Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008054.1 Hibiscus syriacus cultivar Beakdansim tig00110549_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: 738886
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 1 of 3
Found at i:79 original size:52 final size:53
Alignment explanation
Indices: 1--112 Score: 217
Period size: 52 Copynumber: 2.1 Consensus size: 53
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA
53 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA
106 TTTTCAT
1 TTTTCAT
113 GTTGGGATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 42 0.71
53 17 0.29
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.47
Consensus pattern (53 bp):
TTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA
Found at i:105 original size:34 final size:33
Alignment explanation
Indices: 47--140 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 33
37 TCATTTCGCA
47 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCAT-G
*
80 TTGCGATTTTCATTTCCGCATTGCGATTTTCATG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCATG
* *
114 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
141 GTATTTTCCG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
33 26 0.46
34 29 0.52
35 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCATG
Found at i:2449 original size:13 final size:13
Alignment explanation
Indices: 2431--2455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2421 CTTCGGGGAC
2431 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
2444 TTTTTCTTCTTC
1 TTTTTCTTCTTC
2456 AGGATTATAT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:2663 original size:24 final size:24
Alignment explanation
Indices: 2629--2675 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2619 CTGAAACATC
2629 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2653 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2676 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:3374 original size:20 final size:20
Alignment explanation
Indices: 3346--3714 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
3336 AAATTTCAGT
* * * *
3346 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
3366 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
3386 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
3406 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
3426 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
3446 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
3466 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
3486 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3506 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3526 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
3546 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
3566 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
3586 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
3606 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
3626 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
3646 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
3666 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
3686 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
3706 GTTGCGATT
1 GTTGCGATT
3715 ATGGAAAATC
Statistics
Matches: 313, Mismatches: 30, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
19 3 0.01
20 307 0.98
21 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:8618 original size:25 final size:26
Alignment explanation
Indices: 8572--8620 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8562 TTTACGTTGA
*
8572 AATTTTATGTATATTTATTATATACG
1 AATTTTATGTATATTTAATATATACG
*
8598 AATTTTATTTAT-TTTAATATATA
1 AATTTTATGTATATTTAATATATA
8621 TATATATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
AATTTTATGTATATTTAATATATACG
Found at i:8830 original size:14 final size:14
Alignment explanation
Indices: 8813--8849 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8803 CTAAATCATC
8813 AATCATAAAACATA
1 AATCATAAAACATA
*
8827 AATCCTAAAACATA
1 AATCATAAAACATA
*
8841 AATCTTAAA
1 AATCATAAA
8850 CTCTAACTTA
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:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCATAAAACATA
Found at i:10276 original size:3 final size:3
Alignment explanation
Indices: 10268--10298 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10258 TCGTATGGTT
10268 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10299 ATTGGTGTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21661 original size:21 final size:21
Alignment explanation
Indices: 21629--21681 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
21619 TTATCAAAAA
21629 TATTATTATTTCTACAGATTT
1 TATTATTATTTCTACAGATTT
* * *
21650 TGTTATTTTTTCTACCGATTT
1 TATTATTATTTCTACAGATTT
21671 TATTATTATTT
1 TATTATTATTT
21682 GACACTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTATTATTTCTACAGATTT
Found at i:26525 original size:31 final size:31
Alignment explanation
Indices: 26490--26561 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
26480 AAAACATAAT
* *
26490 ATATAGTCATTTTTGTTTATATTTAATTAAG
1 ATATAGTCACTTTCGTTTATATTTAATTAAG
* *
