Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold34
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: 1758877
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
File 5 of 12
Found at i:639841 original size:51 final size:51
Alignment explanation
Indices: 639762--639879 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
639752 GGAAATAACG
* * * * *
639762 AGGTTAGAGTATCCTCGATGGTGAAAAATTGATGTTTTGGAAATAAAACTA
1 AGGTTGGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAACCA
* * * *
639813 GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAGCCA
1 AGGTTGGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAACCA
639864 AGGTTGGAGTATCCCC
1 AGGTTGGAGTATCCCC
639880 TTGGAAATAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
AGGTTGGAGTATCCCCGATGATGAAAAATTGATGTTTTAGAAATAAAACCA
Found at i:639841 original size:130 final size:129
Alignment explanation
Indices: 639608--639991 Score: 542
Period size: 130 Copynumber: 3.0 Consensus size: 129
639598 AATAATGGGA
* *
639608 TTGGAGTATCCCCAAT-GAAATAACGGGGTTGGAGTATCCCCGATTGT-AAAAATTGATG-TTGG
1 TTGGAGTATCCCC-TTGGAAATAACGGGGTTGGAGTAT-CCCGATTGTGAAAAATTGATGTTTTG
* * * *
639670 AGAAATAAAA-TCAGAGTTGGAGTATTCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACCG
64 -GAAATAAAACT-AGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCA
639734 AGG
127 AGG
* * *
639737 TTGGAGTATCCCCTTGGAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAAATTGATGTTTTGG
1 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCC-CGATTGTGAAAAATTGATGTTTTGG
* *
639802 AAATAAAACTAGGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAGCCAAGG
65 AAATAAAACTAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGG
* *
639867 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATTCCCGATTATGAAAAATTGATGTTTTGA
1 TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTA-TCCCGATTGTGAAAAATTGATGTTTTGG
* * *
639932 AAATAAAACTGGGGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTAGAGATAAAAC
65 AAATAAAACTAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
639992 TAGGGTTATA
Statistics
Matches: 228, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
128 3 0.01
129 38 0.17
130 180 0.79
131 7 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (129 bp):
TTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATTGATGTTTTGGA
AATAAAACTAGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGG
Found at i:639896 original size:79 final size:79
Alignment explanation
Indices: 639813--639958 Score: 222
Period size: 79 Copynumber: 1.8 Consensus size: 79
639803 AATAAAACTA
* *
639813 GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTT-AGAAATAAAGCCAAGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGA-AAATAAAACCAAGGTTGGAGTATC
639877 CCCTTGGAAATAACG
65 CCCTTGGAAATAACG
* ***
639892 GGGTTGGAGTATTCCCGATTATGAAAAATTGATGTTTTGAAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAACCAAGGTTGGAGTATCC
639957 CC
66 CC
639959 GATTTTGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 59 0.98
80 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAAATAAAACCAAGGTTGGAGTATCC
CCTTGGAAATAACG
Found at i:639960 original size:51 final size:51
Alignment explanation
Indices: 639891--640111 Score: 212
Period size: 51 Copynumber: 4.3 Consensus size: 51
639881 TGGAAATAAC
*
639891 GGGGTTGGAGTATTCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAACT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAACT
* *
639942 GGGGTTGGAGTATCCCCGATTTTGAAAAATTGATGTTTTAGAGATAAAACT
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT
* ** * ** ** * *
639993 AGGGTTATAGTGTCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAA-T
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT
* * * * ** *
640043 CGGAGTTGGAGTATCCCCGATTAAGAAAAATTCATGTTTTGGAAATGGAACC
1 -GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT
* *
640095 AGGATTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
640112 AAGATGAAAA
Statistics
Matches: 134, Mismatches: 33, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
50 1 0.01
51 132 0.99
52 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACT
Found at i:642480 original size:20 final size:20
Alignment explanation
Indices: 642455--642508 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
642445 GTAAATCCAG
*
642455 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
642475 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
642495 AATGTATCGATACA
1 AATGTATCGATACA
642509 TCTAGGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:642497 original size:69 final size:69
Alignment explanation
Indices: 642406--642540 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
642396 AAAATGCCTG
* * * * * *
642406 AATGTATCGATATATTGTAAAATATTTCGATACATCTGGGTAAATCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATGCAAAATATATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
642471 GAGC
66 GAGC
* *
642475 AATGTATCGATACAATGCAAAATGTATCGATACATCTAGGTAAACCCAGAATGTATGGATACAAT
1 AATGTATCGATACAATGCAAAATATATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
642540 G
66 G
642541 TATCGATACA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (69 bp):
AATGTATCGATACAATGCAAAATATATCGATACATCTAGGTAAACCCAGAATGTATCGATACAAT
GAGC
Found at i:647288 original size:37 final size:38
Alignment explanation
Indices: 647254--647406 Score: 153
Period size: 37 Copynumber: 4.3 Consensus size: 38
647244 TAATATGGAC
*
647254 TTGACTCAGACTTAGGTGCCACCTAGCTTCTATGGGCT
1 TTGACTCAGACTTAGGTGCCACCTAGCTTGTATGGGCT
*
647292 TTGACTC--A---A-GTGCCACC-AGCTTGTACGGGCT
1 TTGACTCAGACTTAGGTGCCACCTAGCTTGTATGGGCT
* * ** *
647323 TGGACTCGGACTTAGGTGCC-GTTAGCTTGTGTGGGCT
1 TTGACTCAGACTTAGGTGCCACCTAGCTTGTATGGGCT
* * *
647360 TTAACTCAGACTTAGGTGCCACC-ATCTTGTGTGGGCT
1 TTGACTCAGACTTAGGTGCCACCTAGCTTGTATGGGCT
647397 TTGACTCAGA
1 TTGACTCAGA
647407 TGCCACCAAC
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
31 18 0.19
32 8 0.09
33 2 0.02
36 2 0.02
37 56 0.60
38 7 0.08
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (38 bp):
TTGACTCAGACTTAGGTGCCACCTAGCTTGTATGGGCT
Found at i:647322 original size:31 final size:32
Alignment explanation
Indices: 647269--647329 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
647259 TCAGACTTAG
* *
647269 GTGCCACCTAGCTTCTATGGGCTTTGACTCAA
1 GTGCCACCTAGCTTCTACGGGCTTGGACTCAA
*
647301 GTGCCACC-AGCTTGTACGGGCTTGGACTC
1 GTGCCACCTAGCTTCTACGGGCTTGGACTC
647330 GGACTTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (32 bp):
GTGCCACCTAGCTTCTACGGGCTTGGACTCAA
Found at i:647601 original size:36 final size:36
Alignment explanation
Indices: 647561--647688 Score: 131
Period size: 36 Copynumber: 3.6 Consensus size: 36
647551 GGGCATCCTG
*
647561 CTCTTTTATGACAAAGGAAAATGAGTAGGTGTCTTA
1 CTCTTTTAGGACAAAGGAAAATGAGTAGGTGTCTTA
* *
647597 CTCTTTTAGGATAAAGGAAAATGAGTAGGTGTC-CA
1 CTCTTTTAGGACAAAGGAAAATGAGTAGGTGTCTTA
*
647632 GCT-TTTTGAGGACAAAGGAAAA-GAAGTA--CGTCTTA
1 -CTCTTTT-AGGACAAAGGAAAATG-AGTAGGTGTCTTA
* *
647667 TTCTTTGAGGACAAAGGGAAAA
1 CTCTTTTAGGACAAA-GGAAAA
647689 GAAGAATGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
34 12 0.15
35 16 0.21
36 50 0.64
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (36 bp):
CTCTTTTAGGACAAAGGAAAATGAGTAGGTGTCTTA
Found at i:647955 original size:42 final size:41
Alignment explanation
Indices: 647811--648003 Score: 144
Period size: 42 Copynumber: 4.5 Consensus size: 41
647801 CGACAAAGGG
*
647811 AAAAGAAGTGTGTCCTACTCTTTAAGGACAAAGGGCAAAA-AA
1 AAAAGAA-TGTGTCCTGCTCTTTAAGGACAAAGGG-AAAAGAA
* **
647853 AGGAAATGAA-GTGCATCCTGCTCTTTGAGGACAAAAAGAAAAGAA
1 A--AAA-GAATGTG--TCCTGCTCTTTAAGGACAAAGGGAAAAGAA
*
647898 GAATAA-AATGGGTCCTGCTCTTTAAGGACAAA-GGAAAAGGAA
1 -AA-AAGAATGTGTCCTGCTCTTTAAGGACAAAGGGAAAA-GAA
* * * *
647940 AAAAGGAATGTGTCCTTCTCCTTGAGGACAAAGGGCAAAGAGA
1 AAAA-GAATGTGTCCTGCTCTTTAAGGACAAAGGGAAAAGA-A
* *
647983 AAAA-AATGTGTCATACTCTTT
1 AAAAGAATGTGTCCTGCTCTTT
648004 GAAGACGAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 29
0.73 0.09 0.17
Matches are distributed among these distances:
40 2 0.02
41 21 0.17
42 47 0.39
43 15 0.12
44 10 0.08
45 26 0.21
46 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGAATGTGTCCTGCTCTTTAAGGACAAAGGGAAAAGAA
Found at i:658642 original size:79 final size:78
Alignment explanation
Indices: 658474--658656 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 78
658464 GTGTTCTCTT
* * * * *
658474 GAAAATAACGGGGCTGGAGTATCCCCAGTTGTGAGAAATCGATGATTAGAAAAAAAATCGGGATT
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAAACCGGGATT
658539 GGAGTATCCCCTC
66 GGAGTATCCCCTC
* * * * *
658552 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGGGG
1 GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA--TTAGAAAAAAAACCGGGA
658616 TTGGAGTATCCCCTC
