Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:582455 original size:29 final size:31
Alignment explanation
Indices: 582423--582482 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
582413 AAACTTTGAA
**
582423 TAAATTCAATT-AAGTCTTAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
582452 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
582483 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:584004 original size:19 final size:19
Alignment explanation
Indices: 583982--584112 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
583972 GGAAATTACT
583982 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
584001 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
584015 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
584034 ATCGCAATGC----T-AAT
1 ATCGCAATGCGAAATGAAA
* * *
584048 TTTGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
584067 ATCGCAA--CG--A-GGAA
1 ATCGCAATGCGAAATGAAA
584081 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
584100 ATCGCAACGCGAA
1 ATCGCAATGCGAA
584113 TTTAATTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 29 0.34
15 3 0.04
16 4 0.05
17 4 0.05
18 3 0.04
19 42 0.49
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:584024 original size:33 final size:33
Alignment explanation
Indices: 583982--584108 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
583972 GGAAATTACT
583982 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
584015 ATCGCAATGCGAAATGAAAATCGCAATGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
584047 TTTTGCAATACGAAATGAAAATCGCAACGAG-GAA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAG-A
584081 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
584109 CGAATTTAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.01
33 77 0.97
34 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:584091 original size:66 final size:66
Alignment explanation
Indices: 583985--584115 Score: 219
Period size: 66 Copynumber: 2.0 Consensus size: 66
583975 AATTACTATC
* * *
583985 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCTAATTT
1 GCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
584050 T
66 T
584051 GCAATACGAAATGAAAATCGCAACGAG-GAAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 GCAATACGAAATGAAAATCGCAACGAGAG-AATCGCAATGCGAAATGAAAATCGCAACGCGAATT
584115 T
65 T
584116 AATTTCGCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 1 0.02
66 60 0.98
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (66 bp):
GCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:584159 original size:33 final size:33
Alignment explanation
Indices: 584108--584197 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
584098 AAATCGCAAC
* *
584108 GCGAATTTAATTTCGCGTTGCGATTCTCTCCTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCCTT
*
584141 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCCTT
*
584174 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
584198 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCCTT
Found at i:584163 original size:19 final size:19
Alignment explanation
Indices: 584139--584197 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
584129 GATTCTCTCC
584139 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
584158 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
*
584172 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
584191 TTGCGAT
1 TTGCGAT
584198 AGTACTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
16 3 0.09
17 3 0.09
19 16 0.50
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:584323 original size:14 final size:14
Alignment explanation
Indices: 584304--584340 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
584294 CATCAATTAA
584304 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
584318 ACAAATCACCTTTT
1 ACAAATCAACTTTT
584332 ACAAATCAA
1 ACAAATCAA
584341 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:585697 original size:42 final size:41
Alignment explanation
Indices: 585638--585842 Score: 153
Period size: 42 Copynumber: 4.9 Consensus size: 41
585628 GTGAATCGGG
* *
585638 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
585680 CTCTTGAACGGTGGGAGGGAACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGG-ACTCTTCAAGG-ATGACAGTGGC
* * * * * *
585722 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * *
585764 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * ** * *
585806 CTCTTCAACGATAAGAGTGGACTCTTGAGGGATGACA
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACA
585843 TGCGAGTTGG
Statistics
Matches: 124, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
41 8 0.06
42 106 0.85
43 10 0.08
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:585704 original size:21 final size:21
Alignment explanation
Indices: 585638--585704 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
585628 GTGAATCGGG
*
585638 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGGTGGGAGGGAC
* * **
585659 CTCTTCAACGATGACAGTGG-C
1 CTCTTGAACGGTGGGAG-GGAC
*
585680 CTCTTGAACGGTGGGAGGGAA
1 CTCTTGAACGGTGGGAGGGAC
585701 CTCT
1 CTCT
585705 CGAGGAATGA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGAC
Found at i:585761 original size:21 final size:21
Alignment explanation
Indices: 585737--585842 Score: 61
Period size: 21 Copynumber: 5.0 Consensus size: 21
585727 CAATGATAGG
585737 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
* * **
585758 AGTGGCCTCTTGAACGG-TGGG
1 AGTGGACTCTTG-AGGGATGAC
* * * *
585779 AGGGGACTCTCGAGGAATGAT
1 AGTGGACTCTTGAGGGATGAC
* * * ** * *
585800 AGGGGCCTCTTCAACGATAAG
1 AGTGGACTCTTGAGGGATGAC
585821 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
585842 A
1 A
585843 TGCGAGTTGG
Statistics
Matches: 57, Mismatches: 26, Indels: 4
0.66 0.30 0.05
Matches are distributed among these distances:
20 2 0.04
21 52 0.91
22 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.22
Consensus pattern (21 bp):
AGTGGACTCTTGAGGGATGAC
Found at i:585779 original size:84 final size:84
Alignment explanation
Indices: 585668--585842 Score: 323
Period size: 84 Copynumber: 2.1 Consensus size: 84
585658 CCTCTTCAAC
*
585668 GATGACAGTGGCCTCTTGAACGGTGGGAGGGAACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGAACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
585733 TAGGAGTGGACTCTTGAGG
66 TAAGAGTGGACTCTTGAGG
*
585752 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGAACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
585817 TAAGAGTGGACTCTTGAGG
66 TAAGAGTGGACTCTTGAGG
585836 GATGACA
1 GATGACA
585843 TGCGAGTTGG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGAACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAAGAGTGGACTCTTGAGG
Found at i:586171 original size:93 final size:90
Alignment explanation
Indices: 586062--586246 Score: 266
Period size: 91 Copynumber: 2.0 Consensus size: 90
586052 ATTTCAAACT
586062 TTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAGTTTA
1 TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT----AGTTTA
* *
586125 GTAGAATTGGCAGTAACCGAATAAATTTAC
61 GCAGAATTGGCAGCAACCGAATAAATTTAC
586155 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
1 TTCAACCAAAAGACAAAAC-AAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAG
* *
586220 TATTGGCAGCAACTGAATAAATTTAC
65 AATTGGCAGCAACCGAATAAATTTAC
586246 T
1 T
586247 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 33 0.39
93 19 0.22
95 32 0.38
96 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATAAATAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:588396 original size:20 final size:20
Alignment explanation
Indices: 588371--588424 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
588361 GATTTTGTAT
588371 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
588391 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
588411 TATCGCATTGCGAT
1 TATCGCATTGCGAT
588425 TTACCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:588457 original size:20 final size:21
Alignment explanation
Indices: 588413--588464 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
588403 ATAGTCAGTA
588413 TCGCATTGCGATTTACCCAAT
1 TCGCATTGCGATTTACCCAAT
* **
588434 TCGCGTTGCGATTTA-CTTAT
1 TCGCATTGCGATTTACCCAAT
588454 TCGCATTGCGA
1 TCGCATTGCGA
588465 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTACCCAAT
Found at i:593665 original size:18 final size:18
Alignment explanation
Indices: 593634--593668 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
593624 TAAGAAAATA
*
593634 AATTGCAAATTGCTTTTG
1 AATTGCAAAATGCTTTTG
*
593652 AATTGGAAAATGCTTTT
1 AATTGCAAAATGCTTTT
593669 AAAAAAATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (18 bp):
AATTGCAAAATGCTTTTG
