGCTTTAGAAGAAAGTGCCACCAACTTATGTGAGTTTTTGAAAAGGATGCCACCAACTTGTGT
*
709170 GGGCTTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAATCATCGACTTGTG
66 AGGCTTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAATCATCGACTTGTG
* * * * *
709227 TGGGCTTTTGAA-AAAGGTTGCTACCGACTTGTGTGGGTTTTTG-AAAGGATGCCACCAACTTGT
1 TGGGCTTTAGAAGAAA-G-TGCCACCAACTTATGTGAGTTTTTGAAAAGGATGCCACCAACTTGT
*
709290 GTAGGC-TTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAAT
64 GTAGGCTTTTGAAAAG-GTTGCCACCGACTTGTGTGGGCTTTAAAAAT
709337 GGTGCCACGA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 12 0.12
122 64 0.66
123 21 0.22
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (122 bp):
TGGGCTTTAGAAGAAAGTGCCACCAACTTATGTGAGTTTTTGAAAAGGATGCCACCAACTTGTGT
AGGCTTTTGAAAAGGTTGCCACCGACTTGTGTGGGCTTTAAAAATCATCGACTTGTG
Found at i:709436 original size:32 final size:28
Alignment explanation
Indices: 709355--709796 Score: 145
Period size: 30 Copynumber: 15.2 Consensus size: 28
709345 GAAGCTATGG
* *
709355 ACTTTAAAACGGGTGCCACGGAGTTGTGG
1 ACTTTAAAAAGGGT-CCACGGAGTTGTGA
709384 ACTTTAAAAAGGGTCTCACGGAGTTGTGA
1 ACTTTAAAAAGGGTC-CACGGAGTTGTGA
** *
709413 ACTTTAAAAAAAAGGGTACCACGGAGTTACGG
1 ACTTT---AAAAAGGGT-CCACGGAGTTGTGA
* * *
709445 AC-TTCAATAGGGTGCCACAGAGTTGTGA
1 ACTTTAAAAAGGGT-CCACGGAGTTGTGA
* * * *
709473 ACTTTTAGAAAAGGGTGCTACAGAGTTATGG
1 AC-TTTA-AAAAGGGT-CCACGGAGTTGTGA
* * *
709504 ATTTTAAAAA-GGTGCCATGGA---AT-A
1 ACTTTAAAAAGGGT-CCACGGAGTTGTGA
* * *
709528 ACTTTTAGAAAAGGGTACCACGAAGTTATGG
1 AC-TTTA-AAAAGGGT-CCACGGAGTTGTGA
* * * *
709559 ATTTTAAAAAGGTGT-CACAGAGTTATGG
1 ACTTTAAAAAGG-GTCCACGGAGTTGTGA
* * *
709587 ACTTTAAAAGGGTGTCATAC--AATTGT-A
1 ACTTTAAAAAGG-GTC-CACGGAGTTGTGA
* * * *
709614 CACTTT-AAAAGGGTTCCACGAAATCGTGG
1 -ACTTTAAAAAGGG-TCCACGGAGTTGTGA
* * *
709643 ACTTCAAAAAAAGGTGCCACGGAGTTGTGG
1 ACTT-TAAAAAGGGT-CCACGGAGTTGTGA
* *
709673 ACTTTGAAAAAGGGTGCCACGGAGTTATGG
1 ACTTT-AAAAAGGGT-CCACGGAGTTGTGA
*
709703 ACTTTGAAAAAGGGTGCCATGGAGTTGTTG-
1 ACTTT-AAAAAGGGT-CCACGGAGTTG-TGA
* * * * *
709733 ACTTTGAAAAGGTTGCCATGAAGTTGTGG
1 ACTTTAAAAAGGGT-CCACGGAGTTGTGA
* *
709762 ACTTTGAAGAAA-GGTGCCACTGAGTTGTGG
1 ACTTT-AA-AAAGGGT-CCACGGAGTTGTGA
709792 ACTTT
1 ACTTT
709797 GAGAAGGTTA
Statistics
Matches: 324, Mismatches: 58, Indels: 61
0.73 0.13 0.14
Matches are distributed among these distances:
24 1 0.00
25 6 0.02
26 7 0.02
27 15 0.05
28 72 0.22
29 64 0.20
30 109 0.34
31 28 0.09
32 21 0.06
33 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (28 bp):
ACTTTAAAAAGGGTCCACGGAGTTGTGA
Found at i:709447 original size:61 final size:60
Alignment explanation
Indices: 709360--709796 Score: 242
Period size: 59 Copynumber: 7.5 Consensus size: 60
709350 TATGGACTTT
* * *
709360 AAAACGGGTGCCACGGAGTTGTGGACTTTAAAAAGGGT-CTCACGGAGTTGTGAACTTTAAA
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGC-CACAGAGTTGTGAACTTT-AA
* * * * *
709421 AAAAAGGGTACCACGGAGTTACGGAC-TTCAATAGGGTGCCACAGAGTTGTGAACTTTTA
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAGAGTTGTGAACTTTAA
* * * * * ** *
709480 GAAAAGGGTGCTACAGAGTTATGGATTTTAAAAA-GGTGCCA-TG-G-AAT-AACTTTTA
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAGAGTTGTGAACTTTAA
* * * * * * *
709535 GAAAAGGGTACCACGAAGTTATGGATTTTAAAAA-GGTGTCACAGAGTTATGGACTTT--
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAGAGTTGTGAACTTTAA
* *** * * ** * * * * *
709592 -AAAAGGGTGTCATACAATTGTACACTTT-AAAAGGGTTCCAC-GAAATCGTGGACTTCAA
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAG-AGTTGTGAACTTTAA
* * * * *
709650 AAAAA-GGTGCCACGGAGTTGTGGACTTTGAAAAAGGGTGCCACGGAGTTATGGACTTT-G