64 TTGGAGTATCCCCTC
* *
658631 GGAAGTAACGGGGTTGGAGTATCCCC
1 GAAAATAACGGGGTTGGAGTATCCCC
658657 GATGAAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.01
78 39 0.43
79 51 0.56
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (78 bp):
GAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGATTAGAAAAAAAACCGGGATT
GGAGTATCCCCTC
Found at i:658651 original size:28 final size:28
Alignment explanation
Indices: 658611--658682 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
658601 GGAATAAAGC
** *
658611 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
658639 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
658667 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
658683 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:658752 original size:108 final size:109
Alignment explanation
Indices: 658532--658845 Score: 379
Period size: 107 Copynumber: 2.9 Consensus size: 109
658522 GAAAAAAAAT
* * * * * * ***
658532 CGGGATTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCAATTATG-AGAAATCAAT
1 CGGGGTTGGAGTAT-CCC-CGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGT
* ** * *
658595 -A-TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
64 GATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
*
658639 CGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTGTGAA-AAATTGGT-
1 CGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTG
*
658702 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCTCCTCGGAAATAA
65 ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
* * * *
658747 CGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGT
1 CGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGA
658812 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
66 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
658846 GATTATAGAA
Statistics
Matches: 179, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
105 3 0.02
106 3 0.02
107 72 0.40
108 68 0.38
109 33 0.18
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (109 bp):
CGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGTGAAGAAATTGGTGA
TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCTCGGAAATAA
Found at i:658758 original size:28 final size:26
Alignment explanation
Indices: 658723--658793 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 26
658713 TAAAATCGGA
658723 GTTGGAGTATCTCCTCG-GAAATAACGGG
1 GTTGGAGTATC-CC-CGAG-AATAACGGG
*
658751 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGA-GAATAACGGG
658778 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
658794 TTGTGAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 2 0.05
27 26 0.65
28 12 0.30
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (26 bp):
GTTGGAGTATCCCCGAGAATAACGGG
Found at i:658842 original size:54 final size:51
Alignment explanation
Indices: 658778--658908 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 51
658768 GATTAACGGG
* * *
658778 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TCTTGAAAATAAAATCGGA
*
658832 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTCTTGAAAATAAAATCGGA
* *
658883 GTTGGAATATCCCTGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
658909 TTGAGAAACT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
51 34 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:661273 original size:33 final size:33
Alignment explanation
Indices: 661235--661301 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
661225 AAAATTTCCA
***
661235 AATGTATCAATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
* *
661268 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
661301 A
1 A
661302 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:661274 original size:13 final size:13
Alignment explanation
Indices: 661256--661281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
661246 ACAAAGATCC
661256 ATGTATCGATACA
1 ATGTATCGATACA
661269 ATGTATCGATACA
1 ATGTATCGATACA
661282 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:661361 original size:13 final size:13
Alignment explanation
Indices: 661343--661367 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
661333 ACAATACTTA
661343 TGTATCGATACAT
1 TGTATCGATACAT
661356 TGTATCGATACA
1 TGTATCGATACA
661368 AATTGTTGAA
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:667503 original size:20 final size:20
Alignment explanation
Indices: 667478--667517 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
667468 ACATTTGAGA
667478 TATGTATTGATACATTCACT
1 TATGTATTGATACATTCACT
667498 TATGTATTGATACATTCACT
1 TATGTATTGATACATTCACT
667518 AATTGTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (20 bp):
TATGTATTGATACATTCACT
Found at i:669883 original size:30 final size:30
Alignment explanation
Indices: 669847--669907 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
669837 TATAAGTGCC
**
669847 ACTAAAAGTCTAAAATTAGTGGCGTTTATA
1 ACTAAAAGTCTAAAATTAGCAGCGTTTATA
* *
669877 ACTAAAAGTTTAAACTTAGCAGCGTTTATA
1 ACTAAAAGTCTAAAATTAGCAGCGTTTATA
669907 A
1 A
669908 ACGCCACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (30 bp):
ACTAAAAGTCTAAAATTAGCAGCGTTTATA
Found at i:673188 original size:88 final size:88
Alignment explanation
Indices: 673073--673237 Score: 285
Period size: 88 Copynumber: 1.9 Consensus size: 88
673063 TTTGAATAAT
* *
673073 TTTACTTATTTTAATTTCAAAGGTTCATAATTTACTTTTTAAGTTTATTTTTCAACACAAAAACA
1 TTTACTTATTTTAATTTCAAAGATTCATAATTTACTTTTTAACTTTATTTTTCAACACAAAAACA
673138 AATTATATGCATCTAAATCTTTA
66 AATTATATGCATCTAAATCTTTA
* * *
673161 TTTACTTATTTTCATTTCAAAGATTCATAATTTACTTTTTAACTTTATTTTTTAACACAAAAATA
1 TTTACTTATTTTAATTTCAAAGATTCATAATTTACTTTTTAACTTTATTTTTCAACACAAAAACA
673226 AATTATATGCAT
66 AATTATATGCAT
673238 ATGAACTTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (88 bp):
TTTACTTATTTTAATTTCAAAGATTCATAATTTACTTTTTAACTTTATTTTTCAACACAAAAACA
AATTATATGCATCTAAATCTTTA
Found at i:676333 original size:19 final size:21
Alignment explanation
Indices: 676297--676335 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
676287 ATCATTAGAA
*
676297 ATTTTTTTAATTATAATTATT
1 ATTTTTATAATTATAATTATT
676318 ATTTTTATAA-TA-AATTAT
1 ATTTTTATAATTATAATTAT
676336 GTAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 2 0.12
21 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTATAATTATAATTATT
Found at i:682645 original size:11 final size:11
Alignment explanation
Indices: 682616--682646 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
682606 TTTTTAATTT
*
682616 TATAAATCATA
1 TATAAATTATA
682627 TATAAATTATA
1 TATAAATTATA
682638 TATAAATTA
1 TATAAATTA
682647 AAAAAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
TATAAATTATA
Found at i:686904 original size:13 final size:13
Alignment explanation
Indices: 686886--686911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
686876 GCAGTAACTT
686886 TGTCCATGTAAAA
1 TGTCCATGTAAAA
686899 TGTCCATGTAAAA
1 TGTCCATGTAAAA
686912 GGGATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTCCATGTAAAA
Found at i:691194 original size:140 final size:142
Alignment explanation
Indices: 690938--691194 Score: 306
Period size: 140 Copynumber: 1.8 Consensus size: 142
690928 ACCTTCTGCG
* * * *
690938 TAAAAGCAGACCTAGTGACAAGCTAGGACTCGGGTAAAAAAATTACGAAAATGCCTCTATGCATA
1 TAAAAGCAGACCGAGTGACAACCTAAGACTCGAGTAAAAAAATTACGAAAATGCCTCTATGCATA
* *
691003 TACCTTCAACATAAAAAGTATCACAATAACCTTAAAGGACTTAAAAAGATTATAGAGGTGACAAA
66 TACCTTCAACATAAAAAGTATCACAATAACCCTAAAGGACCTAAAAAGATTATAGAGGTGACAAA
691068 CTTATCCTGGCA
131 CTTATCCTGGCA
* * * **
691080 TAAAAGCAGACCGA-TGACAACCTAAGACTC-AGTTAAAAAATTATGAAAATATCCT-TATGGGT
1 TAAAAGCAGACCGAGTGACAACCTAAGACTCGAGTAAAAAAATTACGAAAAT-GCCTCTATGCAT
* * ** * * *
691142 ATACCTTCGACAT-GAAAGTATGTCGATAACCCTAATGGACACTAAAATGATTA
65 ATACCTTCAACATAAAAAGTATCACAATAACCCTAAAGGAC-CTAAAAAGATTA
691195 GTAATAGGAT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
139 21 0.22
140 44 0.46
141 17 0.18
142 13 0.14
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (142 bp):
TAAAAGCAGACCGAGTGACAACCTAAGACTCGAGTAAAAAAATTACGAAAATGCCTCTATGCATA
TACCTTCAACATAAAAAGTATCACAATAACCCTAAAGGACCTAAAAAGATTATAGAGGTGACAAA
CTTATCCTGGCA
Found at i:692650 original size:16 final size:16
Alignment explanation
Indices: 692629--692659 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
692619 CAAAACACAC
692629 AAAAATCATCACCATA
1 AAAAATCATCACCATA
692645 AAAAATCATCACCAT
1 AAAAATCATCACCAT
692660 CAGCACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATCATCACCATA
Found at i:692967 original size:11 final size:11
Alignment explanation
Indices: 692925--692975 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
692915 AATCCAACTA
* *
692925 TTTTTCATTAT
1 TTTTTCTTTTT
692936 TTTTTCTTGTTT
1 TTTTTCTT-TTT
*
692948 TTTTCCTTTTT