Found at i:594090 original size:16 final size:16
Alignment explanation
Indices: 594066--594098 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
594056 CGGTGTTCCT
*
594066 TGCGGAGTACGTTGCA
1 TGCGAAGTACGTTGCA
594082 TGCGAAGTACGTTGCA
1 TGCGAAGTACGTTGCA
594098 T
1 T
594099 ATAATTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.27
Consensus pattern (16 bp):
TGCGAAGTACGTTGCA
Found at i:604383 original size:48 final size:48
Alignment explanation
Indices: 604282--604400 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
604272 CCGGTGAAGC
* *
604282 CTCCC-ACTCTAGCACCACCAACC-AGGCCCCTACTCCACCATATAAG
1 CTCCCAACTCCAGCACCACCAACCAAGACCCCTACTCCACCATATAAG
* *
604328 CTTCCAACTCCAGCACCGCCAACCAAGACCCCATCACT-C-CCATATAAG
1 CTCCCAACTCCAGCACCACCAACCAAGACCCC-T-ACTCCACCATATAAG
604376 CTCCCAACTCCAGCACCACCAACCA
1 CTCCCAACTCCAGCACCACCAACCA
604401 GGGCCCATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 4 0.06
47 16 0.25
48 38 0.60
49 2 0.03
50 3 0.05
ACGTcount: A:0.30, C:0.49, G:0.08, T:0.13
Consensus pattern (48 bp):
CTCCCAACTCCAGCACCACCAACCAAGACCCCTACTCCACCATATAAG
Found at i:604431 original size:26 final size:26
Alignment explanation
Indices: 604378--604432 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
604368 CATATAAGCT
*
604378 CCCAACTCCAGCACCACCAACCAGGG
1 CCCAACTCCAGCACCACCAACCAAGG
* **
604404 CCCATCTCCAGCACCACCAGTCAAGG
1 CCCAACTCCAGCACCACCAACCAAGG
604430 CCC
1 CCC
604433 CAACACCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.51, G:0.15, T:0.07
Consensus pattern (26 bp):
CCCAACTCCAGCACCACCAACCAAGG
Found at i:604462 original size:48 final size:48
Alignment explanation
Indices: 604404--604614 Score: 154
Period size: 48 Copynumber: 4.5 Consensus size: 48
604394 CCAACCAGGG
** *
604404 CCCATCTCCAGCACCACCAGTCAAGGCCCCAACACCACCGTATAAGTC
1 CCCATCTCCAGCACCACCAGTCAAGGCCCCAACACCACCACATAAGCC
* * * *
604452 CCCGTCTCCAGCACCACCAGTCAAGTCCCCTACACCCCCACATAAGCC
1 CCCATCTCCAGCACCACCAGTCAAGGCCCCAACACCACCACATAAGCC
* ** * * *
604500 CCCAACTCCTTCACCACCAGTCAA-GCCTCCTACTTCC-CCATATAAGCC
1 CCCATCTCCAGCACCACCAGTCAAGGCC-CCAAC-ACCACCACATAAGCC
* * * *
604548 CCCAACT-C--CACCACCAGTCAA-GCCTCCTACTTCC-CCATATAAGCC
1 CCCATCTCCAGCACCACCAGTCAAGGCC-CCAAC-ACCACCACATAAGCC
*
604593 CCCAACT-C--CACCACCAGTCAAG
1 CCCATCTCCAGCACCACCAGTCAAG
604615 CCTCCTACTT
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 58 0.40
47 3 0.02
48 83 0.57
49 2 0.01
ACGTcount: A:0.27, C:0.49, G:0.09, T:0.15
Consensus pattern (48 bp):
CCCATCTCCAGCACCACCAGTCAAGGCCCCAACACCACCACATAAGCC
Found at i:604717 original size:48 final size:45
Alignment explanation
Indices: 604463--604771 Score: 446
Period size: 45 Copynumber: 6.8 Consensus size: 45
604453 CCGTCTCCAG
** *
604463 CACCACCAGTCAAGTCC-CCTACACCCCCACATAAGCCCCCAACTCC
1 CACCACCAGTCAAG-CCTCCTACTTCCCCATATAAGCCCCCAACT-C
604509 TTCACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
1 --CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
604556 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
1 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
604601 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
1 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
* *
604646 CACCACTAGTCAAGCCTCCTACTTCCCCATATAATCCCCCAACTCC
1 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACT-C
*
604692 TTCACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCTCCAACTC
1 --CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
** *
604739 CTTCACCA--CCAGCCTCCTACTT-CCCATATAAGC
1 CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGC
604772 ATCCTACTCC
Statistics
Matches: 246, Mismatches: 11, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
42 11 0.04
43 13 0.05
45 138 0.56
46 1 0.00
47 4 0.02
48 79 0.32
ACGTcount: A:0.26, C:0.48, G:0.06, T:0.19
Consensus pattern (45 bp):
CACCACCAGTCAAGCCTCCTACTTCCCCATATAAGCCCCCAACTC
Found at i:605453 original size:29 final size:29
Alignment explanation
Indices: 605412--605481 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
605402 TACTGGTCTG
605412 CTTA-AAATTATGTAAAAGGCAAATTTCT
1 CTTATAAATTATGTAAAAGGCAAATTTCT
* *
605440 CTTATAAATTATGTGAAAGGCGAATTTCT
1 CTTATAAATTATGTAAAAGGCAAATTTCT
605469 CTTATAAATTATG
1 CTTATAAATTATG
605482 AAACCGTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 4 0.10
29 35 0.90
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (29 bp):
CTTATAAATTATGTAAAAGGCAAATTTCT
Found at i:610703 original size:6 final size:6
Alignment explanation
Indices: 610692--610760 Score: 138
Period size: 6 Copynumber: 11.5 Consensus size: 6
610682 GACACGTATT
610692 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
610740 ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACC
610761 CGAGACGAGA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:611350 original size:42 final size:39
Alignment explanation
Indices: 611291--611552 Score: 188
Period size: 42 Copynumber: 6.2 Consensus size: 39
611281 GTAATACGTG
*
611291 TATCGCAA-CGAACTTGGAATAAATCGCAACGCGAACTTGGAC
1 TATCGCAAGCGAACTTGGAAT--ATCGCAA--CGAACTTGGAA
* *
611333 TATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTCGACA
1 TATCGCAAGCGAACTTGGAAT--ATCGCAA--CGAACTTGGA-A
* *
611376 -ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAA
1 TATCGCAA-GCGAACTTGGAATATCGCAACGAACTTGGAA
* *
611415 TAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAA
1 T--ATCGCAA-GCGAACTTGGAATATCGCAACGAACTTGGAA
* * *
611457 TAAATCGCAAAGCGAACTTAGACTATCGCAACGAATTTGGAA
1 T--ATCGC-AAGCGAACTTGGAATATCGCAACGAACTTGGAA
* *
611499 TAAATCGCAACACGAACTTGGAATAAATCGCAACGCGAACTTGGAC
1 T--ATCGCAA-GCGAACTTGGAAT--ATCGCAA--CGAACTTGGAA
611545 TATCGCAA
1 TATCGCAA
611553 TGTGAATATG
Statistics
Matches: 191, Mismatches: 17, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 8 0.04
41 2 0.01
42 144 0.75
43 2 0.01
44 24 0.13
46 10 0.05
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (39 bp):
TATCGCAAGCGAACTTGGAATATCGCAACGAACTTGGAA
Found at i:611391 original size:63 final size:63
Alignment explanation
Indices: 611312--611455 Score: 256
Period size: 63 Copynumber: 2.3 Consensus size: 63
611302 ACTTGGAATA
611312 AATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 AATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
*
611375 AATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGAC
1 AATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
*
611438 TATCGCAA--CGAACTTGGA
1 AATCGCAACGCGAACTTGGA
611456 ATAAATCGCA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
61 10 0.13
63 69 0.87
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (63 bp):
AATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
Found at i:611443 original size:84 final size:85
Alignment explanation
Indices: 611340--611552 Score: 270
Period size: 84 Copynumber: 2.5 Consensus size: 85
611330 GACTATCGCA
* * * * *
611340 ACGAATTTGGAATAAATCGCAACGCGAACTTCGACAATCGCAACGCGAACTTGGACTATCGCAAC
1 ACGAACTTCGAAT-AATCGCAACGCGAACTTGGACAATCGCAAAGCGAACTTAGACTATCGCAAC
*
611405 GAATTTGGAATAAATCGCAAT
65 GAATTTGGAATAAATCGCAAC
* * *
611426 GCGAACTTCGACT-ATCGCAA--CGAACTTGGAATAAATCGCAAAGCGAACTTAGACTATCGCAA
1 ACGAACTTCGAATAATCGCAACGCGAACTTGG-A-CAATCGCAAAGCGAACTTAGACTATCGCAA
611488 CGAATTTGGAATAAATCGCAAC
64 CGAATTTGGAATAAATCGCAAC
* *
611510 ACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
1 ACGAACTTCGAAT-AATCGCAACGCGAACTTGGACAATCGCAA
611553 TGTGAATATG
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
82 8 0.07
83 1 0.01
84 65 0.61
86 23 0.21
87 1 0.01
88 9 0.08
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (85 bp):
ACGAACTTCGAATAATCGCAACGCGAACTTGGACAATCGCAAAGCGAACTTAGACTATCGCAACG
AATTTGGAATAAATCGCAAC
Found at i:611473 original size:105 final size:103
Alignment explanation
Indices: 611291--611552 Score: 389
Period size: 105 Copynumber: 2.5 Consensus size: 103
611281 GTAATACGTG
*
611291 TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAA
1 TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAA
* * *
611356 TCGCAACGCGAACTTCGACAATCGCAACGCGAACTTGGAC
66 TCGCAAAGCGAACTTAGACAATCGCAA--CGAACTTGGAA
* * *
611396 TATCGCAACGAATTTGGAATAAATCGCAATGCGAACTTCGACTATCGCAACGAACTTGGAATAAA
1 TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAA
* *
611461 TCGCAAAGCGAACTTAGACTATCGCAACGAATTTGGAA
66 TCGCAAAGCGAACTTAGACAATCGCAACGAACTTGGAA
611499 TAAATCGCAACACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
1 T--ATCGC-A-ACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
611553 TGTGAATATG
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
103 10 0.07
105 90 0.64
106 1 0.01
107 40 0.28
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (103 bp):
TATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAA
TCGCAAAGCGAACTTAGACAATCGCAACGAACTTGGAA
Found at i:616239 original size:19 final size:19
Alignment explanation
Indices: 616215--616260 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
616205 TGAAAATGAT
616215 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
616234 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
616253 TTGATTTT
1 TTGATTTT
616261 AAAAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:620947 original size:20 final size:20
Alignment explanation
Indices: 620911--620948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
620901 ATCCTATTCC
*
620911 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTCATTCCCA
620931 CTGGTAAT-TTTACATTCC
1 CTGGTAATCTTT-CATTCC
620949 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTCATTCCCA
Found at i:628989 original size:29 final size:29
Alignment explanation
Indices: 628960--629050 Score: 146
Period size: 29 Copynumber: 3.1 Consensus size: 29
628950 TGCTATTTTT
* *
628960 GTAAATATTTTTAAAAGGGTGTTAATTTT
1 GTAAATATTTTTAAAAGGGTGTTAGTTTC
628989 GTAAATATTTTTAAAAGGGTGTTAGTTTC
1 GTAAATATTTTTAAAAGGGTGTTAGTTTC
* *
629018 ATAAGTATTTTTAAAAGGGTGTTAGTTTC
1 GTAAATATTTTTAAAAGGGTGTTAGTTTC
629047 GTAA
1 GTAA
629051 TTAATTTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (29 bp):
GTAAATATTTTTAAAAGGGTGTTAGTTTC
Found at i:631585 original size:20 final size:22
Alignment explanation
Indices: 631560--631617 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
631550 TTCCCCTTGA
631560 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
631580 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
631603 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
631618 CTACCCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:631630 original size:19 final size:19
Alignment explanation
Indices: 631606--631656 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
631596 CTTTAACATG
*
631606 TGCATCGATGCACTACCCA
1 TGCATCGATACACTACCCA
631625 TGCATCGATACACTACCCA
1 TGCATCGATACACTACCCA
631644 TGCATCGATACAC
1 TGCATCGATACAC
631657 AAATTACCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (19 bp):
TGCATCGATACACTACCCA
Found at i:631711 original size:64 final size:64
Alignment explanation
Indices: 631624--631764 Score: 153
Period size: 64 Copynumber: 2.2 Consensus size: 64
631614 TGCACTACCC
* * * *
631624 ATGCATCGATACACTACCCATGCATCGATACACAAATTACCCTCGATGTTTCCAT-TTTAAGGGG
1 ATGCATCGATGCACTACCCATGCATCGATACACAAATTACACTCGATGTTT-CATCTTTAAAGAG
* * * * * *
631688 ATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTGCATTCGATGTTTCTTCTTTAAAGAG
1 ATGCATCGATGCACTACC-CATGCATCGATACACAAATTACACTCGATGTTTCATCTTTAAAGAG
631752 -TGCATCGATGCAC
1 ATGCATCGATGCAC
631765 ATTAAATATG
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
63 17 0.26
64 48 0.74
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCATCGATGCACTACCCATGCATCGATACACAAATTACACTCGATGTTTCATCTTTAAAGAG
Found at i:633366 original size:9 final size:9
Alignment explanation
Indices: 633352--633376 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
633342 AATTTCATAT
633352 ATATTTTAA
1 ATATTTTAA
633361 ATATTTTAA
1 ATATTTTAA
633370 ATATTTT
1 ATATTTT
633377 TTATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATATTTTAA
Found at i:633387 original size:16 final size:17
Alignment explanation
Indices: 633362--633394 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
633352 ATATTTTAAA
*
633362 TATTTTAAA-TATTTTT
1 TATTTAAAATTATTTTT
633378 TATTTAAAATTATTTTT
1 TATTTAAAATTATTTTT
633395 ATAAATCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTAAAATTATTTTT
Found at i:636667 original size:2 final size:2
Alignment explanation
Indices: 636660--636705 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
636650 AACATATTCA
636660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
636702 AT AT
1 AT AT
636706 GAGAAAAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:638818 original size:13 final size:13
Alignment explanation
Indices: 638800--638825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
638790 AAGTTGCTAT
638800 TAGGGTCGCCTAA
1 TAGGGTCGCCTAA
638813 TAGGGTCGCCTAA
1 TAGGGTCGCCTAA
638826 GGAGTTCATC
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:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TAGGGTCGCCTAA
Found at i:645427 original size:14 final size:14
Alignment explanation
Indices: 645408--645436 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
645398 AGTCTTTTAT
645408 TTTTGTATTTAAGA
1 TTTTGTATTTAAGA
645422 TTTTGTATTTAAGA
1 TTTTGTATTTAAGA
645436 T
1 T
645437 ATACGTTAGT
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:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTTGTATTTAAGA
Found at i:646283 original size:3 final size:3
Alignment explanation
Indices: 646277--646334 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
646267 CATTTAAATT
* * *
646277 TTA TTA TTA TTA TTA -AA TTTA TTA TTA CTAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA
646323 TTA TTA TTA TTA
1 TTA TTA TTA TTA
646335 ATATATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:646330 original size:31 final size:33
Alignment explanation
Indices: 646271--646352 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
646261 TTTTTTCATT
* *
646271 TAAATTTTATTATTATTATTAAATTTATTATTAC
1 TAAATATTATTATTATTATT-AATTTATTATTAA
646305 TAAATATTATTATTATTATT-A-TTATTATTAA
1 TAAATATTATTATTATTATTAATTTATTATTAA
*
646336 TATATATATATATATTA
1 TAAATAT-TAT-TATTA
646353 CAAGCCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 15 0.35
32 4 0.09
33 5 0.12
34 19 0.44
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (33 bp):
TAAATATTATTATTATTATTAATTTATTATTAA
Found at i:646407 original size:21 final size:21
Alignment explanation
Indices: 646369--646408 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
646359 CAAAGGACCC
*
646369 GGAGGCCCGTTTTACAAATAT
1 GGAGGCCCGTTATACAAATAT
646390 GGAGGCCCGGTTAT-CAAAT
1 GGAGGCCC-GTTATACAAAT
646409 CCCAAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (21 bp):
GGAGGCCCGTTATACAAATAT
Found at i:647813 original size:11 final size:11
Alignment explanation
Indices: 647738--647813 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
647728 TTTCATTTTA
647738 ATTATTATTATT
1 ATTATT-TTATT
647750 -TTATTTTATT
1 ATTATTTTATT
647760 ATTACTTTTGA-T
1 ATTA-TTTT-ATT
647772 A-TATGTTTAAATT
1 ATTAT-TTT--ATT
* *
647785 ATTATCTTCATG
1 ATTAT-TTTATT
647797 ATTATTTTATT
1 ATTATTTTATT
647808 ATTATT
1 ATTATT
647814 ATTAAGTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.12
11 23 0.45
12 14 0.27
13 3 0.06
14 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:653438 original size:11 final size:11
Alignment explanation
Indices: 653422--653476 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
653412 GCAAAGAAAG
653422 AAGAAAAAAAA
1 AAGAAAAAAAA
653433 AAGAAAAAAAA
1 AAGAAAAAAAA
* *
653444 GAGGAAAAAAAG
1 -AAGAAAAAAAA
*
653456 AA-AAAAAAGA
1 AAGAAAAAAAA
653466 AAGAAAAAAAA
1 AAGAAAAAAAA
653477 TTGAATCAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 8 0.22
11 19 0.53
12 9 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:653441 original size:9 final size:9
Alignment explanation
Indices: 653414--653473 Score: 68
Period size: 9 Copynumber: 6.3 Consensus size: 9
653404 CTCATCCAGC
653414 AAAGAAAGAA
1 AAAGAAA-AA
*
653424 GAA-AAAAA
1 AAAGAAAAA
653432 AAAGAAAAA
1 AAAGAAAAA
653441 AAAGAGGAAAA
1 AAAGA--AAAA
653452 AAAGAAAAA
1 AAAGAAAAA
653461 AAAGAAAGAA
1 AAAGAAA-AA
653471 AAA
1 AAA
653474 AAATTGAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 4 0.09
9 24 0.55
10 7 0.16
11 9 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:653451 original size:20 final size:21
Alignment explanation
Indices: 653422--653475 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
653412 GCAAAGAAAG
653422 AAGAAA-AAAAAAAGAAAAAA
1 AAGAAAGAAAAAAAGAAAAAA
*
653442 AAG-AGGAAAAAAAGAAAAAA
1 AAGAAAGAAAAAAAGAAAAAA
653462 AAGAAAGAAAAAAA
1 AAGAAAGAAAAAAA
653476 ATTGAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 20 0.67
21 9 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAAAAAAGAAAAAA
Found at i:655920 original size:114 final size:114
Alignment explanation
Indices: 655712--655937 Score: 371
Period size: 114 Copynumber: 2.0 Consensus size: 114
655702 AAGTTCCATG
*
655712 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * *
655777 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
*
655826 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
655891 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
655938 CTGCATGATC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:658221 original size:54 final size:54
