Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015383.1 Kokia drynarioides strain JFW-HI SEQ_130430, 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: 970611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 920 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:630464 original size:91 final size:91
Alignment explanation
Indices: 630309--630477 Score: 250
Period size: 91 Copynumber: 1.9 Consensus size: 91
630299 AATAAATTGG
* * *
630309 GGACGAGTAGGAAACATTGTCATGTGCTACACCATTTCTAGTTCTTGAAATAGTTTTGAGTGCTT
1 GGACGAGTAGGAAACAATGTCATGTGCTACACCATTTCTAGTGCTTGAAACAGTTTTGAGTGCTT
630374 GTTGTTCGAATTCTGAACAATATTAA
66 GTTGTTCGAATTCTGAACAATATTAA
* * * *
630400 GGACGAGTAGGGAACAATGTCATGTGCTTA-ACCATTTTTAGTGCTTGAACCCGTTTTGAGTGCT
1 GGACGAGTAGGAAACAATGTCATGTGC-TACACCATTTCTAGTGCTTGAAACAGTTTTGAGTGCT
*
630464 TGTTGTTTGAATTC
65 TGTTGTTCGAATTC
630478 AAAACCGTCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 67 0.97
92 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (91 bp):
GGACGAGTAGGAAACAATGTCATGTGCTACACCATTTCTAGTGCTTGAAACAGTTTTGAGTGCTT
GTTGTTCGAATTCTGAACAATATTAA
Found at i:631870 original size:12 final size:12
Alignment explanation
Indices: 631855--631879 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
631845 GTTTTCTTTG
631855 TAATTTTAGTTT
1 TAATTTTAGTTT
631867 TAATTTTAGTTT
1 TAATTTTAGTTT
631879 T
1 T
631880 TCCATTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TAATTTTAGTTT
Found at i:640786 original size:26 final size:26
Alignment explanation
Indices: 640750--641042 Score: 390
Period size: 26 Copynumber: 11.3 Consensus size: 26
640740 TCTAATGATA
*
640750 TAAATGTATATTCATGCTGACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
* * *
640776 TAAATGTATATTCATGTTGATGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
*
640802 TAAACATATATTCATGCTGACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
* * *
640828 TAAATGTATATTCATGCTGATGAGCA
1 TAAACGTATATTCATGCTGACGAGCG
640854 TAAACGTATATTCATGCTGACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
*
640880 TAAACGTATATTCATGCT-AGCAAGCG
1 TAAACGTATATTCATGCTGA-CGAGCG
* *
640906 TAAAAGTATATTTATGCTGACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
* * * *
640932 TAAACATATATTCATGTTGATGAGCA
1 TAAACGTATATTCATGCTGACGAGCG
* *
640958 TAAACGTATATTCATGATGACGAGAG
1 TAAACGTATATTCATGCTGACGAGCG
* *
640984 TAAACGTACATTCATGCTAACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
*
641010 TAAATGTATATTCATGCTGACGAGCG
1 TAAACGTATATTCATGCTGACGAGCG
641036 TAAACGT
1 TAAACGT
641043 GAAATTAATG
Statistics
Matches: 229, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
25 1 0.00
26 227 0.99
27 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (26 bp):
TAAACGTATATTCATGCTGACGAGCG
Found at i:642722 original size:18 final size:19
Alignment explanation
Indices: 642682--642722 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
642672 CCTGACAATT
*
642682 TAAAAATTAAAAATAATCC
1 TAAAAATTAAAAACAATCC
*
642701 -AAAAATT-AATACAATCC
1 TAAAAATTAAAAACAATCC
642718 TAAAA
1 TAAAA
642723 TAGAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAATTAAAAACAATCC
Found at i:648202 original size:50 final size:50
Alignment explanation
Indices: 648094--648224 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
648084 TGCATGACTT
* *
648094 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGATAG
1 GATTT-ATCATGCAAA-TTTAACTAACATGGAAGTTACATAATGCATGATAG
* * * * * *
648146 GCTTTATCATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTTAT
1 GATTTATCATGCAAATTTAACTAACATGGAAGTTACATAATGCATGATAG
* * *
648196 TATTTATGATGCAAACTTAACTAATCATG
1 GATTTATCATGCAAATTTAACTAA-CATG
648225 AGAGTTAATG
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 49 0.75
51 12 0.18
52 4 0.06
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (50 bp):
GATTTATCATGCAAATTTAACTAACATGGAAGTTACATAATGCATGATAG
Found at i:650162 original size:22 final size:22
Alignment explanation
Indices: 650137--650194 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
650127 ACCACCACAC
*
650137 CACCACCATTCAACCATCATAA
1 CACCACCACTCAACCATCATAA
*
650159 CACCACCACTCAACCATCATAG
1 CACCACCACTCAACCATCATAA
650181 CACCACCACATCAA
1 CACCACCAC-TCAA
650195 AACCATATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.40, C:0.45, G:0.02, T:0.14
Consensus pattern (22 bp):
CACCACCACTCAACCATCATAA
Found at i:650201 original size:22 final size:22
Alignment explanation
Indices: 650137--650201 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
650127 ACCACCACAC
* * *
650137 CACCACCATTCAACCATCATAA
1 CACCACCACTCAACAACCATAA
* * *
650159 CACCACCACTCAACCATCATAG
1 CACCACCACTCAACAACCATAA
650181 CACCACCACATCAA-AACCATA
1 CACCACCAC-TCAACAACCATA
650202 TCATTATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 34 0.89
23 4 0.11
ACGTcount: A:0.42, C:0.43, G:0.02, T:0.14
Consensus pattern (22 bp):
CACCACCACTCAACAACCATAA
Found at i:650299 original size:35 final size:35
Alignment explanation
Indices: 650260--650372 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 35
650250 TCTTCTCTTC
650260 TATTTCTATTTTCTGTTATCATCATTTAGAAACTT
1 TATTTCTATTTTCTGTTATCATCATTTAGAAACTT
* ** ****
650295 TATTTC--TTTTCT-TCTACCAAAATTTATCTTCTCTT
1 TATTTCTATTTTCTGT-TATCATCATTTA--GAAACTT
*
650330 CTATTTCTATTTTTTGTTATCATCATTTAGAAACTT
1 -TATTTCTATTTTCTGTTATCATCATTTAGAAACTT
650366 TATTTCT
1 TATTTCT
650373 TTTCTTCTAC
Statistics
Matches: 56, Mismatches: 15, Indels: 14
0.66 0.18 0.16
Matches are distributed among these distances:
32 1 0.02
33 15 0.27
35 16 0.29
36 9 0.16
38 14 0.25
39 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.57
Consensus pattern (35 bp):
TATTTCTATTTTCTGTTATCATCATTTAGAAACTT
Found at i:650332 original size:71 final size:71
Alignment explanation
Indices: 650250--650390 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
650240 TACTTGTTTT
650250 TCTTCTCTTCTATTTCTATTTTCTGTTATCATCATTTAGAAACTTTATTTCTTTTCTTCTACCAA
1 TCTTCTCTTCTATTTCTATTTTCTGTTATCATCATTTAGAAACTTTATTTCTTTTCTTCTACCAA
650315 AATTTA
66 AATTTA
*
650321 TCTTCTCTTCTATTTCTATTTTTTGTTATCATCATTTAGAAACTTTATTTCTTTTCTTCTACCAA
1 TCTTCTCTTCTATTTCTATTTTCTGTTATCATCATTTAGAAACTTTATTTCTTTTCTTCTACCAA
650386 AATTT
66 AATTT
650391 CAAGTGCTTC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (71 bp):
TCTTCTCTTCTATTTCTATTTTCTGTTATCATCATTTAGAAACTTTATTTCTTTTCTTCTACCAA
AATTTA
Found at i:653535 original size:25 final size:25
Alignment explanation
Indices: 653487--653535 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
653477 CTCTAAAATA
* *
653487 AAATTTATTTTATTTTGATCACTCC
1 AAATTTATTTTAATTTAATCACTCC
* *
653512 AAATTTTTTTTAATTTAATTACTC
1 AAATTTATTTTAATTTAATCACTC
653536 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (25 bp):
AAATTTATTTTAATTTAATCACTCC
Found at i:653603 original size:11 final size:11
Alignment explanation
Indices: 653589--653615 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
653579 CTATTAATCA
653589 ACTAACAGATT
1 ACTAACAGATT
653600 ACTAACAGATT
1 ACTAACAGATT
653611 ACTAA
1 ACTAA
653616 AGTGACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (11 bp):
ACTAACAGATT
Found at i:666098 original size:21 final size:21
Alignment explanation
Indices: 666073--666128 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
666063 AAGTGTAAAC
666073 TTCTACCGATACAAGTGACAG
1 TTCTACCGATACAAGTGACAG
* **
666094 TTCTACCGATACAAGTGGCTT
1 TTCTACCGATACAAGTGACAG
*
666115 TTCTACCGAAACAA
1 TTCTACCGATACAA
666129 ATTTTACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAG
Found at i:671889 original size:20 final size:21
Alignment explanation
Indices: 671864--671904 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
671854 TAGCAATTTA
671864 TTCTTTT-TC-TTTTTTCTTTC
1 TTCTTTTCTCATTTTTT-TTTC
671884 TTCTTTTCTCATTTTTTTTTC
1 TTCTTTTCTCATTTTTTTTTC
671905 AAGTGACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (21 bp):
TTCTTTTCTCATTTTTTTTTC
Found at i:679957 original size:16 final size:18
Alignment explanation
Indices: 679921--679962 Score: 61
Period size: 16 Copynumber: 2.4 Consensus size: 18
679911 AACAAAGTTT
679921 AATAAAAATCCAAAGATAA
1 AATAAAAA-CCAAAGATAA
679940 AATAAAAA-CAAA-ATAA
1 AATAAAAACCAAAGATAA
679956 AATAAAA
1 AATAAAA
679963 TAACTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
19 8 0.35
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.14
Consensus pattern (18 bp):
AATAAAAACCAAAGATAA
Found at i:680507 original size:27 final size:28
Alignment explanation
Indices: 680464--680516 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
680454 TACATCACAC
680464 AACTCAACAACAATCAT-ACCATTATCTT
1 AACTCAACAACAATCATCA-CATTATCTT
*
680492 AACTCAGCAA-AATCATCACATTATC
1 AACTCAACAACAATCATCACATTATC
680517 AAATACCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.26
Consensus pattern (28 bp):
AACTCAACAACAATCATCACATTATCTT
Found at i:681025 original size:14 final size:13
Alignment explanation
Indices: 680991--681031 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
680981 TTTCTCAAAA
*
680991 AAAGTCAACGATC
1 AAAGTCAACGGTC
*
681004 AAAGTCAATGGTC