1 TTTTTCTTTTT
692959 TTTTTCTTTTCT
1 TTTTTCTTTT-T
692971 TTTTT
1 TTTTT
692976 TCTCTCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 19 0.56
12 15 0.44
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:692983 original size:17 final size:17
Alignment explanation
Indices: 692948--692985 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
692938 TTTCTTGTTT
*
692948 TTTTCCTTTTTTTTTTC
1 TTTTCCTTTTTTTTCTC
692965 TTTT-CTTTTTTTCTCTC
1 TTTTCCTTTTTTT-TCTC
692982 TTTT
1 TTTT
692986 TTTGCTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCCTTTTTTTTCTC
Found at i:694429 original size:28 final size:28
Alignment explanation
Indices: 694395--694466 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
694385 GAAATAAAGT
** *
694395 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* * *
694423 CGGGGTTAGAGCATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
694451 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
694467 TCGATTGTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:694650 original size:51 final size:50
Alignment explanation
Indices: 694585--694761 Score: 205
Period size: 51 Copynumber: 3.5 Consensus size: 50
694575 AAATAATGGG
694585 GTTGGAGTATCCCCGATTATGAAAAGTCGATGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAA-TCGATGTTTTGGAAATAAAATCAGA
* * * * *
694636 GTTGGAGTACCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATCGATGTTTTGGAAATAAAATCAGA
* * * *
694687 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAATC-GG
1 GTTGGAGTATCCCCGATTATG-AAAATCGATGTTTTGGAAATAAAATCAGA
* *
694737 GATTGGAGTATTCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
694762 ATATAGAAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
49 4 0.04
50 5 0.05
51 94 0.87
52 5 0.05
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATCGATGTTTTGGAAATAAAATCAGA
Found at i:694668 original size:130 final size:130
Alignment explanation
Indices: 694444--694700 Score: 347
Period size: 130 Copynumber: 2.0 Consensus size: 130
694434 CATCCCCGAT
* * *
694444 GAAATAACGAGGTTGGAGTATCCTCGATTGTAAAAAATTAGTGTTTTGGAAATAAAATAGGAGTT
1 GAAATAACGAGGTTGGAGTATCCCCGATTATAAAAAATGAGTGTTTTGGAAATAAAATAGGAGTT
* ** * *
694509 GGAATATCCCCGATTACGGAGGATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCA
66 GGAATACCCCCGATTACGGAAAATGGGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCA
* * * *
694574 GAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAGTCGA-TGTTTTGGAAATAAAATCA-GAG
1 GAAATAACGAGGTTGGAGTATCCCCGATTATAAAAAAT-GAGTGTTTTGGAAATAAAAT-AGGAG
* * *
694637 TTGGAGTACCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCC
64 TTGGAATACCCCCGATTACGGAAAATGGGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCC
694701 GATTAAGAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
130 108 0.98
131 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (130 bp):
GAAATAACGAGGTTGGAGTATCCCCGATTATAAAAAATGAGTGTTTTGGAAATAAAATAGGAGTT
GGAATACCCCCGATTACGGAAAATGGGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCA
Found at i:697070 original size:20 final size:19
Alignment explanation
Indices: 697045--697151 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 19
697035 AAAATGCCTG
*
697045 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
697065 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
697085 AATGTATCGAT---AT---
1 AATGTATCGATACAATGAA
*
697098 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
697118 AATGTATTGATACAATGCAA
1 AATGTATCGATACAATG-AA
697138 AATGTATCGATACA
1 AATGTATCGATACA
697152 TGTGGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
13 11 0.15
16 2 0.03
17 2 0.03
19 1 0.01
20 56 0.77
21 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:697103 original size:13 final size:13
Alignment explanation
Indices: 697084--697114 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
697074 ATACAATGAG
697084 CAATGTATCGATA
1 CAATGTATCGATA
*
697097 TAATGTATCGATA
1 CAATGTATCGATA
697110 CAATG
1 CAATG
697115 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:697107 original size:33 final size:33
Alignment explanation
Indices: 697065--697134 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
697055 TACATTGTAA
*
697065 AATGTATCGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCGATAC
*
697098 AATGTATCGATACAATGAGCAATGTATTGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
697131 AATG
1 AATG
697135 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:697107 original size:53 final size:53
Alignment explanation
Indices: 697045--697149 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
697035 AAAATGCCTG
* *
697045 AATGTATCGATACATTGTA-AAATGTATCGATACAATG-AGCAATGTATCGATAT
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATGCA-AAATGTATCGATAT
* *
697098 AATGTATCGATACAATGAGCAATGTATTGATACAATGCAAAATGTATCGATA
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATA
697150 CATGTGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 44 0.96
54 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCAAAATGTATCGATAT
Found at i:698381 original size:60 final size:61
Alignment explanation
Indices: 698157--698404 Score: 316
Period size: 61 Copynumber: 4.2 Consensus size: 61
698147 GTGTGTCTTA
* *
698157 CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCATCCTG
* * * *
698218 CCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGCATCCTG
* * *
698279 CTCTTTGAGGACTGAAAAGTGCCACCAATTTGTGTAGGCTTT-AAAAGGAGAAGGCGTCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGCATCCTG
* *
698340 CTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT----A-A-AAGGCATCCTG
1 CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCATCCTG
698394 CTCTTTGAGGA
1 CTCTTTGAGGA
698405 TAAAAAGGCG
Statistics
Matches: 166, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
54 21 0.13
55 1 0.01
57 1 0.01
59 4 0.02
60 23 0.14
61 112 0.67
62 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (61 bp):
CTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGCATCCTG
Found at i:698619 original size:61 final size:60
Alignment explanation
Indices: 698424--698793 Score: 416
Period size: 61 Copynumber: 6.4 Consensus size: 60
698414 GAAAGGAGAG
* *
698424 AGCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 AGCGTCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAA
* * ** * *
698485 GGCGTCTTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGAAAA
1 AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* * *
698544 GGCGTCGTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA
1 AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAA
* *
698605 AGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----GAAAC
1 AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
698661 A-CATCCTGCTCTTTGAGGACTGGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG----
1 AGCGTCCTGCTCTTTGAGGACTGG-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
*
698717 -GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAA
1 AGCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
* *
698771 GGCATCCTGCTCTTTGAGGACTG
1 AGCGTCCTGCTCTTTGAGGACTG
698794 AAAGGTGAAA
Statistics
Matches: 274, Mismatches: 20, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
51 1 0.00
54 3 0.01
55 66 0.24
56 51 0.19
59 25 0.09
60 52 0.19
61 76 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
AGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAA
Found at i:698742 original size:26 final size:26
Alignment explanation
Indices: 698713--698798 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
698703 GTGGGCTTTA
698713 AAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
* ** * * *
698739 AAAGGTG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGC-TCTT-TGAGGAC--TG
*
698768 AAAGGCATCCTGCTCTTTGAGGACTG
1 AAAGGCGTCCTGCTCTTTGAGGACTG
698794 AAAGG
1 AAAGG
698799 TGAAAGGAGA
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.38
27 5 0.12
28 5 0.12
29 10 0.24
30 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (26 bp):
AAAGGCGTCCTGCTCTTTGAGGACTG
Found at i:698751 original size:111 final size:110
Alignment explanation
Indices: 698428--698793 Score: 416
Period size: 111 Copynumber: 3.2 Consensus size: 110
698418 GGAGAGAGCG
* *
698428 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCT
1 TCCTGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTT--AA--A-AAGGCGTCC
* * *
698492 TGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGAAAAGGCG
60 TGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAA--CA
* * * *
698548 TCGTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----A-AAAAGGCGTCCT
*
698613 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAACACA
61 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-ACA