Alignment explanation
Indices: 658132--658337 Score: 228
Period size: 54 Copynumber: 3.9 Consensus size: 54
658122 AGAAATCTTG
* * * *
658132 GCAGAAGCCAC-AGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGA
1 GCAGAAACCACAAG-AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
* **
658186 GCAAAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGA
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
* *
658240 GCAGAAGCCAC-AGAAAAGGATGAATGTGTTGTCAAGTG-TTT-T--ACATCTCGA
1 GCAGAAACCACAAG-AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCT-GA
* * *
658291 -CAGAAACCACATGAAAAGATGAATGTATTGTCAAATGTTTTATGAAC
1 GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAAC
658338 CAGTGATTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
50 36 0.28
51 6 0.05
52 1 0.01
53 5 0.04
54 78 0.61
55 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (54 bp):
GCAGAAACCACAAGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGA
Found at i:658733 original size:22 final size:22
Alignment explanation
Indices: 658704--658758 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
658694 ATCTACACTC
*
658704 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
658726 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
658748 TTCAAAGATGA
1 TTCAAAGATGA
658759 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:659534 original size:76 final size:76
Alignment explanation
Indices: 659434--660001 Score: 1037
Period size: 76 Copynumber: 7.5 Consensus size: 76
659424 ACTATTTCCC
* *
659434 TCATCTGTATGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
659499 AAACCTTAGGG
66 AAGCCTTAGGG
659510 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
659575 AAGCCTTCGGG
66 AAGCCTTAGGG
659586 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
659651 AAGCCTTAGGG
66 AAGCCTTAGGG
659662 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
659727 AAGCCTCAGGG
66 AAGCCTTAGGG
*
659738 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATCTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
659803 AAGCCTTAGGG
66 AAGCCTTAGGG
659814 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
659879 AAGCCTTAGGG
66 AAGCCTTAGGG
*
659890 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
659955 AAGCCTTCGGG
66 AAGCCTTAGGG
* * *
659966 TCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
660002 CATTTCCATC
Statistics
Matches: 478, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 478 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTAGGG
Found at i:660249 original size:21 final size:21
Alignment explanation
Indices: 660211--660250 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
660201 CAAAGGACCC
*
660211 GGAGGCCCGTTTTACAAATAT
1 GGAGGCCCGTTATACAAATAT
660232 GGAGGCCCGGTTAT-CAAAT
1 GGAGGCCC-GTTATACAAAT
660251 CCCAAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (21 bp):
GGAGGCCCGTTATACAAATAT
Found at i:661656 original size:11 final size:11
Alignment explanation
Indices: 661581--661656 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 11
661571 TTTCATTTTA
661581 ATTATTATTATT
1 ATTATT-TTATT
661593 -TTATTTTATT
1 ATTATTTTATT
661603 ATTACTTTTGA-T
1 ATTA-TTTT-ATT
661615 A-TATGTTTAAATT
1 ATTAT-TTT--ATT
* *
661628 ATTATCTTCATG
1 ATTAT-TTTATT
661640 ATTATTTTATT
1 ATTATTTTATT
661651 ATTATT
1 ATTATT
661657 ATTAAGTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.12
11 23 0.45
12 14 0.27
13 3 0.06
14 5 0.10
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:665070 original size:12 final size:12
Alignment explanation
Indices: 665053--665086 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
665043 AAAAACAAAT
665053 GCCACTGAAAGC
1 GCCACTGAAAGC
*
665065 GCCACTAAAAGC
1 GCCACTGAAAGC
*
665077 GCCATTGAAA
1 GCCACTGAAA
665087 CAAACGCCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (12 bp):
GCCACTGAAAGC
Found at i:670392 original size:21 final size:21
Alignment explanation
Indices: 670363--670412 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
670353 ATACCTCAGC
*
670363 ATTCCAACATTTATAATTTCA
1 ATTCAAACATTTATAATTTCA
670384 ATTCAAACATTTATAATTTCA
1 ATTCAAACATTTATAATTTCA
670405 ATTCAAAC
1 ATTCAAAC
670413 TTTCCTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTCAAACATTTATAATTTCA
Found at i:676496 original size:32 final size:31
Alignment explanation
Indices: 676421--676505 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
676411 CTAAAGTGAC
* * *
676421 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCCGCGGCCCTAAGATTAT
* *
676452 T-TTCGGGTAGGCCCCGCGGCCCTAAGATGTGT
1 TCTT-AGGTAGGCCCCGCGGCCCTAAGAT-TAT
* *
676484 TCTTAGGTAGGCCTCGTGGCCC
1 TCTTAGGTAGGCCCCGCGGCCC
676506 CAAAACTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.05
31 21 0.49
32 18 0.42
33 2 0.05
ACGTcount: A:0.13, C:0.27, G:0.32, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCCGCGGCCCTAAGATTAT
Found at i:695003 original size:13 final size:14
Alignment explanation
Indices: 694965--695006 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
694955 GTTATTTTTA
694965 TTTATATATATTAAT
1 TTTATATATATT-AT
*
694980 TTTATAAATATTAT
1 TTTATATATATTAT
694994 TTTAT-TATATTAT
1 TTTATATATATTAT
695007 AATAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.28
14 7 0.28
15 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATATATATTAT
Found at i:695518 original size:21 final size:20
Alignment explanation
Indices: 695432--695589 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
695422 AAATGACCAA
**
695432 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
695451 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
695471 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
695491 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
695512 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
695533 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
695553 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
695574 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
695590 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:695605 original size:40 final size:40
Alignment explanation
Indices: 695556--695865 Score: 361
Period size: 40 Copynumber: 7.8 Consensus size: 40
695546 CGATTTTCCA
* * * *
695556 AAATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATC-CGT
* * * *
695596 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* * * * * *
695636 ATATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* * * *
695676 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* * *
695716 AAATCGTAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* *
695756 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* *
695796 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
* *
695836 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGAATCTGTAAATCGCAAC
695866 ACTGAAATTT
Statistics
Matches: 248, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
40 247 1.00
41 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGCGAATCTGTAAATCGCAACGAGAATCCGT
Found at i:695618 original size:20 final size:20
Alignment explanation
Indices: 695556--695865 Score: 288
Period size: 20 Copynumber: 15.5 Consensus size: 20
695546 CGATTTTCCA
* ** *
695556 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
695576 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
695596 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
695616 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
695636 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
695656 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
695676 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
695696 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * * *
695716 AAATCGTAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
695736 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
695756 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
695776 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
695796 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
695816 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
695836 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
695856 AAATCACAAC
1 AAATCGCAAC
695866 ACTGAAATTT
Statistics
Matches: 240, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.01
20 236 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:695642 original size:60 final size:60
Alignment explanation
Indices: 695556--695865 Score: 320
Period size: 60 Copynumber: 5.2 Consensus size: 60
695546 CGATTTTCCA
* ** * * *
695556 AAATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATC-CGTAAATCGCAACGCGTATCCGT
* * * * *