1 AAAGTCAACGGTC
681017 AATAGTCAACGGTC
1 AA-AGTCAACGGTC
681031 A
1 A
681032 GCAGTTAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (13 bp):
AAAGTCAACGGTC
Found at i:681153 original size:21 final size:19
Alignment explanation
Indices: 681127--681172 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
681117 TTGGTTCCAC
681127 TTGGGTTTG-GATTTGATTCAA
1 TTGGGTTTGCG-TTTGATT--A
681148 TTGGGTTTGCGTTTGATTA
1 TTGGGTTTGCGTTTGATTA
681167 TTGGGT
1 TTGGGT
681173 AATTTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.13, C:0.04, G:0.33, T:0.50
Consensus pattern (19 bp):
TTGGGTTTGCGTTTGATTA
Found at i:698969 original size:17 final size:16
Alignment explanation
Indices: 698944--698977 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
698934 AGACTATCCA
698944 TTTTATGTTTCTGTATG
1 TTTTATG-TTCTGTATG
*
698961 TTTTTTGTTCTGTATG
1 TTTTATGTTCTGTATG
698977 T
1 T
698978 GTAGATTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.09, C:0.06, G:0.18, T:0.68
Consensus pattern (16 bp):
TTTTATGTTCTGTATG
Found at i:740600 original size:12 final size:12
Alignment explanation
Indices: 740585--740609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
740575 GCTCTCTAGC
740585 TTTCCCTTCCAT
1 TTTCCCTTCCAT
740597 TTTCCCTTCCAT
1 TTTCCCTTCCAT
740609 T
1 T
740610 CCTTGTCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.40, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTCCCTTCCAT
Found at i:741254 original size:11 final size:11
Alignment explanation
Indices: 741238--741270 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
741228 TGGAATTAAT
741238 TTTTATTTTTA
1 TTTTATTTTTA
*
741249 TTTTATTTTAA
1 TTTTATTTTTA
741260 TTTTATTTTTA
1 TTTTATTTTTA
741271 ATACTTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:749972 original size:18 final size:18
Alignment explanation
Indices: 749949--749989 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
749939 CAAACTAAAG
749949 AAGAAGAAGAAAATCCTA
1 AAGAAGAAGAAAATCCTA
* *
749967 AAGAAGAAGAAGATCCTG
1 AAGAAGAAGAAAATCCTA
749985 AAGAA
1 AAGAA
749990 AATCCTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.10, G:0.22, T:0.10
Consensus pattern (18 bp):
AAGAAGAAGAAAATCCTA
Found at i:753325 original size:25 final size:26
Alignment explanation
Indices: 753263--753327 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
753253 TCTGAAGAAT
* *
753263 TACTGAACTGGCTCGTATGAGCAATA
1 TACTGAACTGGCTCGTAGGAACAATA
* * *
753289 TACTGCATTGGCTCGTAGGAACGA-A
1 TACTGAACTGGCTCGTAGGAACAATA
*
753314 TACTGTACTGGCTC
1 TACTGAACTGGCTC
753328 TAAGAGCGAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
TACTGAACTGGCTCGTAGGAACAATA
Found at i:757557 original size:22 final size:19
Alignment explanation
Indices: 757532--757573 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
757522 TGATAATAAC
757532 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
757554 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
757573 T
1 T
757574 CAAATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:757564 original size:16 final size:15
Alignment explanation
Indices: 757532--757570 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
757522 TGATAATAAC
757532 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
757548 TTATTATAATATATAT
1 TAATTATAAT-TATAT
757564 TAATTAT
1 TAATTAT
757571 TATCAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:760635 original size:12 final size:12
Alignment explanation
Indices: 760618--760670 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
760608 CAAGACGCTC
760618 GAAAAAAAGAGA
1 GAAAAAAAGAGA
760630 G-AAAAAA-AGA
1 GAAAAAAAGAGA
* *
760640 -ACAAAAAGAAA
1 GAAAAAAAGAGA
760651 GAAAAAAAG-GA
1 GAAAAAAAGAGA
760662 GAAAGAAAA
1 GAAA-AAAA
760671 AGAAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
10 8 0.24
11 13 0.39
12 12 0.36
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAGA
Found at i:760651 original size:13 final size:12
Alignment explanation
Indices: 760618--760681 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
760608 CAAGACGCTC
*
760618 GAAAAAAAGAGA
1 GAAAAAAAGAAA
760630 GAAAAAAAGAACA
1 GAAAAAAAGAA-A
760643 -AAAAGAAAGAAA
1 GAAAA-AAAGAAA
**
760655 -AAAAGGAGAAA
1 GAAAAAAAGAAA
760666 GAAAAAGAA-AAA
1 GAAAAA-AAGAAA
760678 GAAA
1 GAAA
760682 TAGAGCATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 5 0.12
12 30 0.70
13 8 0.19
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:760656 original size:31 final size:31
Alignment explanation
Indices: 760618--760681 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
760608 CAAGACGCTC
760618 GAAAAAAAGAGAGAAAAAAAGAACAAAAAGAAA
1 GAAAAAAAG-GAGAAAAAAA-AACAAAAAGAAA
* *
760651 GAAAAAAAGGAGAAAGAAAAAGAAAAAGAAA
1 GAAAAAAAGGAGAAAAAAAAACAAAAAGAAA
760682 TAGAGCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 11 0.38
32 9 0.31
33 9 0.31
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (31 bp):
GAAAAAAAGGAGAAAAAAAAACAAAAAGAAA
Found at i:764141 original size:22 final size:22
Alignment explanation
Indices: 764113--764164 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
764103 AAAATTTAAC
*
764113 TATATTGGTGTAATCAATCAAT
1 TATATTGGTGCAATCAATCAAT
*
764135 TATATTGGTGCAATCAGTCAAT
1 TATATTGGTGCAATCAATCAAT
764157 TATATTGG
1 TATATTGG
764165 CATAATACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (22 bp):
TATATTGGTGCAATCAATCAAT
Found at i:773209 original size:20 final size:20
Alignment explanation
Indices: 773184--773222 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
773174 CATAGTAATT
773184 ATTATAAAA-AATATAATTTA
1 ATTATAAAATAAT-TAATTTA
773204 ATTATAAAATAATTAATTT
1 ATTATAAAATAATTAATTT
773223 GTACTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTATAAAATAATTAATTTA
Found at i:783544 original size:46 final size:46
Alignment explanation
Indices: 783477--783569 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
783467 GAAACCCATG
783477 AGGAACTAATTCCATTTTGGGGAATTAGGGAGTGGAAGTATGAATA
1 AGGAACTAATTCCATTTTGGGGAATTAGGGAGTGGAAGTATGAATA
783523 AGGAACTAATTCCATTTTGGGGAATTAGGGAGTGGAAGTATGAATA
1 AGGAACTAATTCCATTTTGGGGAATTAGGGAGTGGAAGTATGAATA
783569 A
1 A
783570 TTAGTTATTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.06, G:0.30, T:0.28
Consensus pattern (46 bp):
AGGAACTAATTCCATTTTGGGGAATTAGGGAGTGGAAGTATGAATA
Found at i:788632 original size:15 final size:15
Alignment explanation
Indices: 788608--788647 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
788598 GGGAATTATG
*
788608 TTTAGGTTTTGAGGGT
1 TTTAGTTTTTG-GGGT
788624 TTT-GTTTTTGGGGT
1 TTTAGTTTTTGGGGT
788638 TTTAGTTTTT
1 TTTAGTTTTT
788648 ATCTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.62
Consensus pattern (15 bp):
TTTAGTTTTTGGGGT
Found at i:791200 original size:18 final size:18
Alignment explanation
Indices: 791177--791224 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
791167 GTAAGTTGCA
791177 ATCACAATTATCTTTGT-T
1 ATCACAATTA-CTTTGTCT
*
791195 ATCACATTTACTTTGTCT
1 ATCACAATTACTTTGTCT
791213 A-CACAATT-CTTT
1 ATCACAATTACTTT
791225 TGTCAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.27, C:0.21, G:0.04, T:0.48
Consensus pattern (18 bp):
ATCACAATTACTTTGTCT
Found at i:794056 original size:16 final size:18
Alignment explanation
Indices: 794016--794056 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
794006 GTCTTTTTAT
794016 TTTGTTTTTGTCATAACA
1 TTTGTTTTTGTCATAACA
*
794034 TTT-TTTTT-TCAT-TCA
1 TTTGTTTTTGTCATAACA
794049 TTTGTTTT
1 TTTGTTTT
794057 CATGCATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 5 0.24
18 3 0.14
ACGTcount: A:0.15, C:0.10, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTGTTTTTGTCATAACA
Found at i:810880 original size:17 final size:17
Alignment explanation
Indices: 810831--810897 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
810821 GAAAAGAATG
*
810831 GAAATGCAATTAC-AAT
1 GAAATGCAATGACAAAT
* *
810847 GCAAATGCACTAACAAAT
1 G-AAATGCAATGACAAAT
810865 GAAATGCAATGACAAAT
1 GAAATGCAATGACAAAT
* *
810882 AAAAATGTAATGACAA
1 -GAAATGCAATGACAA
810898 CTAAATAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.02
17 24 0.57
18 17 0.40
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (17 bp):
GAAATGCAATGACAAAT
Found at i:810893 original size:18 final size:18
Alignment explanation
Indices: 810866--810902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
810856 CTAACAAATG
810866 AAATGCAATGACAAATAA
1 AAATGCAATGACAAATAA
* *
810884 AAATGTAATGACAACTAA
1 AAATGCAATGACAAATAA
810902 A
1 A
810903 TAAGATGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (18 bp):
AAATGCAATGACAAATAA
Found at i:820839 original size:21 final size:21
Alignment explanation
Indices: 820801--820840 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
820791 ATGTTTAAGT
**
820801 TTTTAGGGTTTTGTTTTTTGG
1 TTTTAGGGTTTTAATTTTTGG
*
820822 TTTTGGGGTTTTAATTTTT
1 TTTTAGGGTTTTAATTTTT
820841 ATCTTCATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.25, T:0.68
Consensus pattern (21 bp):
TTTTAGGGTTTTAATTTTTGG
Found at i:821792 original size:23 final size:23
Alignment explanation