1 AAAAAGGGTGCCACGGAGTTATGGACTTT-AAAAAGGGTGCCACAGAGTTGTGAACTTTAA
* * * * * * * *
709709 AAAAAGGGTGCCATGGAGTTGTTGACTTTGAAAAGGTTGCCA-TGAAGTTGTGGACTTTGA
1 AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAG-AGTTGTGAACTTTAA
* * *
709769 AGAAA-GGTGCCACTGAGTTGTGGACTTT
1 AAAAAGGGTGCCACGGAGTTATGGACTTT
709797 GAGAAGGTTA
Statistics
Matches: 292, Mismatches: 67, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
55 49 0.17
56 35 0.12
57 2 0.01
58 20 0.07
59 85 0.29
60 77 0.26
61 24 0.08
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (60 bp):
AAAAAGGGTGCCACGGAGTTATGGACTTTAAAAAGGGTGCCACAGAGTTGTGAACTTTAA
Found at i:709496 original size:31 final size:29
Alignment explanation
Indices: 709357--709600 Score: 112
Period size: 28 Copynumber: 8.4 Consensus size: 29
709347 AGCTATGGAC
* * * * *
709357 TTTAAAACGGGTGCCACGGAGTTGTGGAC
1 TTTAAAAAGGGTGCCACAGAGTTATGAAT
* *
709386 TTTAAAAAGGGT-CTCACGGAGTTGTGAACT
1 TTTAAAAAGGGTGC-CACAGAGTTATGAA-T
* * * * *
709416 TTAAAAAAAAGGGTACCACGGAGTTACGGA-
1 TT--TAAAAAGGGTGCCACAGAGTTATGAAT
* * * *
709446 CTTCAATAGGGTGCCACAGAGTTGTGAACT
1 TTTAAAAAGGGTGCCACAGAGTTATGAA-T
* *
709476 TTTAGAAAAGGGTGCTACAGAGTTATGGAT
1 TTTA-AAAAGGGTGCCACAGAGTTATGAAT
* *
709506 TTTAAAAA-GGTGCCA-TG-G-AAT-AACT
1 TTTAAAAAGGGTGCCACAGAGTTATGAA-T
* *
709531 TTTAGAAAAGGGTACCAC-GAAGTTATGGAT
1 TTTA-AAAAGGGTGCCACAG-AGTTATGAAT
* * *
709561 TTTAAAAA-GGTGTCACAGAGTTATGGAC
1 TTTAAAAAGGGTGCCACAGAGTTATGAAT
709589 TTT-AAAAGGGTG
1 TTTAAAAAGGGTG
709601 TCATACAATT
Statistics
Matches: 165, Mismatches: 32, Indels: 37
0.71 0.14 0.16
Matches are distributed among these distances:
24 1 0.01
25 7 0.04
26 5 0.03
27 12 0.07
28 47 0.28
29 34 0.21
30 17 0.10
31 21 0.13
32 20 0.12
33 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (29 bp):
TTTAAAAAGGGTGCCACAGAGTTATGAAT
Found at i:709673 original size:30 final size:30
Alignment explanation
Indices: 709639--709798 Score: 198
Period size: 30 Copynumber: 5.4 Consensus size: 30
709629 CCACGAAATC
**
709639 GTGGACTTCAAAAAAAGGTGCCACGGAGTT
1 GTGGACTTTGAAAAAAGGTGCCACGGAGTT
*
709669 GTGGACTTTGAAAAAGGGTGCCACGGAGTT
1 GTGGACTTTGAAAAAAGGTGCCACGGAGTT
* * *
709699 ATGGACTTTGAAAAAGGGTGCCATGGAGTT
1 GTGGACTTTGAAAAAAGGTGCCACGGAGTT
* * *
709729 GTTGACTTTG--AAAAGGTTGCCATGAAGTT
1 GTGGACTTTGAAAAAAGG-TGCCACGGAGTT
* *
709758 GTGGACTTTGAAGAAAGGTGCCACTGAGTT
1 GTGGACTTTGAAAAAAGGTGCCACGGAGTT
709788 GTGGACTTTGA
1 GTGGACTTTGA
709799 GAAGGTTACT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
28 5 0.04
29 20 0.18
30 83 0.73
31 5 0.04
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.27
Consensus pattern (30 bp):
GTGGACTTTGAAAAAAGGTGCCACGGAGTT
Found at i:709686 original size:60 final size:60
Alignment explanation
Indices: 709620--709798 Score: 218
Period size: 60 Copynumber: 3.0 Consensus size: 60
709610 TGTACACTTT
* * **
709620 AAAAGGGTTCCACGAAATCGTGGACTTCAAAAAAAGGTGCCACGGAGTTGTGGACTTTGA
1 AAAAGGGTTCCACGAAGTTGTGGACTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTGA
* * * * * *
709680 AAAAGGGTGCCACGGAGTTATGGACTTTGAAAAAGGGTGCCATGGAGTTGTTGACTTTG-
1 AAAAGGGTTCCACGAAGTTGTGGACTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTGA
* * *
709739 AAAA-GGTTGCCATGAAGTTGTGGACTTTGAAGAAAGGTGCCACTGAGTTGTGGACTTTGA
1 AAAAGGGTT-CCACGAAGTTGTGGACTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTGA
709799 GAAGGTTACT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
58 3 0.03
59 46 0.47
60 49 0.50
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (60 bp):