695616 AAATCGCAACGTGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* * * * * * * *
695676 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGTAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
* *
695736 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGT-ATCCGT
* * * * * *
695796 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
*
695856 AAATCACAAC
1 AAATCGCAAC
695866 ACTGAAATTT
Statistics
Matches: 208, Mismatches: 37, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
60 207 1.00
61 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGCGTATCCGT
Found at i:696584 original size:24 final size:24
Alignment explanation
Indices: 696545--696591 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
696535 AAATTTGGTC
696545 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
696569 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
696592 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:699092 original size:19 final size:19
Alignment explanation
Indices: 699023--699250 Score: 288
Period size: 19 Copynumber: 12.7 Consensus size: 19
699013 GCAACGAGAG
699023 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
699042 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
699056 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
699076 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
699095 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
699114 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
699134 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
699153 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
699172 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
699186 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
699205 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
699219 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
699238 AATCGCATTGCGA
1 AATCGCAATGCGA
699251 TTCTCCCGTT
Statistics
Matches: 184, Mismatches: 8, Indels: 34
0.81 0.04 0.15
Matches are distributed among these distances:
14 32 0.17
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 103 0.56
20 35 0.19
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:699131 original size:58 final size:53
Alignment explanation
Indices: 699023--699250 Score: 272
Period size: 58 Copynumber: 4.2 Consensus size: 53
699013 GCAACGAGAG
*
699023 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGC-GAAATGAA
699076 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGC-GAAATGAA
*
699134 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
699186 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
699238 AATCGCATTGCGA
1 AATCGCAATGCGA
699251 TTCTCCCGTT
Statistics
Matches: 159, Mismatches: 6, Indels: 21
0.85 0.03 0.11
Matches are distributed among these distances:
47 10 0.06
48 1 0.01
49 2 0.01
50 2 0.01
51 1 0.01
52 42 0.26
53 27 0.17
55 2 0.01
56 1 0.01
58 71 0.45
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:699191 original size:14 final size:14
Alignment explanation
Indices: 699172--699226 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
699162 GCGAAATGAA
699172 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
699186 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
699205 AATCGCAACGAGAG
1 AATCGCAACGAGAG
699219 AATCGCAA
1 AATCGCAA
699227 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:699195 original size:33 final size:36
Alignment explanation
Indices: 699051--699244 Score: 247
Period size: 33 Copynumber: 5.3 Consensus size: 36
699041 AAATCCCAAC
699051 ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GC-G-AATGAAAATCGCAATGCGAA
699090 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGC-GAA
699129 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
699167 ATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
699200 ATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
699233 ATTAAAATCGCA
1 ATGAAAATCGCA
699245 TTGCGATTCT
Statistics
Matches: 152, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
33 60 0.39
34 1 0.01
36 2 0.01
38 35 0.23
39 54 0.36
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (36 bp):
ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:699299 original size:19 final size:19
Alignment explanation
Indices: 699259--699356 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
699249 GATTCTCCCG
699259 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
699279 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
699298 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
699312 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
699331 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
699350 TTGCGAT
1 TTGCGAT
699357 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:699353 original size:52 final size:53
Alignment explanation
Indices: 699240--699356 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
699230 GAAATTAAAA
699240 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
699293 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
699345 TCGCATTGCGAT
1 TCGCATTGCGAT
699357 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:699481 original size:14 final size:14
Alignment explanation
Indices: 699462--699498 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
699452 CATCAATTAC
699462 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
699476 ACAAATCATCTTTT
1 ACAAATCAACTTTT
699490 ACAAATCAA
1 ACAAATCAA
699499 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:701446 original size:19 final size:19
Alignment explanation
Indices: 701406--701470 Score: 78
Period size: 18 Copynumber: 3.4 Consensus size: 19
701396 TAGTTTACTT
* *
701406 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
701426 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
701445 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAACCAAAA
701463 TCGCAACG
1 TCGCAACG
701471 ACAGAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.34
19 14 0.34
20 13 0.32
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:701480 original size:14 final size:14
Alignment explanation
Indices: 701461--701517 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
701451 CGCGAATGAA
*
701461 AATCGCAACGACAG
1 AATCGCAACGAAAG
701475 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
701492 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
701508 AATCGCAACG
1 AATCGCAACG
701518 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:701497 original size:33 final size:33
Alignment explanation
Indices: 701443--701534 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
701433 GCGAAACCAA
*
701443 AATCGCAACGCG-AATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
701475 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
701508 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
701535 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 11 0.20
33 45 0.80
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:701499 original size:19 final size:19
Alignment explanation
Indices: 701406--701539 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
701396 TAGTTTACTT
* *
701406 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
701426 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
701445 TCGCAACGCG-AATGAAAA
1 TCGCAACGCGAAATGAAAA
*
701463 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
701477 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
701496 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
701510 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
701529 TCGCAATGCGA
1 TCGCAACGCGA
701540 TTTTGGTTTC
Statistics
Matches: 95, Mismatches: 8, Indels: 23
0.75 0.06 0.18
Matches are distributed among these distances:
14 16 0.17
16 13 0.14
17 8 0.08
18 12 0.13
19 34 0.36
20 12 0.13
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:701557 original size:19 final size:19
Alignment explanation
Indices: 701535--701662 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
701525 AAAATCGCAA
701535 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
701554 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
701568 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
701586 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
701600 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
701619 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
701638 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
701658 TGCGA
1 TGCGA
701663 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 20 0.23
16 3 0.03
17 1 0.01
18 10 0.11
19 39 0.44
20 13 0.15