Indices: 821730--821823 Score: 136
Period size: 23 Copynumber: 4.1 Consensus size: 23
821720 ACCAATTATT
821730 ATTAT-TTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
*
821752 ATTATGTTTTGTAACTCTCCTGTC
1 ATTATG-TTTGTAACTCTCCTGCC
* *
821776 ATTATGTTTGTAGCTCTCCTACC
1 ATTATGTTTGTAACTCTCCTGCC
*
821799 ATTATGTTTATAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCCTGCC
821822 AT
1 AT
821824 AATATTCTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
22 5 0.08
23 36 0.57
24 22 0.35
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (23 bp):
ATTATGTTTGTAACTCTCCTGCC
Found at i:821801 original size:47 final size:45
Alignment explanation
Indices: 821730--821819 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 45
821720 ACCAATTATT
* *
821730 ATTATTTTGTAACTCTCCTGCCATTATGTTTTGTAACTCTCCTGTC
1 ATTATTTTGTAACTCTCCTACCATTATG-TTTATAACTCTCCTGTC
*
821776 ATTATGTTTGTAGCTCTCCTACCATTATGTTTATAACTCTCCTG
1 ATTAT-TTTGTAACTCTCCTACCATTATGTTTATAACTCTCCTG
821820 CCATAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 19 0.47
47 21 0.52
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.47
Consensus pattern (45 bp):
ATTATTTTGTAACTCTCCTACCATTATGTTTATAACTCTCCTGTC
Found at i:822773 original size:18 final size:19
Alignment explanation
Indices: 822732--822784 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
822722 AAAAATTTCA
822732 ATAAAATTCAAAATAATTT
1 ATAAAATTCAAAATAATTT
* *
822751 TTAAAATTTAAAAT-ATTT
1 ATAAAATTCAAAATAATTT
822769 ATAAAAATTCCAAAAT
1 AT-AAAATT-CAAAAT
822785 TTATATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.18
19 18 0.64
20 5 0.18
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAATTCAAAATAATTT
Found at i:824104 original size:26 final size:26
Alignment explanation
Indices: 824075--824130 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
824065 CAATCAAATA
824075 TTTACCTTCACTTGTGATAAATTAAT
1 TTTACCTTCACTTGTGATAAATTAAT
824101 TTTACCTTCACTTGTGATAAATTAAT
1 TTTACCTTCACTTGTGATAAATTAAT
824127 TTTA
1 TTTA
824131 TGATTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.48
Consensus pattern (26 bp):
TTTACCTTCACTTGTGATAAATTAAT
Found at i:828989 original size:51 final size:51
Alignment explanation
Indices: 828930--829037 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 51
828920 ATTATTCTTG
*
828930 ATTATCCATCAATTACTTGATTTGTATTTGCACATCACCTCTGATAACTTC
1 ATTATCCATCAATTACCTGATTTGTATTTGCACATCACCTCTGATAACTTC
* **
828981 ATTATCCATCAATTACCTGATTTGTATTTGCATATTGCCTCTGATAACTTC
1 ATTATCCATCAATTACCTGATTTGTATTTGCACATCACCTCTGATAACTTC
829032 ATTATC
1 ATTATC
829038 AATCTCATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (51 bp):
ATTATCCATCAATTACCTGATTTGTATTTGCACATCACCTCTGATAACTTC
Found at i:832528 original size:80 final size:80
Alignment explanation
Indices: 832395--832556 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
832385 TGCAGTATCC
*
832395 TTATGAAAAGCTTGAATTGAACCACTATCATTAATATTCAACTTGTAGAAAGAATTAATTGGAAT
1 TTATGAAAAGCTTGAATTGAACCACTATCATGAATATTCAACTTGTAGAAAGAATTAATTGGAAT
832460 TTCTTTGTGTTTAAA
66 TTCTTTGTGTTTAAA
832475 TTATGAAAAGCTTGAATTGAACCACTATCATGAATATTCAACTTGTAGAAAGAATTAATTGGAAT
1 TTATGAAAAGCTTGAATTGAACCACTATCATGAATATTCAACTTGTAGAAAGAATTAATTGGAAT
832540 TTCTTTGTGTTTAAA
66 TTCTTTGTGTTTAAA
832555 TT
1 TT
832557 TAAAAAGAAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (80 bp):
TTATGAAAAGCTTGAATTGAACCACTATCATGAATATTCAACTTGTAGAAAGAATTAATTGGAAT
TTCTTTGTGTTTAAA
Found at i:836821 original size:28 final size:28
Alignment explanation
Indices: 836790--836860 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
836780 TTTGAGTATT
836790 AAATTAGGAAATACTTAGACCCAATAAG
1 AAATTAGGAAATACTTAGACCCAATAAG
* *
836818 AAATTAGGAAGA-ACTTAGACTCGATAAG
1 AAATTAGGAA-ATACTTAGACCCAATAAG
**
836846 AAATTAAAAAATACT
1 AAATTAGGAAATACT
836861 ACTTAGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (28 bp):
AAATTAGGAAATACTTAGACCCAATAAG
Found at i:847125 original size:21 final size:22
Alignment explanation
Indices: 847101--847168 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 22
847091 TAGTGGTAAA
847101 GATACCTTTTTG-TAAGGTATT
1 GATACCTTTTTGTTAAGGTATT
*
847122 GATACC-TTTTGTTTAGGTATT
1 GATACCTTTTTGTTAAGGTATT
* *
847143 GATACC-TTTTGTTTAGGTATC
1 GATACCTTTTTGTTAAGGTATT
847164 GATAC
1 GATAC
847169 TTTGCACATG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.11
21 39 0.89
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (22 bp):
GATACCTTTTTGTTAAGGTATT
Found at i:847734 original size:27 final size:27
Alignment explanation
Indices: 847704--847798 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
847694 CATTTGCCAT
847704 AAAGGCTTCCTTTACATAGATTGTCAC
1 AAAGGCTTCCTTTACATAGATTGTCAC
* * *
847731 AAAGGATTCCTTTACATAGATTGCCAA
1 AAAGGCTTCCTTTACATAGATTGTCAC
* *
847758 AAAGGCTTTCTTTACATAGATTTTCCAC
1 AAAGGCTTCCTTTACATAGATTGT-CAC
*
847786 AAATGCTTCCTTT
1 AAAGGCTTCCTTT
847799 TTTGGCGTGT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 44 0.77
28 13 0.23
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (27 bp):
AAAGGCTTCCTTTACATAGATTGTCAC
Found at i:848196 original size:25 final size:25
Alignment explanation
Indices: 848168--848216 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
848158 TCTTGCCAGA
*
848168 CACCATACGATTTACACGTGCAAGT
1 CACCATACGATTTACACATGCAAGT
848193 CACCATACGATTTACACATGCAAG
1 CACCATACGATTTACACATGCAAG
848217 ACTCGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (25 bp):
CACCATACGATTTACACATGCAAGT
Found at i:855459 original size:21 final size:21
Alignment explanation
Indices: 855433--855486 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
855423 CCTGCTACTT
855433 CTACCGATACAAG-TATACAAA
1 CTACCGATACAAGCTATAC-AA
* *
855454 CTACCGATACTAGCTATTCAA
1 CTACCGATACAAGCTATACAA
855475 CTACCGATACAA
1 CTACCGATACAA
855487 CCCAAGTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.22
Consensus pattern (21 bp):
CTACCGATACAAGCTATACAA
Found at i:856116 original size:24 final size:24
Alignment explanation
Indices: 856055--856145 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
856045 CTTCCATATT
* ***
856055 TTAGCTCATACGAGCCCAGACAACA
1 TTAGCTCTTACGAGCCCAGA-ATGG
* * *
856080 TTAGTTCTCACGAGCCCAGGATGG
1 TTAGCTCTTACGAGCCCAGAATGG
856104 TTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
856128 TTAGCTCTTACGAGCCCA
1 TTAGCTCTTACGAGCCCA
856146 AAATAATTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 40 0.71
25 16 0.29
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:863770 original size:72 final size:72
Alignment explanation
Indices: 863653--863793 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
863643 TAAAAAAAAG
* *
863653 CTCGTAAAGTTCTGTAAACCCTGAGACCCTAGACCGGAGATGGTTACAATTTTTTTGGTG-TACA
1 CTCGTAAAGTTCTATAAACCCTGAGACCCTAGACCGGAGATGGTTACAA-TTTTTGGGTGTTACA
863717 TTTAGAAA
65 TTTAGAAA
* * * * *
863725 CTCGTAAAGTTCTATAAACCTTGAGACCTTATACTGGAGATGGTTACGATTTTTGGGTGTTACAT
1 CTCGTAAAGTTCTATAAACCCTGAGACCCTAGACCGGAGATGGTTACAATTTTTGGGTGTTACAT
863790 TTAG
66 TTAG
863794 TGGTATCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 9 0.15
72 52 0.85
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (72 bp):
CTCGTAAAGTTCTATAAACCCTGAGACCCTAGACCGGAGATGGTTACAATTTTTGGGTGTTACAT
TTAGAAA
Found at i:868845 original size:72 final size:72
Alignment explanation
Indices: 868728--868865 Score: 215
Period size: 72 Copynumber: 1.9 Consensus size: 72
868718 TTTTAAAAAG
* * * *
868728 AACTCGTAAAGTTCTGTAAACCTTAAGACCCTAGATCGGAGATGGTTACGGTTTTTGTGTGTTAC
1 AACTCATAAAGTTCTGTAAACCCTAAGACCCTAGATCGGAGATGGTTACAGTTTTTGGGTGTTAC
868793 ATTTAGA
66 ATTTAGA
*
868800 AACTCATAAAGTTTTGTAAACCCTAAGACCCTAGA-CTGGAGATGGTTACAGTTTTTGGGTGTTA
1 AACTCATAAAGTTCTGTAAACCCTAAGACCCTAGATC-GGAGATGGTTACAGTTTTTGGGTGTTA
868864 CA
65 CA
868866 AATTTAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.02
72 59 0.98
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (72 bp):
AACTCATAAAGTTCTGTAAACCCTAAGACCCTAGATCGGAGATGGTTACAGTTTTTGGGTGTTAC
ATTTAGA
Found at i:869901 original size:30 final size:30
Alignment explanation
Indices: 869807--869948 Score: 144
Period size: 30 Copynumber: 4.7 Consensus size: 30
869797 CAAAATTGAA
*
869807 TTTTGGAAAGTTTGAGGGTCAAAATCA-AA-
1 TTTTGGAAAGTTTGAGGGTTAAAAT-ATAAT
* * * * * * *
869836 TTTTAGAGAGTTCGGGGGGTCAAATCTAAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATAT-AAT
* *
869867 TTTTGGAAAGTTTAAGGGTTAAAATATGAT
1 TTTTGGAAAGTTTGAGGGTTAAAATATAAT
* *
869897 TTTTGGAAATTTTGAGGGTTAAAATGTAAT
1 TTTTGGAAAGTTTGAGGGTTAAAATATAAT
869927 TTTTGGAAAGTTTGAGGGTTAA
1 TTTTGGAAAGTTTGAGGGTTAA
869949 TTTTGAATTT
Statistics
Matches: 88, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
29 18 0.20
30 51 0.58
31 19 0.22
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTTGAGGGTTAAAATATAAT
Found at i:869958 original size:30 final size:29
Alignment explanation
Indices: 869864--869958 Score: 111
Period size: 30 Copynumber: 3.2 Consensus size: 29
869854 GTCAAATCTA
*
869864 AATTTTTGGAAAGTTTAAGGGTTAAAATATG
1 AATTTTTGGAAAGTTTGAGGGTT--AATATG
* *
869895 -ATTTTTGGAAATTTTGAGGGTTAAAATG