AAAAGGGTTCCACGAAGTTGTGGACTTTGAAAAAAGGTGCCACGGAGTTGTGGACTTTGA
Found at i:716285 original size:97 final size:97
Alignment explanation
Indices: 716119--716334 Score: 267
Period size: 97 Copynumber: 2.2 Consensus size: 97
716109 TTTGAAAAGC
* * * * * *
716119 GAGGTTAGAGTATCCCCATTGTTGATAATTCAGGCAAAGATAAAATTTAAATTTTGCCAAGTTTA
1 GAGGTTAGAGTATCCCCAATGATGATAATTCAAGCAAAAATAAAATTTAAATCTTGACAAGTTTA
*
716184 AAAAT-AGAGTTAGAGTATCCCTTC-AGAAGAAT
66 AAAATAAG-GTTAGAGTATCCCCTCGA-AAGAAT
* * *
716216 GAGGTTAGAGTATCCTCAATGATGATAATTCAAGCAAAAATAAGATTTAAATCTTGATAAGTTTA
1 GAGGTTAGAGTATCCCCAATGATGATAATTCAAGCAAAAATAAAATTTAAATCTTGACAAGTTTA
*
716281 AAAATAAGGTTGGAGTATCCCCTCGAAAGAAT
66 AAAATAAGGTTAGAGTATCCCCTCGAAAGAAT
* *
716313 G-GAGTTAGAGTATTCCCGATGA
1 GAG-GTTAGAGTATCCCCAATGA
716335 ATAAAATTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
96 1 0.01
97 98 0.96
98 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (97 bp):
GAGGTTAGAGTATCCCCAATGATGATAATTCAAGCAAAAATAAAATTTAAATCTTGACAAGTTTA
AAAATAAGGTTAGAGTATCCCCTCGAAAGAAT
Found at i:722694 original size:140 final size:140
Alignment explanation
Indices: 722436--722713 Score: 443
Period size: 140 Copynumber: 2.0 Consensus size: 140
722426 TGCTTACAAT
* *
722436 TGTATCGATACATGCAGGCAAATTTTCATATTTCATGATATTTTCTTCCTTTGCCAAATGAGTTT
1 TGTATCGATACATGCAGGCAAATTTTCATATTTCATGACATTTTCTTCCTTTACCAAATGAGTTT
* * *
722501 TTTGCATTATAAGTGATCAGGATTCATATCAAATCTTAATTGTCACACATCAAAACCAATCTTGA
66 TTTGCATCATAAGTGATCAAGATTCATATCAAATCTCAATTGTCACACATCAAAACCAATCTTGA
722566 TCATTTTTAA
131 TCATTTTTAA
*
722576 TGTATCGATACATGCAGGCAAATTTTCATATTTCATGACATTTTCTT-CTTCTACTAAATGCAG-
1 TGTATCGATACATGCAGGCAAATTTTCATATTTCATGACATTTTCTTCCTT-TACCAAATG-AGT
* **
722639 TTTTTGCATCATAAGTGATCAAGATTCATTTCAAATCTCAATTGTCACATGTCAAAACCAATCTT
64 TTTTTGCATCATAAGTGATCAAGATTCATATCAAATCTCAATTGTCACACATCAAAACCAATCTT
722704 GATCATTTTT
129 GATCATTTTT
722714 GAAGCTAAAG
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
139 3 0.02
140 122 0.96
141 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (140 bp):
TGTATCGATACATGCAGGCAAATTTTCATATTTCATGACATTTTCTTCCTTTACCAAATGAGTTT
TTTGCATCATAAGTGATCAAGATTCATATCAAATCTCAATTGTCACACATCAAAACCAATCTTGA
TCATTTTTAA
Found at i:727871 original size:20 final size:20
Alignment explanation
Indices: 727846--727911 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
727836 GTTTGAAGCA
727846 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
727866 ATGTATCGAT---A--CAT-
1 ATGTATCGATACAATTCATC
727880 -TGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
727899 ATGTATCGATACA
1 ATGTATCGATACA
727912 TTGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
15 3 0.08
16 1 0.03
17 1 0.03
18 3 0.08
20 22 0.56
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:727885 original size:13 final size:12
Alignment explanation
Indices: 727846--727929 Score: 67
Period size: 13 Copynumber: 7.4 Consensus size: 12
727836 GTTTGAAGCA
727846 ATGTATCGATAC
1 ATGTATCGATAC
*
727858 A-AT-TC-AT-C
1 ATGTATCGATAC
727866 ATGTATCGATAC
1 ATGTATCGATAC
727878 ATTGTATCGATAC
1 A-TGTATCGATAC
*
727891 A-AT-TC-AT-C
1 ATGTATCGATAC
727899 ATGTATCGATAC
1 ATGTATCGATAC
727911 ATTGTATCGATAC
1 A-TGTATCGATAC
727924 AATGTA
1 -ATGTA
727930 CCACATATCG
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
8 4 0.07
9 6 0.11
10 8 0.14
11 6 0.11
12 5 0.09
13 27 0.47
14 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:727944 original size:33 final size:33
Alignment explanation
Indices: 727847--727926 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
727837 TTTGAAGCAA