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:701620 original size:33 final size:34
Alignment explanation
Indices: 701535--701625 Score: 143
Period size: 32 Copynumber: 2.8 Consensus size: 34
701525 AAAATCGCAA
701535 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
701568 TGCGA-TTTGGTTTCGCGTTGCGATTC-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
**
701600 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
701626 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.45
Consensus pattern (34 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTTGTCGT
Found at i:701973 original size:91 final size:93
Alignment explanation
Indices: 701710--702079 Score: 682
Period size: 91 Copynumber: 4.1 Consensus size: 93
701700 ATGGATTGCA
701710 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
701774 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
701801 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
701866 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
701894 TTACTTTCAACC-AAA-ACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
701957 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
701985 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTT--A-AATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
702047 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
702075 TTACT
1 TTACT
702080 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 1, Indels: 9
0.96 0.00 0.03
Matches are distributed among these distances:
90 43 0.16
91 93 0.34
92 90 0.33
93 48 0.18
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:703792 original size:14 final size:14
Alignment explanation
Indices: 703773--703862 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
703763 TTGAAATGAA
703773 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
703787 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
703806 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
703820 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
703839 AATCGCAACGAGAG
1 AATCGCAACGAGAG
703853 AATCGCAACG
1 AATCGCAACG
703863 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:703805 original size:33 final size:33
Alignment explanation
Indices: 703765--703879 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
703755 TCTTTTGGTT
703765 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
703798 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
703831 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
703864 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
703880 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:703811 original size:19 final size:19
Alignment explanation
Indices: 703787--703884 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
703777 GCAACGAGAG
703787 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
703806 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
703820 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
703839 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
703853 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
703872 AATCGCAATGCGA
1 AATCGCAACGCGA
703885 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:703915 original size:14 final size:14
Alignment explanation
Indices: 703896--703952 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
703886 TTTGGTTTCG
703896 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
703910 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
703929 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
703943 CGTTGCGATT
1 CGTTGCGATT
703953 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:703928 original size:33 final size:33
Alignment explanation
Indices: 703880--703960 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
703870 AAAATCGCAA
**
703880 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
703913 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
703946 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
703961 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:703963 original size:21 final size:21
Alignment explanation
Indices: 703937--704012 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
703927 CGCGTTGCGA
703937 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
703958 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
703978 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
703999 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
704013 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:703993 original size:41 final size:41
Alignment explanation
Indices: 703936--704013 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
703926 TCGCGTTGCG
*
703936 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
703977 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
704014 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:704134 original size:33 final size:33
Alignment explanation
Indices: 704092--704162 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
704082 AATACTAACT
*
704092 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
704125 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
704158 TGAAA
1 TGAAA
704163 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:704392 original size:21 final size:22
Alignment explanation
Indices: 704341--704394 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
704331 ATGGTTGTGA
**
704341 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
704363 GGAAATCTTCGGAGAT-GGGAC
1 GGATTTCTTCGGAGATGGGGAC
704384 GGATTTCTTCG
1 GGATTTCTTCG
704395 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:704566 original size:20 final size:20
Alignment explanation
Indices: 704541--704694 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
704531 CTTTAAATAT
704541 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
704561 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
704583 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
704602 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
704622 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
704642 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
704662 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
704682 CGCGTTGCGATTT
1 CGCGTTGCGATTT
704695 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:704668 original size:40 final size:40
Alignment explanation
Indices: 704540--704694 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
704530 GCTTTAAATA
*
704540 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
704581 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
704621 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
704661 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
704695 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:704711 original size:21 final size:21
Alignment explanation
Indices: 704681--704763 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
704671 ATTTTCATAT
*
704681 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
704702 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
704723 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
704744 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
704764 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:704754 original size:42 final size:43
Alignment explanation
Indices: 704661--704759 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
704651 ATTTATGTGT
* *
704661 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
704702 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
704744 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
704760 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:705444 original size:22 final size:22
Alignment explanation
Indices: 705416--705458 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
705406 GTTGTCATGC
* *
705416 TGCTGTTGAGAGAAGAAGGTGT
1 TGCTGTTGAGAAAACAAGGTGT
705438 TGCTGTTGAGAAAACAAGGTG
1 TGCTGTTGAGAAAACAAGGTG
705459 ATGTAGTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.37, T:0.26
Consensus pattern (22 bp):
TGCTGTTGAGAAAACAAGGTGT
Found at i:709611 original size:18 final size:19
Alignment explanation
Indices: 709584--709632 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
709574 CTATAATTTC
* *
709584 TTTAAATTTAATGGTT-TA
1 TTTAATTTTAAAGGTTGTA
*
709602 TTTAATTTTAAAGTTTGTA
1 TTTAATTTTAAAGGTTGTA
709621 TTT-ATTTTAAAG
1 TTTAATTTTAAAG
709633 TTAAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTAATTTTAAAGGTTGTA
Found at i:711459 original size:2 final size:2
Alignment explanation
Indices: 711452--711486 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
711442 ACTTTACCCC
*