698664 TCCTGCTCTTTGAGGACTGGAAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTC
1 TCCTGCTCTTTGAGGACTGG-AAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTC
*
698728 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
65 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA-ACA
698775 TCCTGCTCTTTGAGGACTG
1 TCCTGCTCTTTGAGGACTG
698794 AAAGGTGAAA
Statistics
Matches: 220, Mismatches: 17, Indels: 27
0.83 0.06 0.10
Matches are distributed among these distances:
110 4 0.02
111 72 0.33
116 19 0.09
117 31 0.14
118 1 0.00
119 2 0.01
120 62 0.28
121 23 0.10
122 5 0.02
123 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAACA
Found at i:698772 original size:55 final size:55
Alignment explanation
Indices: 698425--698797 Score: 403
Period size: 55 Copynumber: 6.5 Consensus size: 55
698415 AAAGGAGAGA
698425 GCGTCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* * * *
698486 GCGTCTTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGCGTGGGCTTTAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAG
* * *
698545 GCGTCGTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAG
* * *
698601 AAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAC
1 -----GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
698661 ACATCCTGCTCTTTGAGGACTGGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
698717 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
*
698772 GCATCCTGCTCTTTGAGGACT-GAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAG
698798 GTGAAAGGAG
Statistics
Matches: 279, Mismatches: 23, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
54 4 0.01
55 74 0.27
56 55 0.20
59 27 0.10
60 51 0.18
61 68 0.24
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:699760 original size:1 final size:1
Alignment explanation
Indices: 699754--699829 Score: 53
Period size: 1 Copynumber: 76.0 Consensus size: 1
699744 AAGCAAATTC
* * * * ** * * * *
699754 TTTTTTTTCTCTTTTTTCTTTGTTTTTTTTTGGTTTTTTTTTGTTTTTTTATTTTTTTGTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
699819 TTTATTTTTTT
1 TTTTTTTTTTT
699830 AAAAAAAAGA
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.03, C:0.04, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:699802 original size:19 final size:19
Alignment explanation
Indices: 699767--699829 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
699757 TTTTTCTCTT
*
699767 TTTTCTTTGTT-TTTTTTTGG
1 TTTT-TTTGTTGTTTTTTT-A
699787 TTTTTTT-TTGTTTTTTTA
1 TTTTTTTGTTGTTTTTTTA
699805 TTTTTTTGTTG-TTTTTTA
1 TTTTTTTGTTGTTTTTTTA
699823 TTTTTTT
1 TTTTTTT
699830 AAAAAAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 23 0.57
19 13 0.32
20 4 0.10
ACGTcount: A:0.03, C:0.02, G:0.10, T:0.86
Consensus pattern (19 bp):
TTTTTTTGTTGTTTTTTTA
Found at i:699826 original size:26 final size:26
Alignment explanation
Indices: 699765--699830 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 26
699755 TTTTTTTCTC
* * *
699765 TTTTTTCTTTGTTT-TTTTTTGGTTT
1 TTTTTTATTTTTTTATTTTTTGGTTG
* *
699790 TTTTTTGTTTTTTTATTTTTTTGTTG
1 TTTTTTATTTTTTTATTTTTTGGTTG
699816 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
699831 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.85
Consensus pattern (26 bp):
TTTTTTATTTTTTTATTTTTTGGTTG
Found at i:699829 original size:10 final size:10
Alignment explanation
Indices: 699754--699821 Score: 75
Period size: 11 Copynumber: 6.6 Consensus size: 10
699744 AAGCAAATTC
*
699754 TTTTTTTTCTC
1 TTTTTTTT-TG
699765 TTTTTTCTTTG
1 TTTTTT-TTTG
699776 TTTTTTTTTGG
1 TTTTTTTTT-G
699787 TTTTTTTTTG
1 TTTTTTTTTG
*
699797 TTTTTTTAT-
1 TTTTTTTTTG
*
699806 TTTTTTGTTG
1 TTTTTTTTTG
699816 TTTTTT
1 TTTTTT
699822 ATTTTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 18 0.36
11 23 0.46
12 2 0.04
ACGTcount: A:0.01, C:0.04, G:0.09, T:0.85
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:712050 original size:20 final size:20
Alignment explanation
Indices: 712025--712092 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
712015 AAACTTCCTA
712025 GATGTATCGATACAAAGATT
1 GATGTATCGATACAAAGATT
712045 GATGTATCGATAC----A--
1 GATGTATCGATACAAAGATT
712059 -ATGTATCGATACAAAGATT
1 GATGTATCGATACAAAGATT
712078 GATGTATCGATACAA
1 GATGTATCGATACAA
712093 TGTATCGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 12 0.29
16 1 0.02
17 1 0.02
20 27 0.66
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (20 bp):
GATGTATCGATACAAAGATT
Found at i:712064 original size:13 final size:13
Alignment explanation
Indices: 712046--712104 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
712036 ACAAAGATTG
712046 ATGTATCGATACA
1 ATGTATCGATACA
712059 ATGTATCGATACA
1 ATGTATCGATACA
**
712072 A---A--GAT-TG
1 ATGTATCGATACA
712079 ATGTATCGATACA
1 ATGTATCGATACA
712092 ATGTATCGATACA
1 ATGTATCGATACA
712105 TTTAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
7 1 0.03
8 3 0.08
10 2 0.06
12 3 0.08
13 27 0.75
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:712068 original size:33 final size:33
Alignment explanation
Indices: 712026--712104 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
712016 AACTTCCTAG
712026 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGATTGATGTATCGATACA
712059 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGATTGATGTATCGATACA
712092 ATGTATCGATACA
1 ATGTATCGATACA
712105 TTTAATAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGATTGATGTATCGATACA
Found at i:712116 original size:33 final size:33
Alignment explanation
Indices: 712026--712124 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
712016 AACTTCCTAG
* *
712026 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
* *
712059 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
***
712092 ATGTATCGATACATTTAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
712125 TTTCCTTGGT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:712702 original size:164 final size:164
Alignment explanation
Indices: 712493--713275 Score: 735
Period size: 165 Copynumber: 4.7 Consensus size: 164
712483 TAATGTATAC
* * * * *
712493 AAAAAAATCAAAATTCATG-AAATAAATTGAATTTCTT-GAAACTGATTTAATGA-GAGTT-AAT
1 AAAAAATTCAAAACTCATGAAAATGAATT-AATTTTTTAG-AACTGATTTAAT-ATGAATTAAAT
* ** * * **
712554 AACAATATTAGATGAATTCTAAAAATT-ATAAACTAAGAAAAATCCTTCAAAAAACATTTACGGT
63 GATGATATTTGATGAATTTTAAAAATTGA-AAACTAAGAAAAATCCTTCAAAAAA-ATTTACGAA
* ** *
712618 GTAGGAAACTAGATTTTTCGAGGAAAGAG-AATTTCAAAG
126 GTAGAAAACTCTATTTTTC-AGAAAAGAGAAATTTCAAAG
*
712657 AAAAAATTCAAAACTCATGAAAAGGAATTAATTTTTTAGAACTGATTTAATATGAATTAAATGAT
1 AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTTAGAACTGATTTAATATGAATTAAATGAT
* * * *
712722 GATATTTGAAGAATTTTAAAAATTGAAAACTGAGAAAAATCCCCTT-GAAAAAATTTACAAAGTA
66 GATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAAT--CCTTCAAAAAAATTTACGAAGTA
* *
712786 AAAAACTCTATTTTTCCA-AAAAGGGAAATTTCAAAG
129 GAAAACTCTATTTTT-CAGAAAAGAGAAATTTCAAAG
* * *
712822 ACAAAATTCAAAATTCATGAAAATGAATTAATTTTTCAGAACTGATTTAATATGAATTAAATGAT
1 AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTTAGAACTGATTTAATATGAATTAAATGAT
* * * * *
712887 GACATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCCTAAAAAAA-TTATGAAATAG
66 GATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCTTC-AAAAAAATTTACGAAGTAG
* *
712951 AAAACTCTATATTTCAGAAAAGAGAAATTTCAAGG
130 AAAACTCTATTTTTCAGAAAAGAGAAATTTCAAAG
* * * *
712986 AAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTTAATA-CAATTAAATGGT
1 AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTTAGAACTGATTTAATATGAATTAAATGAT
* * * ** * * * *
713050 GATATTTAATGAATTTTCAAAATTTAAAACCGAGAAAAATTCTTGCGAAAAAATTTACAAAGTAA
66 GATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCTT-CAAAAAAATTTACGAAGTAG
**** * *
713115 AAAACTCCGCATTTCA-AAAATAGTAAATTTTCAAGG
130 AAAACTCTATTTTTCAGAAAAGAG-AAA-TTTCAAAG
* * * * * * *
713151 AAAAAATTTAAAATATTTATGAAAATAAATGAA-TTTTTAGAAACTAATTTAAGATGAATTAAAT
1 AAAAAA-TTCAAA-ACTCATGAAAATGAATTAATTTTTTAG-AACTGATTTAATATGAATTAAAT
* * * * * * *
713215 AATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTCCCAAAAATATTTAC
63 GATGATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCT-TCAAAAAAATTTAC
713276 AGCGTAAAAA
Statistics
Matches: 518, Mismatches: 80, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
163 65 0.13
164 152 0.29
165 193 0.37
166 19 0.04
167 32 0.06
168 57 0.11
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (164 bp):
AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTTAGAACTGATTTAATATGAATTAAATGAT
GATATTTGATGAATTTTAAAAATTGAAAACTAAGAAAAATCCTTCAAAAAAATTTACGAAGTAGA
AAACTCTATTTTTCAGAAAAGAGAAATTTCAAAG
Found at i:712801 original size:165 final size:164
Alignment explanation
Indices: 712641--713400 Score: 722
Period size: 165 Copynumber: 4.6 Consensus size: 164