1 AATTTTTGGAAAGTTTGAGGGTTAATATG
*
869923 TAATTTTTGGAAAGTTTGAGGGTTAATTTTG
1 -AATTTTTGGAAAGTTTGAGGGTTAA-TATG
869954 AATTT
1 AATTT
869959 CTAAAAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 5 0.09
30 48 0.87
31 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (29 bp):
AATTTTTGGAAAGTTTGAGGGTTAATATG
Found at i:869958 original size:90 final size:90
Alignment explanation
Indices: 869788--870032 Score: 205
Period size: 90 Copynumber: 2.8 Consensus size: 90
869778 TTTTGAGGCT
* * * * * * * * *
869788 TTTAAGGGTCAAAAT-TGAATTTTGGAAAGTTTGAGGGTCAAAAT-CAAATTTTAGAGAGTTCGG
1 TTTAAGGGTTAAAATATGATTTTTGGAAATTTTGAGGGTTAAAATGTAATTTTTGGAAAGTT-TG
* * **
869851 GGGGTCAAATCTAAATTTTTGGAAAG
65 AGGGTCAAATCTAAATTTCTAAAAAG
869877 TTTAAGGGTTAAAATATGATTTTTGGAAATTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTTGA
1 TTTAAGGGTTAAAATATGATTTTTGGAAATTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTTGA
* * * *
869942 GGGTTAATTTTGAATTTCTAAAAAG
66 GGGTCAAATCTAAATTTCTAAAAAG
* * * * * * *
869967 TTT-AGGGGTGAAATAAT-ACTTTTTAGTAATTTTAAGGG-TCAAAGGTAATTTTTGGAAAGTTT
1 TTTAAGGGTTAAAAT-ATGA-TTTTTGGAAATTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTT
870029 -AGGG
64 GAGGG
870033 ACCTCTTGGG
Statistics
Matches: 128, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
88 4 0.03
89 46 0.36
90 66 0.52
91 12 0.09
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (90 bp):
TTTAAGGGTTAAAATATGATTTTTGGAAATTTTGAGGGTTAAAATGTAATTTTTGGAAAGTTTGA
GGGTCAAATCTAAATTTCTAAAAAG
Found at i:870761 original size:17 final size:17
Alignment explanation
Indices: 870739--870771 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
870729 GTATGAATTG
870739 AAAAAA-ATAAAATATAA
1 AAAAAAGAT-AAATATAA
870756 AAAAAAGATAAATATA
1 AAAAAAGATAAATATA
870772 TGTATGACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAAAAAGATAAATATAA
Found at i:870861 original size:23 final size:22
Alignment explanation
Indices: 870830--870872 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
870820 TAAATGAAAA
870830 TATAAATAGATGTTATGTATATG
1 TATAAATAGATGTTA-GTATATG
* *
870853 TATATATAGGTGTTAGTATA
1 TATAAATAGATGTTAGTATA
870873 CCTTATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (22 bp):
TATAAATAGATGTTAGTATATG
Found at i:870922 original size:1 final size:1
Alignment explanation
Indices: 870916--870940 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
870906 TTGAATCTGG
870916 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
870941 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:871944 original size:124 final size:125
Alignment explanation
Indices: 871717--872206 Score: 661
Period size: 125 Copynumber: 4.0 Consensus size: 125
871707 GGTGTTTGTA
* * *
871717 ACTTCATC-TTTTGGTCCACTTCTCTGTATCTCATTAGGAAGAT-GGGGTTTGAAGTTTTACTCG
1 ACTTCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
* **
871780 CA-TT-ATGTTTCGCTTCATTGATTTGGTATA-TTACTCTGTATCTCATCAAGAAGATGACC
66 CATTTGA-GCTTCGCTTCATTGATTTGGTCCACTT-CTCTGTATCTCATCAAGAAGATGACC
* *
871839 ACTTCATCATTTTGATCCACTTCTCTGTATCTCATTAGGAAGATGGGGGTTTGAAGTTTTACACA
1 ACTTCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
* * *
871904 CA-TTGAGCTTTGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACC
66 CATTTGAGCTTCGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACC
* * * *
871963 GCTTCATCATTTTGATCCACTTCTTTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTTATTCA
1 ACTTCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
* * * * *
872028 CATTTGAGCTTCGCTTCATTGTTTTAGTCCACTTCTCTATATCTCATCAAGAAGATGTCTG
66 CATTTGAGCTTCGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC-C
* * *
872089 A-TTCATTATTTCGATCTACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
1 ACTTCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
* * * *
872153 CATTTGAGCTTCACTTCATTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAG
66 CATTTGAGCTTCGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAG
872207 GTGGCCGCCA
Statistics
Matches: 329, Mismatches: 33, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
122 8 0.02
123 34 0.10
124 129 0.39
125 158 0.48
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (125 bp):
ACTTCATCATTTTGATCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCA
CATTTGAGCTTCGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACC
Found at i:872302 original size:108 final size:110
Alignment explanation
Indices: 872106--872314 Score: 314
Period size: 108 Copynumber: 1.9 Consensus size: 110
872096 ATTTCGATCT
* *
872106 ACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTTACTCACATTTGAGCTTCACTTCA
1 ACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTTGAGCTTCACTTCA
* *
872171 TTGTTTTGATCCACTTCTCTGTATCTCATCAGGAAGGTGGCCGCC
66 ATGTCTTGATCCACTTCTCTGTATCTCATCAGGAAGGTGGCCGCC
* **
872216 ACTTCTCTATATCTCATCAGGAAGAT-TGGGTTTGAAGTTTCACTCACA-TTGAGCTTTGCTTCA
1 ACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTTGAGCTTCACTTCA
* * *
872279 ATGTCTTGGTTCACTTCTTTGTATCTCATCAGGAAG
66 ATGTCTTGATCCACTTCTCTGTATCTCATCAGGAAG
872315 ATGACCACTT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 44 0.49
109 20 0.22
110 25 0.28
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (110 bp):
ACTTCTCTATATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTTGAGCTTCACTTCA
ATGTCTTGATCCACTTCTCTGTATCTCATCAGGAAGGTGGCCGCC
Found at i:872434 original size:124 final size:124
Alignment explanation
Indices: 872215--872689 Score: 643
Period size: 124 Copynumber: 3.8 Consensus size: 124
872205 AGGTGGCCGC
* *
872215 CACTTCTCTATATCTCATCAGGAAGATTGGG-TTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
1 CACTTCTCTATATCTCATCAGGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCTTCGCTTCA
* * * * *
872279 ATG-TCTTGGTTCACTTCTTTGTATCTCATCAGGAAGATGACCACTTCATTATTCTT-ATT
66 TTGAT-TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTT-TTAATT
* * *
872338 CACTTCTCTATATCTGATCAGGAAGATGGGGATTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
1 CACTTCTCTATATCTCATCAGGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCTTCGCTTCA
* *
872403 TTG-TCTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGTCCGCTTCATTGTTTTAATT
66 TTGAT-TTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATT
* * * **
872462 CACTTCTCTGTATCTCATCAGGAAGATGGGGTTTTAAAGCTTCACTCACATTGAGCTTCGCTTTG
1 CACTTCTCTATATCTCATCAGGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCTTCGCTTCA
* * * * * *
872527 CTGATTTGGTCCACTTTTCTTTGTCTCATCAGGAAGATGACCGCTTCATTGTTTTGATC
66 TTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATT
* * * *
872586 CACTTCTCTATATCTCATCAAGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCATCACTTCG
1 CACTTCTCTATATCTCATCAGGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCTTCGCTTCA
*
872651 TTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATG
66 TTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATG
872690 GGGGTTTGAA
Statistics
Matches: 314, Mismatches: 35, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
123 31 0.10
124 282 0.90
125 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (124 bp):
CACTTCTCTATATCTCATCAGGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCTTCGCTTCA
TTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATT
Found at i:872468 original size:48 final size:48
Alignment explanation
Indices: 872397--872489 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
872387 ATTGAGCTTT
**
872397 GCTTCATTGTCTTGGTTCACTTCTCTGTATCTCATCAGGAAGATGTCC
1 GCTTCATTGTCTTAATTCACTTCTCTGTATCTCATCAGGAAGATGTCC
*
872445 GCTTCATTGTTTTAATTCACTTCTCTGTATCTCATCAGGAAGATG
1 GCTTCATTGTCTTAATTCACTTCTCTGTATCTCATCAGGAAGATG
872490 GGGTTTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.41
Consensus pattern (48 bp):
GCTTCATTGTCTTAATTCACTTCTCTGTATCTCATCAGGAAGATGTCC
Found at i:872710 original size:76 final size:76
Alignment explanation
Indices: 872570--872765 Score: 302
Period size: 76 Copynumber: 2.6 Consensus size: 76
872560 AAGATGACCG
* * *
872570 CTTCATTGTTTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGTTTTGAAGTTTCACTCAC
1 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCAC
872635 ATTGAGCATCA
66 ATTGAGCATCA
* *
872646 CTTCGTTGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCAC
1 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCAC
* *
872711 ATTGAGCTTCG
66 ATTGAGCATCA
* * *
872722 CTTCATTGTTTTAGTTCACTTCTCTGTATCTCATCAAAAAGATG
1 CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATG
872766 ACCGCTCCAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 108 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (76 bp):
CTTCATTGTTTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCAC
ATTGAGCATCA
Found at i:872710 original size:200 final size:200
Alignment explanation
Indices: 872461--872888 Score: 608
Period size: 200 Copynumber: 2.1 Consensus size: 200
872451 TTGTTTTAAT
* *
872461 TCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTTAAAGCTTCACTCACATTGAGCTTCGCTTT
1 TCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGCTTCACTCACATTGAGCTTCGCTTC