727847 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCATCATGTATCGATACAT
727880 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCATCATGTATCGATACAT
727913 TGTATCGATACAAT
1 TGTATCGATACAAT
727927 GTACCACATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAATTCATCATGTATCGATACAT
Found at i:728003 original size:20 final size:20
Alignment explanation
Indices: 727978--728031 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
727968 CAGTTTCATA
*
727978 TATTGATACAATTGTGCATG
1 TATTGATACAATTGTACATG
*
727998 TATTGATACAA-TGAACATG
1 TATTGATACAATTGTACATG
*
728017 TATCGATAC-ATTGTA
1 TATTGATACAATTGTA
728032 TCGATACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.59
20 11 0.38
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (20 bp):
TATTGATACAATTGTACATG
Found at i:728033 original size:13 final size:13
Alignment explanation
Indices: 728015--728039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
728005 ACAATGAACA
728015 TGTATCGATACAT
1 TGTATCGATACAT
728028 TGTATCGATACA
1 TGTATCGATACA
728040 AAGTATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:733073 original size:20 final size:20
Alignment explanation
Indices: 733050--733117 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
733040 ATATATAATT
*
733050 TATATAAATAAAATATAAAA
1 TATATAAATTAAATATAAAA
* *
733070 TATA-ATGATTAAATTTAAAA
1 TATATA-AATTAAATATAAAA
* *
733090 TATATAAATTATATAAAAAA
1 TATATAAATTAAATATAAAA
733110 TTATATAA
1 -TATATAA
733118 CATATAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.76
21 8 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
TATATAAATTAAATATAAAA
Found at i:733691 original size:15 final size:16
Alignment explanation
Indices: 733662--733704 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
733652 TTTAAAGTTT
*
733662 TAATATAAATTAAAAA
1 TAATATAAATAAAAAA
733678 TAATA-AAATAAAAAA
1 TAATATAAATAAAAAA
733693 TATATATTAAAT
1 TA-ATA-TAAAT
733705 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 11 0.48
16 8 0.35
18 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAATATAAATAAAAAA
Found at i:733762 original size:23 final size:21
Alignment explanation
Indices: 733722--733764 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
733712 TATTTCAATT
*
733722 AATAATATAATAATTTTAAAA
1 AATAATATAATAAATTTAAAA
733743 AATAATATTTAATAAATTTAAA
1 AATAATA--TAATAAATTTAAA
733765 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAATATAATAAATTTAAAA
Found at i:736040 original size:2 final size:2
Alignment explanation
Indices: 736033--736068 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
736023 TAACCATCTA
*
736033 AT AT AT AT AT AT AT AT AT AT AG 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
736069 GAATGTGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:738228 original size:13 final size:13
Alignment explanation
Indices: 738210--738235 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
738200 CATTTTGGGA
738210 TGTATCGATACAT
1 TGTATCGATACAT
738223 TGTATCGATACAT
1 TGTATCGATACAT
738236 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:738232 original size:33 final size:32
Alignment explanation
Indices: 738190--738253 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
738180 TACAAGCCAA
*
738190 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
738223 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
738254 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:738392 original size:20 final size:20
Alignment explanation
Indices: 738369--738409 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