712631 TTTTTCGAGG
** *
712641 AAAGAG-AATTTCAAAGAAAAAATTCAAAACTCATGAAAAGGAATTAATTTTTTAGAACTGATTT
1 AAAGAGAAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTT
**
712705 AATATGAATTAAATGATGATATTTGAAGAATTTTAAAAATTGAAAACTGAGAAAAATCCCCTTGA
66 AATATGAATTAAATGATGATATTTGAAGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTTGA
*
712770 AAAAATTTACAAAGTAAAAAACTCTATTTTTCCAA
131 AAAAATTTACAAAGTAAAAAACTCTATATTT-CAA
* * * * * *
712805 AAAGGGAAATTTCAAAGACAAAATTCAAAATTCATGAAAATGAATTAATTTTTCAGAACTGATTT
1 AAAGAGAAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTT
* *
712870 AATATGAATTAAATGATGACATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCTCC-T-
66 AATATGAATTAAATGATGATATTTGAAGAATTTTAAAAATTGAAAACCAAGAAAAATCC-CCTTG
* * *
712933 AAAAAAATTATGAAA-TAGAAAACTCTATATTTCAGA
130 AAAAAATTTA-CAAAGTAAAAAACTCTATATTTCA-A
*
712969 AAAGAGAAATTTCAAGGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTT
1 AAAGAGAAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTT
* * * * * *
713034 AATA-CAATTAAATGGTGATATTT-AATGAATTTTCAAAATTTAAAACCGAGAAAAAT--TCTTG
66 AATATGAATTAAATGATGATATTTGAA-GAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTT-
***
713095 CGAAAAAATTTACAAAGTAAAAAACTCCGCATTTCAA
129 -GAAAAAATTTACAAAGTAAAAAACTCTATATTTCAA
* * * * * *
713132 AAATAGTAAATTTTCAAGGAAAAAATTTAAAATATTTATGAAAATAAATGAA-TTTTTAGAAACT
1 AAAGAG-AAA-TTTCAAAGAAAAAA-TTCAAA-ACTCATGAAAATAAATTAATTTTTTAG-AACT
* * * * * *
713196 AATTTAAGATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCT
61 AATTTAATATGAATTAAATGATGATATTTGAAGAATTTTAAAAATTGAAAACCAAGAAAAATCC-
* ** * * *
713261 CC--CAAAAATATTTACAGCGTAAAAAACTTTGTATTTTGGAA
125 CCTTGAAAAA-ATTTACAAAGTAAAAAACTCTATA-TTT-CAA
* * * ** * * *
713302 ACATGAGGAA-TTCTAAA-AGAAAA-TCAATAACTCAT-AAAATAAAAGAAATTTTTCAAAACTG
1 A-AAGAGAAATTTC-AAAGAAAAAATTCAA-AACTCATGAAAAT-AAATTAATTTTTTAGAACTA
* * * *
713363 ATTTGATAGGAATTAAATGATAATAGTTGAAGAATTTT
62 ATTTAATATGAATTAAATGATGATATTTGAAGAATTTT
713401 GATGCTTGCA
Statistics
Matches: 492, Mismatches: 76, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
160 1 0.00
161 1 0.00
162 1 0.00
163 54 0.11
164 119 0.24
165 132 0.27
166 61 0.12
167 39 0.08
168 69 0.14
169 6 0.01
170 5 0.01
171 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.31
Consensus pattern (164 bp):
AAAGAGAAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATTAATTTTTTAGAACTAATTT
AATATGAATTAAATGATGATATTTGAAGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTTGA
AAAAATTTACAAAGTAAAAAACTCTATATTTCAA
Found at i:717417 original size:29 final size:27
Alignment explanation
Indices: 717380--717442 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
717370 TAATATATTT
717380 AAAATTT-TTTATTA-ATT-TAAAAATA
1 AAAATTTATTT-TTATATTATAAAAATA
*
717405 AAATATTTATTTTTATATTATAAAAATT
1 AAA-ATTTATTTTTATATTATAAAAATA
717433 AAAATTTATT
1 AAAATTTATT
717443 AAAAGTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.09
26 7 0.21
27 13 0.39
28 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAAATTTATTTTTATATTATAAAAATA
Found at i:717771 original size:26 final size:26
Alignment explanation
Indices: 717709--717771 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
717699 TACCTTAACG
* *
717709 AAAATTAAACAAAGTTAAATTCGACA
1 AAAATCAAACTAAGTTAAATTCGACA
717735 AAAATCAAACTAAGTTAAATTCGACA
1 AAAATCAAACTAAGTTAAATTCGACA
717761 AAAATCAAACT
1 AAAATCAAACT
717772 GAAACCGGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.22
Consensus pattern (26 bp):
AAAATCAAACTAAGTTAAATTCGACA
Found at i:718024 original size:20 final size:20
Alignment explanation
Indices: 717999--718041 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
717989 TTATATAATT
*
717999 ATTAAATATAAATATAAATA
1 ATTAAATATAAATATAAACA
* *
718019 ATTAAATCTAATTATAAACA
1 ATTAAATATAAATATAAACA
718039 ATT
1 ATT
718042 CTTTCATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAATATAAATATAAACA
Found at i:718976 original size:18 final size:18
Alignment explanation
Indices: 718953--719002 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
718943 TTTTATAGTA
718953 TATATTATATAAATATTT
1 TATATTATATAAATATTT
718971 TATATT-TA-AATATCATTT
1 TATATTATATAA-AT-ATTT
*
718989 TATA-TATTTAAATA
1 TATATTATATAAATA
719003 GTTATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
16 2 0.07
17 6 0.22
18 17 0.63
19 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTATATAAATATTT
Found at i:722824 original size:8 final size:8
Alignment explanation
Indices: 722811--722884 Score: 53
Period size: 8 Copynumber: 8.8 Consensus size: 8
722801 AATAAACACA
722811 ATATAAAT
1 ATATAAAT
722819 ATATAAAT
1 ATATAAAT
722827 ATATTAAA-
1 ATA-TAAAT
* *
722835 ATTTATAT
1 ATATAAAT
722843 AATATAAAT
1 -ATATAAAT
*
722852 -TATTAAT
1 ATATAAAT
722859 ATATCAAAATTT
1 ATAT--AAA--T
722871 ATATAAAT
1 ATATAAAT
722879 ATATAA
1 ATATAA
722885 TATTTTAACA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
7 9 0.17
8 23 0.44
9 10 0.19
10 5 0.10
12 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAAAT
Found at i:722847 original size:17 final size:17
Alignment explanation
Indices: 722827--722876 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
722817 ATATATAAAT
722827 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
722844 ATA-T-AAA-TTAT-TA
1 ATATTAAAATTTATATA
722857 ATATATCAAAATTTATATA
1 ATAT-T-AAAATTTATATA
722876 A
1 A
722877 ATATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 4 0.15
16 1 0.04
17 6 0.22
18 4 0.15
19 3 0.11
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:722868 original size:32 final size:34
Alignment explanation
Indices: 722810--722887 Score: 115
Period size: 32 Copynumber: 2.3 Consensus size: 34
722800 AAATAAACAC
*
722810 AATATAAATATATAAATATATTAAAATTTATAT-
1 AATATAAATATATAAATATATCAAAATTTATATA
*
722843 AATATAAAT-TATTAATATATCAAAATTTATATA
1 AATATAAATATATAAATATATCAAAATTTATATA
722876 AATATATAATAT
1 AATATA-AATAT
722888 TTTAACAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 21 0.52
33 15 0.38
34 3 0.08
35 1 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (34 bp):
AATATAAATATATAAATATATCAAAATTTATATA
Found at i:722880 original size:18 final size:17
Alignment explanation
Indices: 722810--722881 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
722800 AAATAAACAC
*
722810 AATAT-AAATATATA-A
1 AATATAAAATTTATATA
722825 ATATATTAAAATTTATAT-
1 A-ATA-TAAAATTTATATA
722843 AATAT-AAA-TTAT-TA
1 AATATAAAATTTATATA
722857 ATATATCAAAATTTATATA
1 A-ATAT-AAAATTTATATA
722876 AATATA
1 AATATA
722882 TAATATTTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 18
0.71 0.02 0.28
Matches are distributed among these distances:
13 1 0.02
14 5 0.11
15 8 0.17
16 4 0.09
17 8 0.17
18 17 0.37
19 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAAAATTTATATA
Found at i:724945 original size:35 final size:33
Alignment explanation
Indices: 724905--724986 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
724895 AATAAATTAT
*
724905 ATAAAATATAATATAAATAAATAAATTATTAATGA
1 ATAAAATATAATATAAATAAAT-AATTATT-ATAA
* * *
724940 ATAAAAAATTATATAAATATATAATTATTATAA
1 ATAAAATATAATATAAATAAATAATTATTATAA
*
724973 ATATAATTATAATA
1 ATA-AAATATAATA
724987 GATAAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 6 0.15
34 14 0.36
35 19 0.49
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (33 bp):
ATAAAATATAATATAAATAAATAATTATTATAA
Found at i:724973 original size:48 final size:47
Alignment explanation
Indices: 724898--724999 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 47
724888 AATAACTAAT
724898 AAATTATATAAAATATAATATAAATAAATA-AATTATTAAT-GAATAAA
1 AAATTATATAAAATATAATATAAATAAATATAATTA-TAATAG-ATAAA
*
724945 AAATTATATAAATATATAAT-TATTATAAATATAATTATAATAGATAAA
1 AAATTATATAAA-ATATAATATA-AATAAATATAATTATAATAGATAAA
724993 AATATTA
1 AA-ATTA
725000 CGGATATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
47 14 0.29
48 25 0.51
49 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (47 bp):
AAATTATATAAAATATAATATAAATAAATATAATTATAATAGATAAA
Found at i:724978 original size:15 final size:16
Alignment explanation
Indices: 724895--724982 Score: 57
Period size: 15 Copynumber: 5.7 Consensus size: 16
724885 AAAAATAACT
724895 AATA-AATTA-TATAA
1 AATATAATTATTATAA
*
724909 AATATAA-TA-TAAATA
1 AATATAATTATTATA-A
724924 AATA-AATTATTAATGAA
1 AATATAATTATT-AT-AA
*
724941 TAA-AAAATTA-TATAA
1 -AATATAATTATTATAA
724956 ATATATAATTATTAT-A
1 A-ATATAATTATTATAA
724972 AATATAATTAT
1 AATATAATTAT
724983 AATAGATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 21
0.71 0.04 0.25
Matches are distributed among these distances:
14 12 0.20
15 22 0.37
16 11 0.18
17 7 0.12
18 8 0.13
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (16 bp):
AATATAATTATTATAA
Found at i:725309 original size:18 final size:16