* * * * * ** *
872526 GCTGATTTGGTCCACTTTTCTTTGTCTCATCAGGAAGATGACCGCTTCATTGTTTTGATCCACTT
66 ACTGATTTAGTCCACTTCTCTGTATCTCATCAAAAAGATGACCGCTCCATTGTTTTGATCCACTT
* *
872591 CTCTATATCTCATCAAGAAGATGGGGTTTTGAAGTTTCACTCACATTGAGCATCACTTCGTTGAT
131 CTCTATATCTCATCAAGAAGATGGGGTTTTGAAGCTTCACTCACATTGAGCATCACTTCGTTAAT
*
872656 TTGG-
196 TCGGC
* * *
872660 TCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCGCTT
1 T-CACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGCTTCACTCACATTGAGCTTCGCTT
* * *
872725 CATTGTTTTAGTTCACTTCTCTGTATCTCATCAAAAAGATGACCGCTCCATTGTTTTGATCCACT
65 CACTGATTTAGTCCACTTCTCTGTATCTCATCAAAAAGATGACCGCTCCATTGTTTTGATCCACT
* * * * *
872790 TCTCTATATCTTATCAGGAAGATGGGGTTTTGAAGCTTCACTCACATTGAGCTTCGCTTTGTTAA
130 TCTCTATATCTCATCAAGAAGATGGGGTTTTGAAGCTTCACTCACATTGAGCATCACTTCGTTAA
872855 TTCGGC
195 TTCGGC
*
872861 TCACTTCTCTGCATCTC-TCAGGAAGATG
1 TCACTTCTCTGTATCTCATCAGGAAGATG
872889 ACCGCTTCAT
Statistics
Matches: 201, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
199 11 0.05
200 189 0.94
201 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.38
Consensus pattern (200 bp):
TCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGCTTCACTCACATTGAGCTTCGCTTC
ACTGATTTAGTCCACTTCTCTGTATCTCATCAAAAAGATGACCGCTCCATTGTTTTGATCCACTT
CTCTATATCTCATCAAGAAGATGGGGTTTTGAAGCTTCACTCACATTGAGCATCACTTCGTTAAT
TCGGC
Found at i:872903 original size:124 final size:124
Alignment explanation
Indices: 872655--872911 Score: 336
Period size: 124 Copynumber: 2.1 Consensus size: 124
872645 ACTTCGTTGA
* * *
872655 TTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTT
1 TTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGGTTTGAAGCTTCACTCACATTGAGCTT
** * * *
872720 CGCTTCATTGTTTTAGTTCACTTCTCTGTATCTCATCAAAAAGATGACCGCTCCATTGT
66 CGCTTCATTAATTCAGCTCACTTCTCTGCATCTCATCAAAAAGATGACCGCTCCATTGT
* * *
872779 TTTGATCCACTTCTCTATATCTTATCAGGAAGATGGGGTTTTGAAGCTTCACTCACATTGAGCTT
1 TTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGGTTTGAAGCTTCACTCACATTGAGCTT
** * ** *
872844 CGCTTTGTTAATTCGGCTCACTTCTCTGCATCTC-TCAGGAAGATGACCGCTTCATTTGT
66 CGCTTCATTAATTCAGCTCACTTCTCTGCATCTCATCAAAAAGATGACCGCTCCA-TTGT
*
872903 TTTAATCCA
1 TTTGATCCA
872912 ACCCACTACA
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
123 17 0.15
124 97 0.85
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (124 bp):
TTTGATCCACTTCTCTATATCTCATCAAGAAGATGGGGGTTTGAAGCTTCACTCACATTGAGCTT
CGCTTCATTAATTCAGCTCACTTCTCTGCATCTCATCAAAAAGATGACCGCTCCATTGT
Found at i:873194 original size:49 final size:49
Alignment explanation
Indices: 873141--873421 Score: 199
Period size: 49 Copynumber: 5.8 Consensus size: 49
873131 TCATCTTCAA
873141 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
* * * * * * * * *
873190 GGTATAAGGTTCGTCATTACAGCTTCGACCTTTCCCTTTACATCTTTAG
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
* * * ** * ** * *
873239 GGTTTAAGATTCGCCATTACGGCTTCAATC-TAACTTTCTTATTTCTAA
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
* ** * ** * *
873287 GGTATAAGGTTCATCGTTGTAGCCTCAACCTTTCCCTTCAAATCTCTAG
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
* * * **
873336 GATACAAGATTCGCCGTTGCTACCTCAATCTTTCCCTTCACAT-TCCTAG
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCT-CTAG
* ** * *
873385 GGTACAA-ATTCATCGTTGCGGCCTCAATTTTTCCCTT
1 GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTT
873422 TACGTCTTGA
Statistics
Matches: 173, Mismatches: 57, Indels: 5
0.74 0.24 0.02
Matches are distributed among these distances:
48 55 0.32
49 118 0.68
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (49 bp):
GGTATAAGATTCGCCATTGCGGCCTCAATCTTTCCCTTCACATCTCTAG
Found at i:874294 original size:6 final size:6
Alignment explanation
Indices: 874280--874383 Score: 71
Period size: 6 Copynumber: 18.7 Consensus size: 6
874270 CTCTCCTTTT
* * * *
874280 TTCTT- TTCTTC TTCTTC TT-TT- TTTTTC TTTTTC TTTTTC TTTTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
* * * * *
874325 TT-TTC TTCTTC TTCTT- TTTTTT TTCTTT TTCTTT TTCTTT TTCTT-
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
874370 TTCTT- TTCTT- TTCT
1 TTCTTC TTCTTC TTCT
874384 CTTTTTTGGG
Statistics
Matches: 92, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
4 2 0.02
5 32 0.35
6 58 0.63
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTC
Found at i:874323 original size:43 final size:43
Alignment explanation
Indices: 874277--874379 Score: 192
Period size: 43 Copynumber: 2.4 Consensus size: 43
874267 GACCTCTCCT
874277 TTTTTCTTTTCTTCTTCTTC-TTTTTTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTCTTCTTCTTCTTTTTTTTTTCTTTTTCTTTTTC
874319 TTTTTCTTTTCTTCTTCTTCTTTTTTTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTCTTCTTCTTCTTTTTTTTTTCTTTTTCTTTTTC
874362 TTTTTCTTTTCTT-TTCTT
1 TTTTTCTTTTCTTCTTCTT
874380 TTCTCTTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (43 bp):
TTTTTCTTTTCTTCTTCTTCTTTTTTTTTTCTTTTTCTTTTTC
Found at i:875245 original size:5 final size:5
Alignment explanation
Indices: 875235--875277 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
875225 TGACTTTTCC
* *
875235 TTCTT TTCTT TTCTT TGCTT TTCTT TT-TC TT-TT TTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
875278 GGGTTTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:875284 original size:28 final size:29
Alignment explanation
Indices: 875228--875284 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
875218 TTCATCTTGA
*
875228 CTTTTCCTTCTTTTCTTTTCTTTGCTTTT
1 CTTTTCCTTCTTTTCTTTTCTTGGCTTTT
* *
875257 CTTTTTCTT-TTTTCTTTTCTTGGGTTTT
1 CTTTTCCTTCTTTTCTTTTCTTGGCTTTT
875285 AAGATGCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.74
Consensus pattern (29 bp):
CTTTTCCTTCTTTTCTTTTCTTGGCTTTT
Found at i:875341 original size:11 final size:12
Alignment explanation
Indices: 875321--875365 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
875311 ATCTCGACCC
875321 TTTTCATTTTCTT
1 TTTTC-TTTTCTT
*
875334 TTTTTTTTTCTT
1 TTTTCTTTTCTT
875346 TTTTCTTTT-TT
1 TTTTCTTTTCTT
*
875357 TCTTCTTTT
1 TTTTCTTTT
875366 TTACCTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.34
12 15 0.52
13 4 0.14
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:875351 original size:19 final size:18
Alignment explanation
Indices: 875327--875367 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
875317 ACCCTTTTCA
*
875327 TTTTCTTTTTTTTTTTCTT
1 TTTTC-TTTTTTTCTTCTT
875346 TTTTCTTTTTTTCTTCTT
1 TTTTCTTTTTTTCTTCTT
875364 TTTT
1 TTTT
875368 ACCTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTCTTTTTTTCTTCTT
Found at i:875366 original size:11 final size:10
Alignment explanation
Indices: 875327--875367 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
875317 ACCCTTTTCA
875327 TTTTCTTTTT
1 TTTTCTTTTT
*
875337 TTTT-TTCTT
1 TTTTCTTTTT
875346 TTTTCTTTTT
1 TTTTCTTTTT
875356 TTCTTCTTTTT
1 TT-TTCTTTTT
875367 T
1 T
875368 ACCTCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 8 0.30
10 10 0.37
11 9 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:879534 original size:29 final size:29
Alignment explanation
Indices: 879502--879663 Score: 123
Period size: 30 Copynumber: 5.4 Consensus size: 29
879492 TTTTGGGGCT
*
879502 TTTGAGGGTCAAAATTGAATTTTGGAAAG
1 TTTGAGGGTCAAAATTAAATTTTGGAAAG
* * *
879531 TTTGAGGGTCGAAATCAAATTTTGGAGAG
1 TTTGAGGGTCAAAATTAAATTTTGGAAAG
*
879560 TTCGAGGGGTC-AAATCTAAATTTTTGGAAAG
1 TTTGA-GGGTCAAAAT-TAAA-TTTTGGAAAG
*
879591 TTT-AGGGGTTAAAATGT-AATGTTTGGAAAG
1 TTTGA-GGGTCAAAAT-TAAAT-TTTGGAAAG
* * ** *
879621 TTTAAGGGTTAAACCTAAATTTTTAGAAAG
1 TTTGAGGGTCAAAATTAAA-TTTTGGAAAG
* *
879651 TTCGGGGGTCAAA
1 TTTGAGGGTCAAA
879664 TAGTAATTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
29 35 0.32
30 55 0.51
31 18 0.17
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTGAGGGTCAAAATTAAATTTTGGAAAG
Found at i:879598 original size:30 final size:30
Alignment explanation
Indices: 879521--879664 Score: 125
Period size: 30 Copynumber: 4.8 Consensus size: 30
879511 CAAAATTGAA
879521 TTTTGGAAAGTTT-GAGGGTCGAAATC-AAA-
1 TTTTGGAAAGTTTAG-GGGTC-AAATCTAAAT
* *
879550 TTTTGGAGAGTTCGAGGGGTCAAATCTAAAT
1 TTTTGGAAAGTT-TAGGGGTCAAATCTAAAT
* *
879581 TTTTGGAAAGTTTAGGGGTTAAAATGT-AAT
1 TTTTGGAAAGTTTAGGGG-TCAAATCTAAAT
* * * *
879611 GTTTGGAAAGTTTAAGGGTTAAACCTAAAT
1 TTTTGGAAAGTTTAGGGGTCAAATCTAAAT
* **
879641 TTTTAGAAAGTTCGGGGGTCAAAT
1 TTTTGGAAAGTTTAGGGGTCAAAT
879665 AGTAATTTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
29 21 0.23
30 52 0.57
31 18 0.20
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTCAAATCTAAAT
Found at i:879629 original size:90 final size:91
Alignment explanation
Indices: 879522--879713 Score: 212
Period size: 90 Copynumber: 2.1 Consensus size: 91
879512 AAAATTGAAT
* * * *
879522 TTTGGAAAGTTTGAGGGTCGAAATC-AAA-TTTTGGAGAGTTCGAGGGGTCAAAT-CTAAATTTT
1 TTTGGAAAGTTTAAGGGT-GAAACCTAAATTTTTAGAAAGTTCG-GGGGTCAAATACT-AATTTT
* *
879584 TGGAAAGTTTAGGGGTTAAAATG-TAATG
63 TAGAAAGTTTAGGGGTAAAAATGTTAATG
* *
879612 TTTGGAAAGTTTAAGGGTTAAACCTAAATTTTTAGAAAGTTCGGGGGTCAAATAGTAATTTTTAG