711452 AT AT AT AT AT AT AT AT AT AT AT AT AG AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
711487 TCATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 29 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (2 bp):
AT
Found at i:712953 original size:67 final size:67
Alignment explanation
Indices: 712825--712954 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 67
712815 CTGTCTGTAA
* * * ** *
712825 CCTTTGAGATTGTTTCTCTTCAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTTTTGAAACATA
1 CCTTTGAGATTCTTTCTCTCCAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTCGAAACATA
712890 AG
66 AG
* *
712892 CCTTTGAGTTTCTTTCTCTCCAAACAAA-TTTCATCTCGCTTGAGACAATTTTCCCTCGAAACA
1 CCTTTGAGATTCTTTCTCTCCAAACAAAGTTTCATCTCGCTTGAGAC-AGTTTCCCTCGAAACA
712955 CAAATTTTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
66 17 0.31
67 37 0.69
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (67 bp):
CCTTTGAGATTCTTTCTCTCCAAACAAAGTTTCATCTCGCTTGAGACAGTTTCCCTCGAAACATA
AG
Found at i:714401 original size:23 final size:23
Alignment explanation
Indices: 714371--714444 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
714361 CTCATATAAA
714371 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
714394 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
714417 TGCACCGAAGTTCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
714440 TGCAC
1 TGCAC
714445 TATAGTGCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:716255 original size:20 final size:21
Alignment explanation
Indices: 716218--716257 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
716208 AAATTAAGTT
716218 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
716239 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
716258 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:716512 original size:19 final size:19
Alignment explanation
Indices: 716488--716526 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
716478 TCGAATGCAT
716488 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
716507 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
716526 T
1 T
716527 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:716629 original size:64 final size:65
Alignment explanation
Indices: 716476--716634 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 65
716466 ATTAATTGAG
* * *** *
716476 CATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAA
1 CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAA
* **
716541 CATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-AA
1 CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCAAA
716604 A
65 A
*
716605 CATCGAATACATTTCATGCATCGATGCACA
1 CATCGAATGCATTTCATGCATCGATGCACA
716635 CTTGGTGCAC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
64 35 0.43
65 47 0.57
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
CATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAAAA
Found at i:722444 original size:20 final size:21
Alignment explanation
Indices: 722415--722470 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
722405 TTTGTGCTTC
*
722415 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
722435 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
722457 ATGCATCGATGCAT
1 ATGCATCGATGCAT
722471 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:723209 original size:21 final size:21
Alignment explanation
Indices: 723183--723242 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
723173 CCGTCCTCCC
723183 GTTCCTCAACATCCTAATCCT
1 GTTCCTCAACATCCTAATCCT
** *
723204 GTTCCTCTTCAACCTAATCCT
1 GTTCCTCAACATCCTAATCCT
*
723225 GATCCTCAAGC-TCCTAAT
1 GTTCCTCAA-CATCCTAAT
723243 GGCTTATTGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.07, T:0.33
Consensus pattern (21 bp):
GTTCCTCAACATCCTAATCCT
Found at i:724068 original size:21 final size:21
Alignment explanation
Indices: 724042--724085 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
724032 ACTCCGGGAG
*
724042 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
*
724063 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
724084 CT
1 CT
724086 CCTCCTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:724918 original size:20 final size:21
Alignment explanation
Indices: 724881--724920 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
724871 AAATTAAGTT
724881 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
724902 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
724921 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:725175 original size:19 final size:19
Alignment explanation
Indices: 725139--725189 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
725129 ATTAATTGAA
725139 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
725157 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
*
725176 CATCAATGCACTCT
1 CATCGATGCACTCT
725190 GAATATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:725314 original size:64 final size:65
Alignment explanation
Indices: 725137--725299 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
725127 GAATTAATTG
* * * *
725137 AACATCGAATGCATTCCATGCATCGATGCACTCTCCATGCATCAATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
725202 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
725265 A
65 A
725266 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
725300 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:728383 original size:31 final size:31
Alignment explanation
Indices: 728345--728413 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
728335 GGGTTGAGGG
*
728345 TTACCTATGTTATTCGGGACATATGGACTGT
1 TTACCTATGTTATTCGGGACATATGGACTGA
728376 TTACCTATGTTATTCGGGACATATGGACTGA
1 TTACCTATGTTATTCGGGACATATGGACTGA
728407 TTACCTA
1 TTACCTA
728414 GGTTCTTCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTATTCGGGACATATGGACTGA
Found at i:728432 original size:31 final size:31
Alignment explanation
Indices: 728345--728436 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
728335 GGGTTGAGGG
* * * *
728345 TTACCTATGTTATTCGGGACATATGGACTGT
1 TTACCTAGGTTATTCAGAACATATGGACTGA
* * *
728376 TTACCTATGTTATTCGGGACATATGGACTGA
1 TTACCTAGGTTATTCAGAACATATGGACTGA
*
728407 TTACCTAGGTTCTTCAGAATC-TATGGACTG
1 TTACCTAGGTTATTCAGAA-CATATGGACTG
728437 GTCCTTCGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 54 0.98
32 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTAGGTTATTCAGAACATATGGACTGA
Found at i:730175 original size:25 final size:24
Alignment explanation
Indices: 730147--730201 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
730137 GCGAAAAACC
*
730147 TAAAATATATAAAGAAAATAAAAAG
1 TAAAATATATAAA-AAAAGAAAAAG
* *
730172 TAAAGCTATCTAAAAAAAGAAAAAG
1 TAAA-ATATATAAAAAAAGAAAAAG
*
730197 AAAAA
1 TAAAA
730202 GTAAAATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (24 bp):
TAAAATATATAAAAAAAGAAAAAG
Found at i:731724 original size:20 final size:20
Alignment explanation
Indices: 731695--731737 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
731685 ATTCCACCAC
*
731695 ATGCAACTATATGCTACTAA
1 ATGCAACTATATGATACTAA
* *
731715 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATACTAA
731735 ATG
1 ATG
731738 GGCTTTTAGA
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:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATACTAA
Found at i:732481 original size:13 final size:13
Alignment explanation
Indices: 732463--732487 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
732453 TTCAAAGGTT
732463 TCAAAGAAGCAAA
1 TCAAAGAAGCAAA
732476 TCAAAGAAGCAA
1 TCAAAGAAGCAA
732488 GTCCTAGAGT
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:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (13 bp):
TCAAAGAAGCAAA
Found at i:740276 original size:20 final size:20
Alignment explanation
Indices: 740247--740287 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
740237 ATTCCACCAC
*
740247 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
740267 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
740287 A
1 A
740288 AGGGCTTTTA
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:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:741035 original size:13 final size:13
Alignment explanation
Indices: 741017--741041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
741007 TTCAAAGGTT
741017 TCAAAGAAGCAAA
1 TCAAAGAAGCAAA
741030 TCAAAGAAGCAA
1 TCAAAGAAGCAA
741042 GTCCTAGAGT
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:0.60, C:0.16, G:0.16, T:0.08
Consensus pattern (13 bp):
TCAAAGAAGCAAA
Found at i:748796 original size:20 final size:20
Alignment explanation
Indices: 748767--748809 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
748757 ATTCTACCAC
*