Alignment explanation
Indices: 725288--725366 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 16
725278 ATTTGTATGT
725288 TTTATAATATTATATATA
1 TTTATAATATT-T-TATA
*
725306 TTTAAAATATTTTATA
1 TTTATAATATTTTATA
*
725322 TTTATATAAATTTTAATA
1 TTTATA-ATATTTT-ATA
725340 TATTA-AA-ATTTTA-A
1 T-TTATAATATTTTATA
*
725354 ATTAT-ATATTTTA
1 TTTATAATATTTTA
725367 AAATATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
13 4 0.08
14 7 0.13
15 1 0.02
16 14 0.27
17 8 0.15
18 15 0.29
19 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTATAATATTTTATA
Found at i:725322 original size:20 final size:20
Alignment explanation
Indices: 725297--725372 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 20
725287 TTTTATAATA
725297 TTATATATATTTAAAATATT
1 TTATATATATTTAAAATATT
* *
725317 TTATAT-T-TATATAA-ATT
1 TTATATATATTTAAAATATT
725334 TTA-ATATA-TTAAAAT-TT
1 TTATATATATTTAAAATATT
*
725351 TAAATTATATATTTTAAAATAT
1 T-TA-TATATA-TTTAAAATAT
725373 ATATTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.05
17 14 0.33
18 6 0.14
19 1 0.02
20 11 0.26
22 7 0.17
23 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATATATATTTAAAATATT
Found at i:725330 original size:36 final size:35
Alignment explanation
Indices: 725276--725348 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
725266 TTTGTAATTC
*
725276 ATATTTGTATGTTTTATAATATTAT-ATATATTTAAA
1 ATATTTGTATATTTTATAA-ATTATAATATA-TTAAA
*
725312 ATATTT-TATATTTATATAAATTTTAATATATTAAA
1 ATATTTGTATATTT-TATAAATTATAATATATTAAA
725347 AT
1 AT
725349 TTTAAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 17 0.52
36 16 0.48
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (35 bp):
ATATTTGTATATTTTATAAATTATAATATATTAAA
Found at i:725366 original size:14 final size:14
Alignment explanation
Indices: 725347--725400 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
725337 ATATATTAAA
725347 ATTTTAAATTATAT
1 ATTTTAAATTATAT
*
725361 ATTTTAAAATATAT
1 ATTTTAAATTATAT
*
725375 ATTTATATCATT-TAT
1 ATTT-TA-AATTATAT
725390 ATTTT-AATTAT
1 ATTTTAAATTAT
725401 TTTATTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.09
13 1 0.03
14 18 0.55
15 9 0.27
16 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTAAATTATAT
Found at i:725367 original size:22 final size:23
Alignment explanation
Indices: 725328--725370 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
725318 TATATTTATA
*
725328 TAAATTTTAATATATTAAAATTT
1 TAAATTATAATATATTAAAATTT
*
725351 TAAATTAT-ATATTTTAAAAT
1 TAAATTATAATATATTAAAAT
725371 ATATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTATAATATATTAAAATTT
Found at i:725400 original size:20 final size:20
Alignment explanation
Indices: 725372--725422 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
725362 TTTTAAAATA
*
725372 TATATTTATATCATTTATAT
1 TATAATTATATCATTTATAT
* * *
725392 TTTAATTATTTTATTTATAT
1 TATAATTATATCATTTATAT
*
725412 TATATTTATAT
1 TATAATTATAT
725423 AATAATGTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TATAATTATATCATTTATAT
Found at i:725419 original size:15 final size:14
Alignment explanation
Indices: 725374--725420 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
725364 TTAAAATATA
*
725374 TATTTATATCATTT
1 TATTTATATTATTT
725388 ATATTT-TAATTATTT
1 -TATTTAT-ATTATTT
725403 TATTTATATTATATT
1 TATTTATATTAT-TT
725418 TAT
1 TAT
725421 ATAATAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTTATATTATTT
Found at i:726431 original size:19 final size:20
Alignment explanation
Indices: 726402--726440 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
726392 ATTCGTATAA
726402 ATTTAAATATAATAAAAATT
1 ATTTAAATATAATAAAAATT
*
726422 ATTT-AATATATTAAAAATT
1 ATTTAAATATAATAAAAATT
726441 TAAGTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAAATATAATAAAAATT
Found at i:727040 original size:21 final size:20
Alignment explanation
Indices: 727012--727054 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
727002 TTAAAATAAT
*
727012 TAATTTATTGTT-TATATCAA
1 TAATTTATTATTGTAT-TCAA
727032 TAATATTATTATTGTATTCAA
1 TAAT-TTATTATTGTATTCAA
727053 TA
1 TA
727055 TAACAAGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
TAATTTATTATTGTATTCAA
Found at i:727159 original size:20 final size:19
Alignment explanation
Indices: 727134--727175 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
727124 GTACTATTAT
*
727134 ATATAATAATTTTATAAATA
1 ATATAATAATTATATAAA-A
*
727154 ATATAATTATTATATAAAA
1 ATATAATAATTATATAAAA
727173 ATA
1 ATA
727176 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATAATTATATAAAA
Found at i:727176 original size:17 final size:17
Alignment explanation
Indices: 727128--727179 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
727118 TTTCATGTAC
*
727128 TATTATAT-ATAATAAT
1 TATTATATAAAAATAAT
727144 T-TTATA-AATAATATAAT
1 TATTATATAA-AA-ATAAT
727161 TATTATATAAAAATAAT
1 TATTATATAAAAATAAT
727178 TA
1 TA
727180 AAATATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 13 0.43
18 7 0.23
19 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTATATAAAAATAAT
Found at i:727195 original size:5 final size:5
Alignment explanation
Indices: 727146--727246 Score: 57
Period size: 5 Copynumber: 20.0 Consensus size: 5
727136 ATAATAATTT
* * * *
727146 TATAA -ATAA TATAA TTATTA TATAAA AATAA TTAAAA TATAA TATGA
1 TATAA TATAA TATAA -TATAA TAT-AA TATAA -TATAA TATAA TATAA
* * * *
727193 TATAA TATAA -AT-A TATAAA TATAT TAAAA TAAAA TA-AA TAATAA TAAAA
1 TATAA TATAA TATAA TAT-AA TATAA TATAA TATAA TATAA T-ATAA TATAA
727242 TATAA
1 TATAA
727247 AAATTTATAT
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
3 1 0.01
4 11 0.15
5 45 0.61
6 17 0.23
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (5 bp):
TATAA
Found at i:727207 original size:38 final size:38
Alignment explanation
Indices: 727165--727266 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 38
727155 TATAATTATT
* *
727165 ATATAAAAATA-ATTAAAATATAATATGAT-ATAATATAA
1 ATATAAAAATATATTAAAATAAAATA-AATAATAATA-AA
*
727203 ATATATAAATATATTAAAATAAAATAAATAATAATAAA
1 ATATAAAAATATATTAAAATAAAATAAATAATAATAAA
*
727241 ATATAAAAATTTATATTAATATAAAA
1 ATATAAAAA--TATATTAAAATAAAA
727267 AATTTTAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
38 22 0.40
39 19 0.35
40 14 0.25
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
ATATAAAAATATATTAAAATAAAATAAATAATAATAAA
Found at i:728012 original size:22 final size:23
Alignment explanation
Indices: 727979--728025 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
727969 TTGAAGTGAT
*
727979 ATATATTGAAAAATTAT-TATTA
1 ATATATTGAAAAATAATATATTA
728001 ATAT-TTGTAAAAATAATATATTA
1 ATATATTG-AAAAATAATATATTA
728024 AT
1 AT
728026 GTAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 12 0.55
23 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
ATATATTGAAAAATAATATATTA
Found at i:728503 original size:2 final size:2
Alignment explanation
Indices: 728491--728553 Score: 67
Period size: 2 Copynumber: 32.5 Consensus size: 2
728481 TTTTTACTCC
* *
728491 AT AT AT GT AT AT AT AT A- AT AT A- AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
728531 AT AC AA AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
728554 CCCTATCCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:728525 original size:24 final size:23
Alignment explanation
Indices: 728491--728553 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
728481 TTTTTACTCC
* *
728491 ATATATGTATATATATAATA-TA
1 ATATATATATATATATAATACAA
*
728513 ATATATATATATATACATATACAA
1 ATATATATATATATATA-ATACAA
*
728537 ATACATATATATATATA
1 ATATATATATATATATA
728554 CCCTATCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 15 0.44
23 3 0.09
24 16 0.47
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATATATATATATATAATACAA
Found at i:732793 original size:2 final size:2
Alignment explanation
Indices: 732786--732840 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
732776 TGAAAGCCAA
*
732786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
732828 AT AT AT AG AT AT A
1 AT AT AT AT AT AT A
732841 AATGGGTCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:732918 original size:28 final size:29
Alignment explanation
Indices: 732877--732933 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
732867 AAAACACAGA
732877 TTAAAAATTATTTAATTAAT-TATTATTT
1 TTAAAAATTATTTAATTAATATATTATTT
*
732905 TTAAAAA-TATTTTATTTAATATATTATTT
1 TTAAAAATTA-TTTAATTAATATATTATTT
732934 GAAAATAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 2 0.08
28 16 0.62
29 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTAAAAATTATTTAATTAATATATTATTT
Found at i:735003 original size:35 final size:35
Alignment explanation
Indices: 734961--735078 Score: 143
Period size: 35 Copynumber: 3.4 Consensus size: 35
734951 TATGTGTATA
*