1 TTTGGAAAGTTTAAGGGTGAAACCTAAATTTTTAGAAAGTTCGGGGGTCAAATACTAATTTTTAG
* * * * *
879677 TAATTTTGGGGGTAAAAATGTTATTT
66 AAAGTTTAGGGGTAAAAATGTTAATG
879703 TTTGGAAAGTT
1 TTTGGAAAGTT
879714 CAAGAACCTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 4 0.05
90 54 0.64
91 27 0.32
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (91 bp):
TTTGGAAAGTTTAAGGGTGAAACCTAAATTTTTAGAAAGTTCGGGGGTCAAATACTAATTTTTAG
AAAGTTTAGGGGTAAAAATGTTAATG
Found at i:880335 original size:19 final size:19
Alignment explanation
Indices: 880311--880349 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
880301 CACTCCAAAT
880311 ATGTCATGCTTGAGTTGTA
1 ATGTCATGCTTGAGTTGTA
880330 ATGTCATGCTTGAGTTGTA
1 ATGTCATGCTTGAGTTGTA
880349 A
1 A
880350 CAAAGTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (19 bp):
ATGTCATGCTTGAGTTGTA
Found at i:882747 original size:19 final size:19
Alignment explanation
Indices: 882723--882759 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
882713 AGTTAATATA
*
882723 TAATTTTATATTTTATTTC
1 TAATTTTATATGTTATTTC
882742 TAATTTTATATGTTATTT
1 TAATTTTATATGTTATTT
882760 GCAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (19 bp):
TAATTTTATATGTTATTTC
Found at i:883358 original size:15 final size:15
Alignment explanation
Indices: 883338--883387 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
883328 AGTGGAGAAA
*
883338 ATAAATATTTTATAT
1 ATAAATATTATATAT
883353 ATAAATATTATATAT
1 ATAAATATTATATAT
* *
883368 ATATATAATATATAT
1 ATAAATATTATATAT
*
883383 GTAAA
1 ATAAA
883388 GAATTAGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATAAATATTATATAT
Found at i:883365 original size:13 final size:13
Alignment explanation
Indices: 883347--883381 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
883337 AATAAATATT
883347 TTATATATAAATA
1 TTATATATAAATA
*
883360 TTATATATATATA
1 TTATATATAAATA
*
883373 TAATATATA
1 TTATATATA
883382 TGTAAAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTATATATAAATA
Found at i:888112 original size:18 final size:19
Alignment explanation
Indices: 888077--888117 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
888067 CAATACAAAC
888077 AAAATTAATAATAAAATA-
1 AAAATTAATAATAAAATAT
*
888095 AAAATTATATAA-ACAATAT
1 AAAATTA-ATAATAAAATAT
888114 AAAA
1 AAAA
888118 AAAAATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAATTAATAATAAAATAT
Found at i:888136 original size:24 final size:25
Alignment explanation
Indices: 888087--888136 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
888077 AAAATTAATA
* *
888087 ATAAAATAAAAATTATATAAACAAT
1 ATAAAATAAAAATTATACAAAAAAT
888112 ATAAAA-AAAAATT-TACAACAAAAT
1 ATAAAATAAAAATTATACAA-AAAAT
888136 A
1 A
888137 GTAGAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
24 12 0.55
25 6 0.27
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (25 bp):
ATAAAATAAAAATTATACAAAAAAT
Found at i:890372 original size:2 final size:2
Alignment explanation
Indices: 890365--890408 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
890355 ACAATTTGCA
890365 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
890407 AT
1 AT
890409 TGTAATGCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:894701 original size:21 final size:21
Alignment explanation
Indices: 894677--894723 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
894667 CTCTCCTTCC
* *
894677 TCCTTATGC-TTCTTCTTTTTG
1 TCCTTACGCTTTC-TCTTCTTG
894698 TCCTTACGCTTTCTCTTCTTG
1 TCCTTACGCTTTCTCTTCTTG
894719 TCCTT
1 TCCTT
894724 TGAACCAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.04, C:0.30, G:0.09, T:0.57
Consensus pattern (21 bp):
TCCTTACGCTTTCTCTTCTTG
Found at i:896847 original size:41 final size:41
Alignment explanation
Indices: 896790--896875 Score: 163
Period size: 41 Copynumber: 2.1 Consensus size: 41
896780 AGAGAGAGAA
896790 ATCAATCGACGCGATTCTTACTGAAAAAGCTTTGTTGAGTC
1 ATCAATCGACGCGATTCTTACTGAAAAAGCTTTGTTGAGTC
*
896831 ATCAATCGACGCGATTCTTGCTGAAAAAGCTTTGTTGAGTC
1 ATCAATCGACGCGATTCTTACTGAAAAAGCTTTGTTGAGTC
896872 ATCA
1 ATCA
896876 CAGAAAACGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
ATCAATCGACGCGATTCTTACTGAAAAAGCTTTGTTGAGTC
Found at i:898643 original size:25 final size:25
Alignment explanation
Indices: 898615--898673 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
898605 TTGTCAGCTA
898615 CTTGATTTTCAGATCTCTTTCTATC
1 CTTGATTTTCAGATCTCTTTCTATC
898640 CTTGATTTTCAGATCTCTTTCTATC
1 CTTGATTTTCAGATCTCTTTCTATC
898665 CTTGATTTT
1 CTTGATTTT
898674 AACATCAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.15, C:0.22, G:0.08, T:0.54
Consensus pattern (25 bp):
CTTGATTTTCAGATCTCTTTCTATC
Found at i:900973 original size:17 final size:17
Alignment explanation
Indices: 900951--901015 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
900941 TAGCTATATA
*
900951 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
*
900968 ATTGTCACAGCA-TTTT
1 ATTGTCACTGCATTTTT
* * **
900984 ATTGTCGCTGCATCTAC
1 ATTGTCACTGCATTTTT
*
901001 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
901016 CCATATATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 14 0.38
17 23 0.62
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:904983 original size:27 final size:27
Alignment explanation
Indices: 904904--905005 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
904894 AGGTCAGATT
* * *
904904 CAGATTATAGCTCCTTCGAGCCAAGTA
1 CAGAGTATAGCTCATTCGAGCCTAGTA
* * **
904931 CAGAGTATAACTCATTCAAGTATAGTA
1 CAGAGTATAGCTCATTCGAGCCTAGTA
* *
904958 CAGAGTGTAGCTAATTCGAGCCTAGTA
1 CAGAGTATAGCTCATTCGAGCCTAGTA
904985 CAGTA-TATAGCTCATTCGAGC
1 CAG-AGTATAGCTCATTCGAGC
905006 TGAGTGCAGA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (27 bp):
CAGAGTATAGCTCATTCGAGCCTAGTA
Found at i:905405 original size:25 final size:25
Alignment explanation
Indices: 905377--905424 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
905367 TATTATTATT
*
905377 ATTATATTGTTTA-CATTTAATTTTA
1 ATTATATT-TTTATAATTTAATTTTA
*
905402 ATTATCTTTTTATAATTTAATTT
1 ATTATATTTTTATAATTTAATTT
905425 GGATCCAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTATATTTTTATAATTTAATTTTA
Found at i:912930 original size:109 final size:109
Alignment explanation
Indices: 912731--912940 Score: 253
Period size: 109 Copynumber: 1.9 Consensus size: 109
912721 AAGAACATTC
* ** * * * *
912731 ATCGATTTTAAATAGGATGTTCAATTACTTAGGTTCAAAGAAAAAAAATACTCAGCACGTTAGGG
1 ATCGATTTCAAATAGGATACTCAATTACTTAGGTTCAAACAAAAAAAATACCCAACACGTTAGGA
** *
912796 CACAATTTTTTAGGTCCCTTAAAATAACAGAACATTTAGCCTTT
66 CACAATTTTCGAGGTCCCTTAAAATAAAAGAACATTTAGCCTTT
* *
912840 ATCGATTTCAAATAGGATACTCAATTATTTAGGTTCAAACAAAAAATCATACCCAACACGTTAGG
1 ATCGATTTCAAATAGGATACTCAATTACTTAGGTTCAAACAAAAAA-AATACCCAACACGTTAGG
** *
912905 ACACAATTTCTCGATTTCCC-T-AAATAAAAGAGCATT
65 ACACAATTT-TCGAGGTCCCTTAAAATAAAAGAACATT
912941 GCCTCGATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
109 54 0.64
110 24 0.29
111 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (109 bp):
ATCGATTTCAAATAGGATACTCAATTACTTAGGTTCAAACAAAAAAAATACCCAACACGTTAGGA
CACAATTTTCGAGGTCCCTTAAAATAAAAGAACATTTAGCCTTT
Found at i:913075 original size:5 final size:5
Alignment explanation
Indices: 913065--913112 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
913055 TGCAATGATG
*
913065 AATAA AATAA AATAA ATATATA TATAA TAATAA AATAA AATAA CAATA
1 AATAA AATAA AATAA A-ATA-A AATAA -AATAA AATAA AATAA -AATA
913113 CTATTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 22 0.59
6 14 0.38
7 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:914620 original size:80 final size:82
Alignment explanation
Indices: 914500--914776 Score: 260
Period size: 81 Copynumber: 3.4 Consensus size: 82
914490 TCGTAACCTA
* * * * *
914500 TCTTCAATTTGCCCTCTA--AACGGGTAAAAGATCGGATGGTCTTCAATCTACCCT-CTGGTTAG
1 TCTTCAATCTGCCCTCTAGTTA-GGGTAAAAGATTGAATGGTCTTCAATCTA-CCTAATGGTTAG
914562 GATAAAAGATTAGAT-G-G
64 GATAAAAGATTAGATGGTG
* * * *
914579 TCTTTAATCTTCCCTCTAGTTAGGGTAAAAGATTGAATGGTCTTCAATCTACCTAATGGTTGGGG
1 TCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGAATGGTCTTCAATCTACCTAATGGTTAGGA
* *
914644 TAAGAGATTGGATGGTG
66 TAAAAGATTAGATGGTG
* * * * * * ** *
914661 TCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGAT-GACTTCAATTTGCCTCATGGTCGGGG
1 TCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGAATGGTCTTCAATCTACCTAATGGTTAGGA
* * **
914725 TAAGAGATTGGAAAGTG
66 TAAAAGATTAGATGGTG
* *
914742 TCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTG
1 TCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTG
914777 GATGAATTCA
Statistics
Matches: 170, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
79 18 0.11
80 45 0.26
81 72 0.42
82 35 0.21
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (82 bp):
TCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGAATGGTCTTCAATCTACCTAATGGTTAGGA
TAAAAGATTAGATGGTG
Found at i:914687 original size:42 final size:40
Alignment explanation
Indices: 914521--915334 Score: 502
Period size: 39 Copynumber: 20.4 Consensus size: 40
914511 CCCTCTAAAC
* * *
914521 GGGTAAAAGATCGGATGGTCTTCAATCTACCCTCTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * * * * *
914561 GGATAAAAGATTAGATGGTCTTTAATCTTCCCTCTAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * *
914601 GGGTAAAAGATTGAATGGTCTTCAATCT-ACCTAATGGTTG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCT-ATGGTTA
* * *
914641 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCCTTTAGTTA
1 GGGTAAAAGATTGGAT-G-GTCTTCAATCTGCCCTATGGTTA
* * **
914683 GGGTAAAAGATTGGAT-GACTTCAATTTG-CCTCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCT-ATGGTTA
* * *
914722 GGGTAAGAGATTGGAAAGTGTCTTCAATCTGCCCTTTGGTTA
1 GGGTAAAAGATTGG-ATG-GTCTTCAATCTGCCCTATGGTTA
** *
914764 GGGTAAAAGATTGGAT-GAATTCAATCTG-CCTCATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCT-ATGGTTA
* * *
914803 AGGT---A-ATTGGAT-G-C--C--T-T-CT--A--ATTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* *
914827 GGG-AAATAGATTGGATAG-CTTCAATCTGCCCTATGG-TC
1 GGGTAAA-AGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * *
914865 GGGAAAACAGATTGGATGGTGTCTTCAATTTGCCCTCTGGTTA
1 GGGTAAA-AGATTGGAT-G-GTCTTCAATCTGCCCTATGGTTA
* * **
914908 GGGTAAAAGATTGGAT-GACTTCAATCTGTCCC-ATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTG-CCCTATGGTTA
* ** *
914947 GGGTAAGATTTTGGATGGTAGCTTCAATCTG-CCTTTGGTTA
1 GGGTAAAAGATTGGATGGT--CTTCAATCTGCCCTATGGTTA
* * **
914988 GGGTAAAAGATTGGTTGG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* ** * *
915027 GGGTAAGATTTTGGATGGTAGCTTCAATCTGCCCTTTAGTTA
1 GGGTAAAAGATTGGATGGT--CTTCAATCTGCCCTATGGTTA
* * *
915069 GGGTAAAAGATTGGTTGG-CTTCAATCTGCCCCATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * * *
915108 GGGTAAGAGATTGGATGGTAGCTTCAACCTACCCTTTGGTTA
1 GGGTAAAAGATTGGATGGT--CTTCAATCTGCCCTATGGTTA
* * * * **
915150 GAGTAAAAGATTGGATGG-GTTCAATTTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * *
915189 GGGTAAGAGAGTGGATGATGTCTTCAATCTGCCCTTTGTGTTA
1 GGGTAAAAGATTGGATG--GTCTTCAATCTGCCCTATG-GTTA
* * * *
915232 GGGTAAAAGATTAGAT-GACTTCAATCTGCCCCATGGTTG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
* * * *
915271 GGGTAAGAGATTAGATAGTGTCTTCAATCTGCCCCTCTTGACTTA
1 GGGTAAAAGATTGGAT-G-GTCTTCAATCTG-CCCT-ATG-GTTA
915316 GGGGTAAAAGATTGGATGG
1 -GGGTAAAAGATTGGATGG
915335 GATGATGTAA
Statistics
Matches: 584, Mismatches: 135, Indels: 106
0.71 0.16 0.13
Matches are distributed among these distances:
24 4 0.01
26 1 0.00
27 1 0.00
28 7 0.01
29 3 0.01
30 1 0.00
31 1 0.00
32 1 0.00
33 1 0.00
34 1 0.00
35 9 0.02
36 1 0.00
37 1 0.00
38 20 0.03
39 183 0.31
40 99 0.17
41 21 0.04
42 178 0.30
43 31 0.05
44 3 0.01
45 3 0.01
46 14 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTATGGTTA
Found at i:914808 original size:81 final size:81
Alignment explanation
Indices: 914578--914801 Score: 322
Period size: 81 Copynumber: 2.8 Consensus size: 81
914568 AGATTAGATG
* * * * * * * *
914578 GTCTTTAATCTTCCCTCTAGTTAGGGTAAAAGATTGAATGGTCTTCAATCTACCTAATGGTTGGG
1 GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGAT-GACTTCAATCTGCCTCATGGTCGGG
**
914643 GTAAGAGATTGGATGGT
65 GTAAGAGATTGGAAAGT
*
914660 GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATTTGCCTCATGGTCGGGG
1 GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTCGGGG
914725 TAAGAGATTGGAAAGT
66 TAAGAGATTGGAAAGT
* *
914741 GTCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCTCATGGTC
1 GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTC
914802 AAGGTAATTG
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
81 93 0.73
82 35 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (81 bp):
GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTCGGGG
TAAGAGATTGGAAAGT
Found at i:914952 original size:144 final size:144
Alignment explanation
Indices: 914680--914945 Score: 378
Period size: 144 Copynumber: 1.8 Consensus size: 144
914670 TGCCCTTTAG
* ** *
914680 TTAGGGTAAAAGATTGGATGACTTCAATTTGCCTCATGGTCGGGGTAAGAGATTGGAAAGTGTCT
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTCGGGAAAACAGATTGGAAAGTGTCT
* *
914745 TCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCTCATGGTCAAGGTAAT
66 TCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCTCATGATCAAGGTAAT
914810 TGGATGCCTTCTAA
131 TGGATGCCTTCTAA
**
914824 TTAGGG-AAATAGATTGGAT-AGCTTCAATCTGCC-CTATGGTCGGGAAAACAGATTGGATGGTG
1 TTAGGGTAAA-AGATTGGATGA-CTTCAATCTGCCTC-ATGGTCGGGAAAACAGATTGGAAAGTG
* *
914886 TCTTCAATTTGCCCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGTCC-CATGATC
63 TCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGAATTCAATCTG-CCTCATGATC
914946 GGGGTAAGAT
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
143 5 0.05
144 101 0.94
145 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.32
Consensus pattern (144 bp):
TTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTCGGGAAAACAGATTGGAAAGTGTCT
TCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCTCATGATCAAGGTAAT
TGGATGCCTTCTAA
Found at i:914961 original size:81 final size:81
Alignment explanation
Indices: 914824--915333 Score: 609
Period size: 81 Copynumber: 6.2 Consensus size: 81
914814 TGCCTTCTAA
* ** *
914824 TTAGGG-AAATAGATTGGAT-AGCTTCAATCTGCCCTATGGTCGGGAAAACAGATTGGATGGT-G
1 TTAGGGTAAA-AGATTGGATGA-CTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAG
* *
914886 TCTTCAATTTGCCCTCTGG
64 -CTTCAATCTGCCCTTTGG
* * **
914905 TTAGGGTAAAAGATTGGATGACTTCAATCTGTCCCATGATCGGGGTAAGATTTTGGATGGTAGCT
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAGCT
914970 TCAATCTG-CCTTTGG
66 TCAATCTGCCCTTTGG
* * **
914985 TTAGGGTAAAAGATTGGTTGGCTTCAATCTGCCCCATGGTCGGGGTAAGATTTTGGATGGTAGCT
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAGCT
*
915050 TCAATCTGCCCTTTAG
66 TCAATCTGCCCTTTGG
* * *
915066 TTAGGGTAAAAGATTGGTTGGCTTCAATCTGCCCCATGGTCAGGGTAAGAGATTGGATGGTAGCT
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAGCT
* *
915131 TCAACCTACCCTTTGG
66 TCAATCTGCCCTTTGG
* ** * * *
915147 TTAGAGTAAAAGATTGGATGGGTTCAATTTGCCCCATGGTCGGGGTAAGAGAGTGGATGAT-GTC
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAG-C
915211 TTCAATCTGCCCTTTGTG
65 TTCAATCTGCCCTTTG-G
* * * *
915229 TTAGGGTAAAAGATTAGATGACTTCAATCTGCCCCATGGTTGGGGTAAGAGATTAGATAGT-GTC
1 TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAG-C
*
915293 TTCAATCTGCCCCTCTTGAC
65 TTCAATCTG-CCCT-TTG-G
915313 TTAGGGGTAAAAGATTGGATG
1 TTA-GGGTAAAAGATTGGATG
915334 GGATGATGTA
Statistics
Matches: 377, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
80 76 0.20
81 206 0.55
82 69 0.18
83 4 0.01
84 6 0.02
85 16 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (81 bp):
TTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTAGCT
TCAATCTGCCCTTTGG
Found at i:915094 original size:305 final size:305
Alignment explanation
Indices: 914540--915113 Score: 766
Period size: 305 Copynumber: 1.9 Consensus size: 305
914530 ATCGGATGGT
* * *
914540 CTTCAATCTACCCTCTGGTTAGGATAAAAGATTAGATGGTCTTTAATCTTCCCTCTAGTTAGGGT
1 CTTCAATCTACCCTATGGTCAGGATAAAAGATTAGATGGTCTTCAATCTTCCCTCTAGTTAGGGT
* * *
914605 AAAAGATTGAATGGTCTTCAATCTACCTAATGGTTGGGGTAAGAGATTGGATGGTGTCTTCAATC
66 AAAAGATTGAATGGACTTCAATCTACCTAATGATCGGGGTAAGAGATTGGATGGTGTCTTCAATC
* *
914670 TGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATTTGCCTCATGGTCGGGGTAAGAGATTG
131 TGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTG
* *
914735 GAAAGTGTCTTCAATCTGCCCTTTGGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCTCATGG
196 GAAAGTGTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCCCATGG
914800 TCAAGGTAATTGGATGCCTTCTAATTAGGGAAATAGATTGGATAG
261 TCAAGGTAATTGGATGCCTTCTAATTAGGGAAATAGATTGGATAG
* * * *
914845 CTTCAATCTGCCCTATGGTCGGGA-AAACAGATTGGATGGTGTCTTCAAT-TTGCCCTCTGGTTA
1 CTTCAATCTACCCTATGGTCAGGATAAA-AGATTAGAT-G-GTCTTCAATCTT-CCCTCTAGTTA
* * * **
914908 GGGTAAAAGATTGGAT-GACTTCAATCTGTCC-CATGATCGGGGTAAGATTTTGGATGGTAG-CT
62 GGGTAAAAGATTGAATGGACTTCAATCT-ACCTAATGATCGGGGTAAGAGATTGGATGGT-GTCT
* * *
914970 TCAATCTG-CCTTTGGTTAGGGTAAAAGATTGGTTGGCTTCAATCTGCCCCATGGTCGGGGTAAG
125 TCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAG
** ** * **
915034 ATTTTGGATGGTAG-CTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGTTGGCTTCAATCTGC
190 AGATTGGAAAGT-GTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGAATTCAATCTGC
*
915098 CCCATGGTCAGGGTAA
254 CCCATGGTCAAGGTAA
915114 GAGATTGGAT
Statistics
Matches: 232, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
304 3 0.01
305 147 0.63
306 46 0.20
307 36 0.16
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (305 bp):
CTTCAATCTACCCTATGGTCAGGATAAAAGATTAGATGGTCTTCAATCTTCCCTCTAGTTAGGGT
AAAAGATTGAATGGACTTCAATCTACCTAATGATCGGGGTAAGAGATTGGATGGTGTCTTCAATC
TGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTG
GAAAGTGTCTTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGAATTCAATCTGCCCCATGG
TCAAGGTAATTGGATGCCTTCTAATTAGGGAAATAGATTGGATAG
Found at i:915114 original size:161 final size:162
Alignment explanation
Indices: 914824--915334 Score: 625
Period size: 161 Copynumber: 3.1 Consensus size: 162
914814 TGCCTTCTAA
* * ** *
914824 TTAGGG-AAATAGATTGGATAGCTTCAATCTGCCCTATGGTCGGGAAAACAGATTGGATGGTGTC
1 TTAGGGTAAA-AGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTC
* * * * *
914888 TTCAATTTGCCCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGTCCCATGATCGGGGTAA
65 TTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAA
** * *
914953 GATTTTGGATGGTAGCTTCAATCT-GCCTTTGG
130 GAGATTGGATGGTAGCTTCAACCTACCCTTTGG
* **
914985 TTAGGGTAAAAGATTGGTTGGCTTCAATCTGCCCCATGGTCGGGGTAAGATTTTGGATGGTAG-C
1 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGT-GTC
* * *
915049 TTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGTTGGCTTCAATCTGCCCCATGGTCAGGGTAA
65 TTCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAA
915114 GAGATTGGATGGTAGCTTCAACCTACCCTTTGG
130 GAGATTGGATGGTAGCTTCAACCTACCCTTTGG
* * * * *
915147 TTAGAGTAAAAGATTGGATGGGTTCAATTTGCCCCATGGTCGGGGTAAGAGAGTGGATGATGTCT
1 TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
* * *
915212 TCAATCTGCCCTTTGTGTTAGGGTAAAAGATTAGATGACTTCAATCTGCCCCATGGTTGGGGTAA
66 TCAATCTGCCCTTT-AGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAA
* * * * *
915277 GAGATTAGATAGT-GTCTTCAATCTGCCCCTCTTGAC
130 GAGATTGGATGGTAG-CTTCAACCT-ACCCT-TTG-G
915313 TTAGGGGTAAAAGATTGGATGG
1 TTA-GGGTAAAAGATTGGATGG
915335 GATGATGTAA
Statistics
Matches: 300, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
161 129 0.43
162 81 0.27
163 63 0.21
164 4 0.01
165 3 0.01
166 3 0.01
167 17 0.06
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (162 bp):
TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCT
TCAATCTGCCCTTTAGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCCCATGGTCGGGGTAAG
AGATTGGATGGTAGCTTCAACCTACCCTTTGG
Found at i:915856 original size:47 final size:46
Alignment explanation
Indices: 915799--915961 Score: 168
Period size: 47 Copynumber: 3.5 Consensus size: 46
915789 TAATCCGCTT
915799 CACTGCAACTTTAGGAAGATAGGATTTAGTGAGGCTTCATCTTGCTC
1 CACTGCAACTTTAGGAAGATAGGATTT-GTGAGGCTTCATCTTGCTC
* * ** *** * *
915846 CATTGCAACTTCAGGAAGATTAATATTTGCTCCTGCTTTAATCCTT--TT
1 CACTGCAACTTTAGGAAGA-TAGGATTTG-TGAGGC-TTCAT-CTTGCTC
915894 CACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTC
1 CACTGCAACTTTAGGAAGATAGGATTT-GTGAGGCTTCATCTTGCTC
*
915941 CACTGCAACTTTAGGGAGATA
1 CACTGCAACTTTAGGAAGATA
915962 AAGATTTGCC
Statistics
Matches: 90, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
45 3 0.03
46 4 0.04
47 48 0.53
48 28 0.31
49 4 0.04
50 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (46 bp):
CACTGCAACTTTAGGAAGATAGGATTTGTGAGGCTTCATCTTGCTC
Found at i:915874 original size:95 final size:95
Alignment explanation
Indices: 915395--915975 Score: 472
Period size: 95 Copynumber: 6.0 Consensus size: 95
915385 CGCTACTATA
* * * * * *
915395 GTTTTAATCTGCTTCATTACAACTTTAGGAAGATAGAATTTGGTGTTGAAGCTTTATCTTGCTCC
1 GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTT-G-G-TGAGGCTTCATCTTGCTCC
* * *
915460 ACTACAACTTTAGGGATATAAATATTTGCTAATGTT
63 ACTGCAACTTTAGGGAGATAAAGATTTGCTAA---T
* * * * * ** * * *
915496 AGTTTTTATTCG-ATCTCTACAACTTCGGGTATATAGGATTTGGTTTTGTA-GTTTCATCTTGCT
1 -GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTGG---TG-AGGCTTCATCTTGCT
** * * * *
915559 CCACCACAACATTAGGGAGATAAAGGTTTGTTACT
61 CCACTGCAACTTTAGGGAGATAAAGATTTGCTAAT
* * * * * *
915594 ATTTTAATCCGCTT-ACTGCAACTTCAAGAAGATAGGATTTGCTGTGGCTTCATCTTGCTCTACT
1 GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTCCACT
** * *
915658 GCAACTTTAGGGAGATAAAGATCCGCCAAA
66 GCAACTTTAGGGAGATAAAGATTTGCTAAT
* * * * * * *
915688 GTTTTAATTCG-ATC-CTTGTAACTTCAAGG-ATATAGGATTTGGTGTTGTAGCATCATCTTGCT
1 GTTTTAATCCGCTTCAC-TGCAACTT-TAGGAAGATAGGATTTGGTG-AG--GCTTCATCTTGCT
* *
915750 CCACTGTAACTTTAGGGAGATAAAGATTTGCTATT
61 CCACTGCAACTTTAGGGAGATAAAGATTTGCTAAT
* *
915785 GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTAGTGAGGCTTCATCTTGCTCCATT
1 GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTCCACT
* * * * **
915850 GCAACTTCAGGAAGATTAATATTTGCTCCT
66 GCAACTTTAGGGAGATAAAGATTTGCTAAT
* **
915880 GCTTTAATCCTTTTCACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTCCACT
1 GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTCCACT
*
915945 GCAACTTTAGGGAGATAAAGATTTGCCAAT
66 GCAACTTTAGGGAGATAAAGATTTGCTAAT
915975 G
1 G
915976 CTAGTTTTAA
Statistics
Matches: 377, Mismatches: 88, Indels: 35
0.75 0.18 0.07
Matches are distributed among these distances:
93 2 0.01
94 67 0.18
95 127 0.34
97 83 0.22
98 24 0.06
99 2 0.01
100 1 0.00
101 62 0.16
102 9 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (95 bp):
GTTTTAATCCGCTTCACTGCAACTTTAGGAAGATAGGATTTGGTGAGGCTTCATCTTGCTCCACT
GCAACTTTAGGGAGATAAAGATTTGCTAAT
Found at i:916925 original size:7 final size:7
Alignment explanation
Indices: 916893--916967 Score: 69
Period size: 7 Copynumber: 10.4 Consensus size: 7
916883 TCTTTATCTC
916893 TCTTTTT
1 TCTTTTT
*
916900 TCTTTCT
1 TCTTTTT
*
916907 TCTTTCT
1 TCTTTTT
916914 TCTTTTT
1 TCTTTTT
*
916921 CCTTTTT
1 TCTTTTT
* * *
916928 CCTGTTC
1 TCTTTTT
*
916935 CCTTTTTT
1 TC-TTTTT
916943 TCTTTTT
1 TCTTTTT
916950 TCTTTTT
1 TCTTTTT
916957 TCTTTTCT
1 TCTTTT-T
916965 TCT
1 TCT
916968 GCTTCTCTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
7 50 0.86
8 8 0.14
ACGTcount: A:0.00, C:0.24, G:0.01, T:0.75
Consensus pattern (7 bp):
TCTTTTT
Found at i:919262 original size:24 final size:24
Alignment explanation
Indices: 919223--919277 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
919213 TGTATGGGTA
*
919223 TCTTCTT-TTTTTCATTTTCATTT
1 TCTTCTTGTTTTCCATTTTCATTT
*
919246 TCTTCTTGTTTTCCATTTTCTTTT
1 TCTTCTTGTTTTCCATTTTCATTT
*
919270 TCCTCTTG
1 TCTTCTTG
919278 AGAACTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.05, C:0.22, G:0.04, T:0.69
Consensus pattern (24 bp):
TCTTCTTGTTTTCCATTTTCATTT
Found at i:937340 original size:162 final size:162
Alignment explanation
Indices: 937152--937475 Score: 639
Period size: 162 Copynumber: 2.0 Consensus size: 162
937142 CAAGTATAGG
937152 TTTAGACTCGAGTAAGAGGTGTTATTTTTATAATATAACTTTTTAATATTTATAATACAACTTCA
1 TTTAGACTCGAGTAAGAGGTGTTATTTTTATAATATAACTTTTTAATATTTATAATACAACTTCA
937217 GAAAATTTTTGTTATAACTATCTCAAACATTCTTACGTGTTCATACTTATAATATAATTTTTGTA
66 GAAAATTTTTGTTATAACTATCTCAAACATTCTTACGTGTTCATACTTATAATATAATTTTTGTA
937282 AAAAATAATTTCTTAAAGTTGAATAATGTATA
131 AAAAATAATTTCTTAAAGTTGAATAATGTATA
937314 TTTAGACTCGAGTAAGAGGTGTTATTTTTATAATATAACTTTTTAATATTTATAATACAACTTCA
1 TTTAGACTCGAGTAAGAGGTGTTATTTTTATAATATAACTTTTTAATATTTATAATACAACTTCA
*
937379 GAAAATTTTTGTTATAACTATCTCAAACATTCTTATGTGTTCATACTTATAATATAATTTTTGTA
66 GAAAATTTTTGTTATAACTATCTCAAACATTCTTACGTGTTCATACTTATAATATAATTTTTGTA
937444 AAAAATAATTTCTTAAAGTTGAATAATGTATA
131 AAAAATAATTTCTTAAAGTTGAATAATGTATA
937476 ATTGTTTGAA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 161 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (162 bp):
TTTAGACTCGAGTAAGAGGTGTTATTTTTATAATATAACTTTTTAATATTTATAATACAACTTCA
GAAAATTTTTGTTATAACTATCTCAAACATTCTTACGTGTTCATACTTATAATATAATTTTTGTA
AAAAATAATTTCTTAAAGTTGAATAATGTATA
Found at i:944036 original size:20 final size:19
Alignment explanation
Indices: 943998--944037 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
943988 TCTCCCTCCG
*
943998 AAGGGAATTTTTGTCAAAA
1 AAGGGAATTTTTCTCAAAA
*
944017 AAGGGAATGTTTTCTGAAAA
1 AAGGGAAT-TTTTCTCAAAA
944037 A
1 A
944038 GTAACATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (19 bp):
AAGGGAATTTTTCTCAAAA
Found at i:948289 original size:40 final size:41
Alignment explanation
Indices: 948238--948315 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
948228 ACTTTAGTTA
* *
948238 TATTTAGTTTAGCTAAATTTAAATAAATTAATAAAAATAAT
1 TATTTAGTTTAGATAAATTTAAATAAATTAAGAAAAATAAT
948279 TATTTA-TTTAGATAAATTTAAATAAATTAAGAAAAAT
1 TATTTAGTTTAGATAAATTTAAATAAATTAAGAAAAAT
948316 TCAATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 29 0.83
41 6 0.17
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (41 bp):
TATTTAGTTTAGATAAATTTAAATAAATTAAGAAAAATAAT
Found at i:953793 original size:30 final size:30
Alignment explanation
Indices: 953748--953811 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
953738 AAAATAGATG
* * ** *
953748 AGGTTGAACTGTGAATTAAGTGTATGTAGT
1 AGGTTGAACTATGAATGAAGCCTATGTACT
*
953778 AGGTTGAATTATGAATGAAGCCTATGTACT
1 AGGTTGAACTATGAATGAAGCCTATGTACT
953808 AGGT
1 AGGT
953812 GAAAATGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (30 bp):
AGGTTGAACTATGAATGAAGCCTATGTACT
Found at i:954907 original size:20 final size:21
Alignment explanation
Indices: 954882--954921 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
954872 AAAAACTCAG
954882 TTCAATAGA-TTTTTAGTCGA
1 TTCAATAGATTTTTTAGTCGA
*
954902 TTCAATTGATTTTTTAGTCG
1 TTCAATAGATTTTTTAGTCG
954922 GTTTAATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (21 bp):
TTCAATAGATTTTTTAGTCGA
Found at i:959201 original size:24 final size:24
Alignment explanation
Indices: 959169--959224 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
959159 TGTATGGGTA
959169 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
959193 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
959217 TCCTCTTG
1 TCTTCTTG
959225 AGAACTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Done.