738359 CTGTGCAATC
*
738369 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
738389 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
738409 T
1 T
738410 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:747013 original size:13 final size:13
Alignment explanation
Indices: 746995--747020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
746985 CATTTTAGGA
746995 TGTATCGATACAT
1 TGTATCGATACAT
747008 TGTATCGATACAT
1 TGTATCGATACAT
747021 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:747017 original size:33 final size:32
Alignment explanation
Indices: 746975--747038 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
746965 TACAAGCCAA
*
746975 TGTATCGATACATTTTAG-GATGTATCGATACAT
1 TGTATCGATACATCTT-GTG-TGTATCGATACAT
747008 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
747039 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:747127 original size:20 final size:21
Alignment explanation
Indices: 747080--747132 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
747070 GCCAATGATC
*
747080 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
747101 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
747121 TGTATCGATACA
1 TGTATCGATACA
747133 ATGTATCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:749098 original size:57 final size:57
Alignment explanation
Indices: 748992--749099 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
748982 TTTAATTTTT
* *
748992 AAGCCTTTGACAATGGTAAGATAATAATTTTGGACCTTAGCAAATGGTTGAATTCTC
1 AAGCCTTTGACAATGGTAAGATAATAATTTTGGACCTCAGCAAACGGTTGAATTCTC
* *
749049 AAGCCTTT-AGCAATAGG-AAGATAATAATTTTGGACCTCGGTAAACGGTTGA
1 AAGCCTTTGA-CAAT-GGTAAGATAATAATTTTGGACCTCAGCAAACGGTTGA
749100 GGCATAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
56 1 0.02
57 42 0.93
58 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (57 bp):
AAGCCTTTGACAATGGTAAGATAATAATTTTGGACCTCAGCAAACGGTTGAATTCTC
Found at i:756310 original size:4 final size:4
Alignment explanation
Indices: 756301--756337 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
756291 AGTTGTTATT
* *
756301 GAAA GAAA GATA GAAA GAAA GACA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
756338 CAACTGCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:756450 original size:2 final size:2
Alignment explanation
Indices: 756443--756487 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
756433 TTTAATCTTG
756443 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
756485 CT C
1 CT C
756488 CAGATTGGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:756627 original size:28 final size:28
Alignment explanation
Indices: 756596--756655 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
756586 AAATTCAAAT
756596 TATT-ATTAAAATATGAAAAA-TATTTTTA
1 TATTAATTAAAATA--AAAAATTATTTTTA
*
756624 TATTAAATTTAAATAAAAAATTATTTTTA
1 TATT-AATTAAAATAAAAAATTATTTTTA
756653 TAT
1 TAT
756656 AATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 9 0.32
29 11 0.39
30 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TATTAATTAAAATAAAAAATTATTTTTA
Found at i:756664 original size:27 final size:28
Alignment explanation
Indices: 756611--756665 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
756601 TTAAAATATG
**
756611 AAAAATATTTTTATATTAAATTTAAATA
1 AAAAATATTTTTATATTAAATACAAATA
756639 AAAAATTATTTTTATA-T-AATACAAATA
1 AAAAA-TATTTTTATATTAAATACAAATA
756666 GTGATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 6 0.25
29 10 0.42
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AAAAATATTTTTATATTAAATACAAATA
Done.