734961 TATATTAAATAATTAAAATTAATTAAAATTATATT
1 TATATTAAATAATTAAAATTAATTAAAATCATATT
* *
734996 TATATTAAATAA-TAAAATACAAATAAAATCATATT
1 TATATTAAATAATTAAAAT-TAATTAAAATCATATT
*
735031 TA-AGTTAAATAATTAAAAATT-ATTAAAATGATATT
1 TATA-TTAAATAATT-AAAATTAATTAAAATCATATT
*
735066 TATGTTAAATAAT
1 TATATTAAATAAT
735079 AATTTAATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
34 7 0.10
35 58 0.82
36 1 0.01
37 5 0.07
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (35 bp):
TATATTAAATAATTAAAATTAATTAAAATCATATT
Found at i:735224 original size:26 final size:27
Alignment explanation
Indices: 735177--735250 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
735167 TAATTAATTC
* *
735177 ATATTAATTTTATAATAATAAAATTTAT
1 ATATT-ATTATATAATAATAAAATATAT
*
735205 ATATTATTATATAA-ACTAAAATATAT
1 ATATTATTATATAATAATAAAATATAT
*
735231 CTATTA-TA-A-AATAATAAAAT
1 ATATTATTATATAATAATAAAAT
735251 CTATTTTCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 2 0.05
24 8 0.20
25 2 0.05
26 15 0.38
27 8 0.20
28 5 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATTATTATATAATAATAAAATATAT
Found at i:735631 original size:15 final size:14
Alignment explanation
Indices: 735607--735644 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
735597 TGTGAGTGAA
735607 AAAATAATTTTTTT
1 AAAATAATTTTTTT
735621 AAAATATATTTTTTT
1 AAAATA-ATTTTTTT
*
735636 AAAAAAATT
1 AAAATAATT
735645 AATAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATAATTTTTTT
Found at i:736234 original size:3 final size:3
Alignment explanation
Indices: 736228--736279 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
736218 ATTGTTGTTG
736228 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
736276 TTA T
1 TTA T
736280 CATATAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:736880 original size:11 final size:11
Alignment explanation
Indices: 736864--736888 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
736854 GCCGTTAACA
736864 AAATCCAAAAT
1 AAATCCAAAAT
736875 AAATCCAAAAT
1 AAATCCAAAAT
736886 AAA
1 AAA
736889 ATGTCTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATCCAAAAT
Found at i:737174 original size:21 final size:21
Alignment explanation
Indices: 737131--737199 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
737121 TATTTAAATA
*
737131 TTAA-TTTAATAATTAATATATT
1 TTAATTTTAATAAAT-A-ATATT
*
737153 TTTATTTTAATAAATAATATT
1 TTAATTTTAATAAATAATATT
*
737174 TAAATTTTAAATAAATAA-ATT
1 TTAATTTT-AATAAATAATATT
737195 TTAAT
1 TTAAT
737200 AAAAAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 18 0.45
22 13 0.32
23 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATTTTAATAAATAATATT
Found at i:737191 original size:49 final size:47
Alignment explanation
Indices: 737085--737191 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 47
737075 TATTAAAAGT
*
737085 AATAAATAAAATTAATTATTTTTAATATTATAATATTATTTAAATATTA
1 AATAAAT--AATTAATTATTTTTAATATTATAATAATATTTAAATATTA
* * * *
737134 ATTTAATAATTAATATATTTTT-ATTTTAATAAATAATATTTAAATTTTA
1 AATAAATAATTAAT-TATTTTTAATATT-AT-AATAATATTTAAATATTA
737183 AATAAATAA
1 AATAAATAA
737192 ATTTTAATAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
47 11 0.23
48 9 0.19
49 28 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (47 bp):
AATAAATAATTAATTATTTTTAATATTATAATAATATTTAAATATTA
Found at i:737202 original size:14 final size:15
Alignment explanation
Indices: 737174--737208 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
737164 AAATAATATT
737174 TAAATTTTAAATAAA
1 TAAATTTTAAATAAA
737189 TAAATTTT-AATAAA
1 TAAATTTTAAATAAA
737203 -AAATTT
1 TAAATTT
737209 AAAAAAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAAATTTTAAATAAA
Found at i:737525 original size:7 final size:7
Alignment explanation
Indices: 737515--737545 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
737505 CATATAAAAT
737515 ATTTTAA
1 ATTTTAA
737522 ATTTTAA
1 ATTTTAA
737529 ATTTTAA
1 ATTTTAA
737536 ATTTTAA
1 ATTTTAA
737543 ATT
1 ATT
737546 AATAGCAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:737641 original size:22 final size:23
Alignment explanation
Indices: 737598--737646 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
737588 AATTTTTATA
*
737598 TTTTAAATTATATCAATTAAAT-
1 TTTTAAATTATATCAATCAAATC
* * *
737620 TTTTAATTTTTATTAATCAAATC
1 TTTTAAATTATATCAATCAAATC
737643 TTTT
1 TTTT
737647 TATTAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAAATTATATCAATCAAATC
Found at i:737648 original size:17 final size:17
Alignment explanation
Indices: 737626--737658 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
737616 AAATTTTTAA
*
737626 TTTTTATTAATCAAATC
1 TTTTTATTAATAAAATC
737643 TTTTTATTAATAAAAT
1 TTTTTATTAATAAAAT
737659 TATTAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTATTAATAAAATC
Found at i:743640 original size:6 final size:6
Alignment explanation
Indices: 743626--743660 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
743616 AATATATTTG
*
743626 TTTTAA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
743661 TACAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:748167 original size:3 final size:3
Alignment explanation
Indices: 748159--748200 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
748149 CAGCATAATT
748159 TTA TTA TTA TTA -TA TTA -TA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
748201 TAAGTTTCGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:748351 original size:2 final size:2
Alignment explanation
Indices: 748346--748393 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
748336 TTCAAGTCTA
748346 AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
748387 AT A- AT AT
1 AT AT AT AT
748394 TTTTAAAGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:750483 original size:11 final size:11
Alignment explanation
Indices: 750453--750485 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
750443 GTTTTAAACA
750453 TTAATTTAATTT
1 TTAATTT-ATTT
750465 TTAA-TTATTT
1 TTAATTTATTT
750475 TTAATTTATTT
1 TTAATTTATTT
750486 ATCAGAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.40
11 8 0.40
12 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTAATTTATTT
Found at i:750560 original size:15 final size:15
Alignment explanation
Indices: 750540--750585 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
750530 ACCAAAAAAT
750540 TAAAATTAATTTATA
1 TAAAATTAATTTATA
*
750555 TAAAATTAATTTAAA
1 TAAAATTAATTTATA
*
750570 TTAAAA-TAGTTTATA
1 -TAAAATTAATTTATA
750585 T
1 T
750586 GTTTCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 1 0.04
15 21 0.78
16 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TAAAATTAATTTATA
Found at i:750960 original size:13 final size:13
Alignment explanation
Indices: 750944--750968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
750934 CTGCTATTAA
750944 TTTAAAATTAAAT
1 TTTAAAATTAAAT
750957 TTTAAAATTAAA
1 TTTAAAATTAAA
750969 AATATTTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATTAAAT
Found at i:751312 original size:23 final size:22
Alignment explanation
Indices: 751286--751337 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
751276 AAATTTTGTA
751286 TTAAAAT-TTATGTTATTTAAAAT
1 TTAAAATATTAT-TTA-TTAAAAT
751309 TTAAAATATTATTTATTAAAA-
1 TTAAAATATTATTTATTAAAAT
751330 -TAAAATAT
1 TTAAAATAT
751338 ATCAATTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.29
22 6 0.21
23 10 0.36
24 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAAATATTATTTATTAAAAT
Found at i:751733 original size:16 final size:18
Alignment explanation
Indices: 751697--751733 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
751687 GGGCCGATTG
751697 TAAAATTCTGTTAAGATA
1 TAAAATTCTGTTAAGATA
*
751715 TAAAATT-TTTTAA-ATA
1 TAAAATTCTGTTAAGATA
751731 TAA
1 TAA
751734 TTTTAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAAATTCTGTTAAGATA
Found at i:752876 original size:15 final size:15
Alignment explanation
Indices: 752851--752889 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
752841 ATCATTTATT
752851 AATAT-TTTTAAAAA
1 AATATATTTTAAAAA
752865 AATATATTTTAAAAA
1 AATATATTTTAAAAA
752880 AATATATTTT
1 AATATATTTT
752890 TCACTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATATTTTAAAAA
Found at i:753319 original size:15 final size:15
Alignment explanation
Indices: 753299--753328 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
753289 ATAATAATAT
*
753299 TAAATTTTATTATTA
1 TAAATTATATTATTA
753314 TAAATTATATTATTA
1 TAAATTATATTATTA
753329 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATTATATTATTA
Found at i:753531 original size:12 final size:12
Alignment explanation
Indices: 753510--753539 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
753500 TAATATAATA
*
753510 TAATTTAATTTT
1 TAATTAAATTTT
753522 TAATTAAATTTT
1 TAATTAAATTTT