748767 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
748787 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
748807 ATG
1 ATG
748810 GGCTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:749414 original size:22 final size:24
Alignment explanation
Indices: 749389--749440 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
749379 CGAAATTTAG
*
749389 TGTAGCA-AGGGTATCGGTA-CAC
1 TGTAGCATAGGGTATCGATACCAC
*
749411 TGTA--ATAGGGTATCGATACCCC
1 TGTAGCATAGGGTATCGATACCAC
749433 TGTAGCAT
1 TGTAGCAT
749441 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 10 0.42
24 2 0.08
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (24 bp):
TGTAGCATAGGGTATCGATACCAC
Found at i:750158 original size:139 final size:138
Alignment explanation
Indices: 749687--750211 Score: 557
Period size: 139 Copynumber: 3.8 Consensus size: 138
749677 GGGTGTTACA
* * * * * ** *
749687 TAGACATCTTCAACACGAAGGAATAATTTCGTACACCGACCAGATCTCCTCAATTCGAAGGAGCA
1 TAGACATCCTCAACAAGAAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACGCGAATGAGCA
* * * * *
749752 GTTTCATCCTTAGACAATCAAACTTCCTCAACGCGAATGAACCATGTTATCTCCAAATTATCTCC
66 GTGTCATCCTCAGACAATCAAACTTCCTCAACGCGAAAGAACCGTGTTGTCT-CAAATTATCTCC
*
749817 AAATATGGC
130 AAATACGGC
* * * * ** *
749826 TAGACGTCCTCACCAAGAAGGAACAATGTCGTTCACCAACCAGATCTCCTCAACATGAAAT-AGT
1 TAGACATCCTCAACAAGAAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACGCG-AATGAGC
* * * * * *
749890 AGTGTCATCCTCAGACAATCAGACTTCATCAACGTGAATGAACCGTGTTGTCTCTAAATTATTTA
65 AGTGTCATCCTCAGACAATCAAACTTCCTCAACGCGAAAGAACCGTGTTGTCTC-AAATTATCTC
* *
749955 TAAAAACGGC
129 CAAATACGGC
* * * *
749965 TAGATATCCTCACCAAGAAGGAACAATGTCGTCCACTGATCAGATCTCCTCAACGCGAATGAGCA
1 TAGACATCCTCAACAAGAAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACGCGAATGAGCA
* * * *
750030 GTGTCATCCTTAGATAATCAGACTTTCTCAACGCGAAAGAACCGTGTTGTCTCAATATTATCTCC
66 GTGTCATCCTCAGACAATCAAACTTCCTCAACGCGAAAGAACCGTGTTGTCTCAA-ATTATCTCC
*
750095 ATATACGGC
130 AAATACGGC
* * * * * *
750104 TAGACGTCATCAACACGAATGAACAATATTGTCCACCGACCAGATCTCCTCAACGCGAATGAGCA
1 TAGACATCCTCAACAAGAAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACGCGAATGAGCA
* * * * * *
750169 ATATCATCCTCATATAACCAAACTTCCTCAACACGAAAGAACC
66 GTGTCATCCTCAGACAATCAAACTTCCTCAACGCGAAAGAACC
750212 ACATTATCTT
Statistics
Matches: 319, Mismatches: 63, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
138 6 0.02
139 311 0.97
140 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (138 bp):
TAGACATCCTCAACAAGAAGGAACAATGTCGTCCACCGACCAGATCTCCTCAACGCGAATGAGCA
GTGTCATCCTCAGACAATCAAACTTCCTCAACGCGAAAGAACCGTGTTGTCTCAAATTATCTCCA
AATACGGC
Found at i:750228 original size:278 final size:278
Alignment explanation
Indices: 749703--750229 Score: 635
Period size: 278 Copynumber: 1.9 Consensus size: 278
749693 TCTTCAACAC
* * ** *
749703 GAAGGAATAATTTCGTACACCGACCAGATCTCCTCAATTCGAAGGAGCAGTTTCATCCTTAGACA
1 GAAGGAACAATGTCGTACACCGACCAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTTAGACA
* *
749768 ATCAAACTTCCTCAACGCGAATGAACCATGTTATCTCCAAATTATCTCCAAATATGGCTAGACGT
66 ATCAAACTTCCTCAACGCGAAAGAACCATGTTATCTCCAAATTATCTCCAAATACGGCTAGACGT
* * * * * * * *
749833 CCTCACCAAGAAGGAACAATGTCGTTCACCAACCAGATCTCCTCAACATGAAATAGTAGTGTCAT
131 CATCAACAAGAAGGAACAATATCGTCCACCAACCAGATCTCCTCAACACGAAATAGCAATATCAT
* * ** * *** *
749898 CCTCAGACAATCAGACTTCATCAACGTGAATGAACCGTGTTGTCTCTAAATTATTTATAAAAACG
196 CCTCAGACAACCAAACTTCATCAACACGAAAGAACCACATTATCTCTAAATTATTTATAAAAACG
749963 GCTAGATATCCTCACCAA
261 GCTAGATATCCTCACCAA
* * * * *
749981 GAAGGAACAATGTCGTCCACTGATCAGATCTCCTCAACGCGAATGAGCAGTGTCATCCTTAGATA
1 GAAGGAACAATGTCGTACACCGACCAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTTAGACA
* * * * *
750046 ATCAGACTTTCTCAACGCGAAAGAACCGTGTTGTCT-CAATATTATCTCCATATACGGCTAGACG
66 ATCAAACTTCCTCAACGCGAAAGAACCATGTTATCTCCAA-ATTATCTCCAAATACGGCTAGACG
* * * * *
750110 TCATCAACACGAATGAACAATATTGTCCACCGACCAGATCTCCTCAACGCG-AATGAGCAATATC
130 TCATCAACAAGAAGGAACAATATCGTCCACCAACCAGATCTCCTCAACACGAAAT-AGCAATATC
* * * *
750174 ATCCTCATATAACCAAACTTCCTCAACACGAAAGAACCACATTATCTTTAAATTAT
194 ATCCTCAGACAACCAAACTTCATCAACACGAAAGAACCACATTATCTCTAAATTAT
750230 CCAGATTTAC
Statistics
Matches: 204, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
277 6 0.03
278 198 0.97
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (278 bp):
GAAGGAACAATGTCGTACACCGACCAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTTAGACA
ATCAAACTTCCTCAACGCGAAAGAACCATGTTATCTCCAAATTATCTCCAAATACGGCTAGACGT
CATCAACAAGAAGGAACAATATCGTCCACCAACCAGATCTCCTCAACACGAAATAGCAATATCAT
CCTCAGACAACCAAACTTCATCAACACGAAAGAACCACATTATCTCTAAATTATTTATAAAAACG
GCTAGATATCCTCACCAA
Found at i:752397 original size:31 final size:31
Alignment explanation
Indices: 752357--752416 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
752347 AATACTAACT
* * *
752357 TTTATTTTTATTGCACTTTTTAA-TTATGTTA
1 TTTAATTTTA-TGCACCTTTAAATTTATGTTA
752388 TTTAATTTTATGCACCTTTAAATTTATGT
1 TTTAATTTTATGCACCTTTAAATTTATGT
752417 CTTTTATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.60
Consensus pattern (31 bp):
TTTAATTTTATGCACCTTTAAATTTATGTTA
Found at i:752485 original size:29 final size:29
Alignment explanation
Indices: 752461--752523 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
752451 CCTTTAATTG
*
752461 CTTTAATTTTTTGATA-TTTCATTTATGTC
1 CTTT-ATTTTTTGATACTTTAATTTATGTC
752490 CTTTATTTTTTGATACTTTAATTT-TAGTC
1 CTTTATTTTTTGATACTTTAATTTAT-GTC
752519 CTTTA
1 CTTTA
752524 ATTATTGTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (29 bp):
CTTTATTTTTTGATACTTTAATTTATGTC
Found at i:756902 original size:13 final size:13
Alignment explanation
Indices: 756886--756924 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
756876 AAAGAATAGC
756886 TCTAATGATTAGT
1 TCTAATGATTAGT
756899 TCTAATGATTCATAGT
1 TCTAATGA-T--TAGT
756915 TCTAATGATT
1 TCTAATGATT
756925 CATTAGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 1 0.04
16 12 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (13 bp):
TCTAATGATTAGT
Found at i:756933 original size:17 final size:17
Alignment explanation
Indices: 756893--756941 Score: 91
Period size: 16 Copynumber: 2.9 Consensus size: 17
756883 AGCTCTAATG
756893 ATTAGTTCTAATGATTC
1 ATTAGTTCTAATGATTC
756910 A-TAGTTCTAATGATTC
1 ATTAGTTCTAATGATTC
756926 ATTAGTTCTAATGATT
1 ATTAGTTCTAATGATT
756942 TGTCTCTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTAGTTCTAATGATTC
Found at i:759520 original size:29 final size:29
Alignment explanation
Indices: 759442--759527 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 29
759432 ATAAAGTCAC
* *
759442 ATTTTACTATTCAAACTTAAATAGATATT
1 ATTTTAATATTCAAACTTAAATAGATATA
* *
759471 ATTTTAAT-TTGAAATATTTAAAT-GATATA
1 ATTTTAATATT-CAA-ACTTAAATAGATATA
* *
759500 ATTTTTAATATTCAAAGTTAACTAGATA
1 A-TTTTAATATTCAAACTTAAATAGATA
759528 ACAAATACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.04
29 21 0.47
30 20 0.44
31 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (29 bp):
ATTTTAATATTCAAACTTAAATAGATATA
Found at i:759652 original size:29 final size:29
Alignment explanation
Indices: 759595--759670 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 29
759585 TAAAATATCT
759595 TTTAATTGT-AATATTCAAAAGGAACATGAA
1 TTTAATT-TAAATATT-AAAAGGAACATGAA
759625 TTTAATTTAAATATTAAAAGGAACATGAA
1 TTTAATTTAAATATTAAAAGGAACATGAA
759654 TTTAATTTAAATATTAA
1 TTTAATTTAAATATTAA
759671 TCCATCAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
29 32 0.71
30 13 0.29
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATTTAAATATTAAAAGGAACATGAA
Found at i:763685 original size:5 final size:5
Alignment explanation
Indices: 763675--763708 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
763665 ACTTCTTAAG
763675 AAAAT AAAAT AAAAT AAAAT -AAAT AGAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAA
763709 ATACTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:764160 original size:21 final size:20
Alignment explanation
Indices: 764136--764174 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
764126 CACTTTTTAC
764136 TATTTAAACTTAAATATATAT
1 TATTTAAACTTAAA-ATATAT
* *
764157 TATTTTAATTTAAAATAT
1 TATTTAAACTTAAAATAT
764175 TTAAAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTAAACTTAAAATATAT
Found at i:775727 original size:24 final size:24
Alignment explanation
Indices: 775700--775758 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
775690 ATATTTTAAT
*
775700 CTATTATATTTAGAGAAA-ATCTAC
1 CTATGATA-TTAGAGAAATATCTAC
* *
775724 CTATGGTATTAGAGAAATATCTGC
1 CTATGATATTAGAGAAATATCTAC
*
775748 CTATGGTATTA
1 CTATGATATTA
775759 TATATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (24 bp):
CTATGATATTAGAGAAATATCTAC
Done.