753534 TAATTA
1 TAATTA
753540 TTTAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTAAATTTT
Found at i:755696 original size:2 final size:2
Alignment explanation
Indices: 755689--755732 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
755679 TATAGCTACC
** *
755689 TA TA TA TA TA TA TA TA GC TA TC TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
755731 TA
1 TA
755733 GTGGCTTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:755705 original size:22 final size:22
Alignment explanation
Indices: 755679--755726 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
755669 CCATGTAATC
755679 TATAGCTACCTATATATATATA
1 TATAGCTACCTATATATATATA
*
755701 TATAGCTATCTATATATATATA
1 TATAGCTACCTATATATATATA
755723 TATA
1 TATA
755727 TATATAGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (22 bp):
TATAGCTACCTATATATATATA
Found at i:760110 original size:13 final size:14
Alignment explanation
Indices: 760074--760112 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
760064 AGGGGTGGTA
760074 TATATTATATATAG
1 TATATTATATATAG
*
760088 TAT-TTGTATAT-G
1 TATATTATATATAG
760100 TATATTATATATA
1 TATATTATATATA
760113 ATCATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 4 0.19
13 14 0.67
14 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (14 bp):
TATATTATATATAG
Found at i:760832 original size:21 final size:20
Alignment explanation
Indices: 760808--760852 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
760798 TTTTTTTTAA
760808 AATTCTAAA-TATTAAATATTC
1 AATTC-AAATTATTAAATA-TC
*
760829 AATTCAAATTTTTAAATATC
1 AATTCAAATTATTAAATATC
760849 AATT
1 AATT
760853 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTCAAATTATTAAATATC
Found at i:761482 original size:22 final size:22
Alignment explanation
Indices: 761454--761495 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
761444 ATATTAAAAT
761454 TTTTTATATTTATTAATATAAA
1 TTTTTATATTTATTAATATAAA
* *
761476 TTTTTATATTTCTTATTATA
1 TTTTTATATTTATTAATATA
761496 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATATTTATTAATATAAA
Found at i:761572 original size:17 final size:16
Alignment explanation
Indices: 761541--761591 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
761531 CTATTATATT
*
761541 TAATTATTTTATTATAA
1 TAATTATTAT-TTATAA
761558 TAATATATTATTTATAA
1 TAAT-TATTATTTATAA
* *
761575 -CATTATTATATATAA
1 TAATTATTATTTATAA
761590 TA
1 TA
761592 GTTACATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 11 0.39
16 2 0.07
17 10 0.36
18 5 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTATTATTTATAA
Found at i:766008 original size:17 final size:17
Alignment explanation
Indices: 765986--766026 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
765976 GAGATGGGAG
765986 AGGGGGTGGAGGGTGGGC
1 AGGGGG-GGAGGGTGGGC
* *
766004 AGGGGGGGGGGGTGTGC
1 AGGGGGGGAGGGTGGGC
766021 AGGGGG
1 AGGGGG
766027 ACGAAAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.10, C:0.05, G:0.76, T:0.10
Consensus pattern (17 bp):
AGGGGGGGAGGGTGGGC
Found at i:769889 original size:36 final size:36
Alignment explanation
Indices: 769848--769918 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
769838 ATGCATTGCA
* *
769848 TGTGGGGTTA-CAGACGCAACTGGCGCACTTGCATTT
1 TGTGGGGTTAGCAG-CGCAACAGGCACACTTGCATTT
*
769884 TGTGGGGTTAGCTGCGCAACAGGCACACTTGCATT
1 TGTGGGGTTAGCAGCGCAACAGGCACACTTGCATT
769919 ACCAATTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 29 0.94
37 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.27
Consensus pattern (36 bp):
TGTGGGGTTAGCAGCGCAACAGGCACACTTGCATTT
Found at i:770022 original size:2 final size:2
Alignment explanation
Indices: 770011--770060 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
770001 TCTTATAAAA
770011 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
770052 AT AT AT AT A
1 AT AT AT AT A
770061 GACTTGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:770215 original size:3 final size:3
Alignment explanation
Indices: 770207--770239 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
770197 AACGAAACTT
770207 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
770240 AATTATGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:771842 original size:26 final size:25
Alignment explanation
Indices: 771795--771846 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
771785 AAAAAAAATG
771795 TAAAAATATATATCTAGAAGAAATTT
1 TAAAAATATATATCTAGAAG-AATTT
*
771821 TAAAAATATA-ATCTAGCTAGAATTT
1 TAAAAATATATATCTAG-AAGAATTT
771846 T
1 T
771847 CTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 12 0.50
26 12 0.50
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.37
Consensus pattern (25 bp):
TAAAAATATATATCTAGAAGAATTT
Found at i:771960 original size:181 final size:182
Alignment explanation
Indices: 771647--772010 Score: 615
Period size: 181 Copynumber: 2.0 Consensus size: 182
771637 GAAAAAAAAT
*
771647 TAGCTAGAATTTTCTAAATATTTTTTAAAATCATATATATATATATACATAATATCAACAGATAA
1 TAGCTAGAATTTTCTAAATATTTTTTAAAATC--A-ATATATATATA-ATAATATCAAAAGATAA
* *
771712 ATGGTTATTTGATAAAATCTCCTTTTAATGACATGTAGTATAATTAGAATTGCATGCACTCATCA
62 ATGGTTATTTGATAAAATCTCCTTTTAATGACATGTAGTATAATTAGAATTGCATACACTAATCA
*
771777 TGTGGGTGAAAAAAAATGTAAAAATATATATCTAGAAGAAATTTTAAAAATATAATC
127 TGTGGGT-AAAAAAAATGTAAAAATATATATATAGAAGAAATTTTAAAAATATAATC
771834 TAGCTAGAATTTTCTAAATATTTTTTAAAATC-ATATATATAT-ATAATATCAAAAGATAAATGG
1 TAGCTAGAATTTTCTAAATATTTTTTAAAATCAATATATATATAATAATATCAAAAGATAAATGG
*
771897 TTATTTGATAAAATCTCCTTTTAATGACATGTAGTATAATTATAATTGCATACACTAATCATGTG
66 TTATTTGATAAAATCTCCTTTTAATGACATGTAGTATAATTAGAATTGCATACACTAATCATGTG
*
771962 GGTAAAAAAAATTTAAAAATATATATATAGAAGAAATTTTAAAAATATA
131 GGTAAAAAAAATGTAAAAATATATATATAGAAGAAATTTTAAAAATATA
772011 TACTTAGATT
Statistics
Matches: 171, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
180 44 0.26
181 85 0.50
183 10 0.06
187 32 0.19
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (182 bp):
TAGCTAGAATTTTCTAAATATTTTTTAAAATCAATATATATATAATAATATCAAAAGATAAATGG
TTATTTGATAAAATCTCCTTTTAATGACATGTAGTATAATTAGAATTGCATACACTAATCATGTG
GGTAAAAAAAATGTAAAAATATATATATAGAAGAAATTTTAAAAATATAATC
Found at i:774956 original size:6 final size:6
Alignment explanation
Indices: 774945--774974 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
774935 CTCTTGTATA
774945 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
774975 TTAAAATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:775555 original size:13 final size:13
Alignment explanation
Indices: 775537--775561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
775527 TATTATGCTT
775537 TGTATCGATACAA
1 TGTATCGATACAA
775550 TGTATCGATACA
1 TGTATCGATACA
775562 TGCTCAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:775637 original size:20 final size:20
Alignment explanation
Indices: 775612--775664 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
775602 CTAAGTAAAA
*
775612 TGTATCGATACATG-GGACAT
1 TGTATCGATACATGAAGA-AT
775632 TGTATCGATACATGAAGAAT
1 TGTATCGATACATGAAGAAT
775652 TGTATCGATACAT
1 TGTATCGATACAT
775665 TATGTCCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAT
Found at i:783982 original size:19 final size:20
Alignment explanation
Indices: 783958--784010 Score: 99
Period size: 19 Copynumber: 2.7 Consensus size: 20
783948 ATCAATATAA
783958 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
783977 TGTATCGATACATGCTCAAT
1 TGTATCGATACATGCTCAAT
783997 TGTATCGATACATG
1 TGTATCGATACATG
784011 AAACTAGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:784076 original size:33 final size:33
Alignment explanation
Indices: 784039--784105 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
784029 CTAAGTGAAA
* *
784039 TGTATTAATACATG-GGATATTGTATCCATACAT
1 TGTATCAATACATGAAGA-ATTGTATCCATACAT
* *
784072 TGTATCGATACATGAAGAATTGTATCGATACAT
1 TGTATCAATACATGAAGAATTGTATCCATACAT
784105 T
1 T
784106 ATGCTCAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (33 bp):
TGTATCAATACATGAAGAATTGTATCCATACAT
Found at i:785170 original size:20 final size:20
Alignment explanation
Indices: 785134--785184 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
785124 TCGTGTAATT
*
785134 ATATTT-AATTGATATTTAAA
1 ATATTTAAATTGAAATTT-AA
*
785154 ATATTTAAATT-AAATTTTA
1 ATATTTAAATTGAAATTTAA
785173 ATATTTATAATT
1 ATATTTA-AATT
785185 TTTTTATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 15 0.56
21 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATTTAAATTGAAATTTAA
Found at i:785337 original size:2 final size:2
Alignment explanation
Indices: 785332--785366 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
785322 CTGTTGGTTT
*
785332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
785367 GAGAGGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.