26521 ATATAGTCACTTTCGTTTTTATTTAATTAAT
1 ATATAGTCACTTTCGTTTATATTTAATTAAG
*
26552 ATATAATCAC
1 ATATAGTCAC
26562 CACAAGTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.51
Consensus pattern (31 bp):
ATATAGTCACTTTCGTTTATATTTAATTAAG
Found at i:26732 original size:77 final size:76
Alignment explanation
Indices: 26605--26760 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 76
26595 AGGTGACATG
26605 ATATTTTGGTATAATCAGATATTTGGTCACTGTTATTTATATATTCTCTTAATTTTACTCATACT
1 ATATTTTGGTATAATCAGATATTTGGTCACTGTTATTTATATATTCTCTTAA-TTTACTCATACT
26670 TTTAATATTAAA
65 TTTAATATTAAA
* *
26682 ATATTTTGGTATAATCATATATTTGGTCCCTGTTATTTATATATTCTCTTAATTTACTCATACTT
1 ATATTTTGGTATAATCAGATATTTGGTCACTGTTATTTATATATTCTCTTAATTTACTCATACTT
26747 TTAATATTAAA
66 TTAATATTAAA
26758 ATA
1 ATA
26761 AATTTAATCA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 27 0.35
77 50 0.65
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (76 bp):
ATATTTTGGTATAATCAGATATTTGGTCACTGTTATTTATATATTCTCTTAATTTACTCATACTT
TTAATATTAAA
Found at i:27235 original size:17 final size:17
Alignment explanation
Indices: 27186--27235 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
27176 TACTTAATCC
27186 TTAAATTTACCAAAGTA
1 TTAAATTTACCAAAGTA
*
27203 TTATAA--AACC--AGTA
1 TTA-AATTTACCAAAGTA
27217 TTAAATTTACCAAAGTA
1 TTAAATTTACCAAAGTA
27234 TT
1 TT
27236 CCAAAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 2 0.08
14 7 0.27
15 3 0.12
16 3 0.12
17 9 0.35
18 2 0.08
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TTAAATTTACCAAAGTA
Found at i:35600 original size:31 final size:31
Alignment explanation
Indices: 35565--35634 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
35555 TAAGGGAGAA
*
35565 TAGTCCCTAA-AGTTATCGATCCATCCGATTT
1 TAGTCCCTAACA-TTATCAATCCATCCGATTT
* *
35596 TAGTCCCTAACATTATCAATCCGTTCGATTT
1 TAGTCCCTAACATTATCAATCCATCCGATTT
35627 TAGTCCCT
1 TAGTCCCT
35635 CATCCGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (31 bp):
TAGTCCCTAACATTATCAATCCATCCGATTT
Found at i:37686 original size:11 final size:11
Alignment explanation
Indices: 37670--37696 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37660 TTTAAAAACT
37670 TATATATAATA
1 TATATATAATA
37681 TATATATAATA
1 TATATATAATA
37692 TATAT
1 TATAT
37697 GTTGGGTAGG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATATATAATA
Found at i:37957 original size:18 final size:18
Alignment explanation
Indices: 37901--37958 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
37891 CAACGTTGTC
37901 GAACATCATCGAAGTGAA
1 GAACATCATCGAAGTGAA
* ** * *
37919 GAACACCA-AAAAGTCAC
1 GAACATCATCGAAGTGAA
37936 GAACATCATCGAAGTGAA
1 GAACATCATCGAAGTGAA
37954 GAACA
1 GAACA
37959 CACACAAAAA
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (18 bp):
GAACATCATCGAAGTGAA
Found at i:58698 original size:2 final size:2
Alignment explanation
Indices: 58691--58721 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58681 CACATCTGTC
58691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58722 GCATGGAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60414 original size:6 final size:6
Alignment explanation
Indices: 60403--60439 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
60393 AAACACCCAG
60403 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT G
60440 GGAAGATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GAAGAT
Found at i:62591 original size:3 final size:3
Alignment explanation
Indices: 62572--62634 Score: 69
Period size: 3 Copynumber: 21.3 Consensus size: 3
62562 TGTAGACATA
* *
62572 TAT TAT TAG TAT T-T TAT TAT T-T TAT TAA TAT TAT ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
62616 ATAT TA- TAT TAT TAT TAT T
1 -TAT TAT TAT TAT TAT TAT T
62635 TAATAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
2 6 0.12
3 39 0.76
4 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:62620 original size:28 final size:27
Alignment explanation
Indices: 62571--62633 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
62561 CTGTAGACAT
*
62571 ATATTATTAGTATTTTATTATTTTATTA
1 ATATTA-TAGTATTTTATTATTATATTA
62599 ATATTATA-TATTATTATATATTATATTA
1 ATATTATAGTATT-TTAT-TATTATATTA
*
62627 TTATTAT
1 ATATTAT
62634 TTAATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.13
27 6 0.19
28 21 0.68
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATTATAGTATTTTATTATTATATTA
Found at i:63077 original size:14 final size:15
Alignment explanation
Indices: 63051--63082 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
63041 CAGACGGCAG
63051 AGAACGAAAAAAAAC
1 AGAACGAAAAAAAAC
63066 AGAACG-AAAAAAAC
1 AGAACGAAAAAAAAC
63080 AGA
1 AGA
63083 GGAGGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.72, C:0.12, G:0.16, T:0.00
Consensus pattern (15 bp):
AGAACGAAAAAAAAC
Found at i:63358 original size:13 final size:13
Alignment explanation
Indices: 63340--63368 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
63330 ACCACCGTTA
63340 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
63353 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
63366 CGG
1 CGG
63369 AATACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:71386 original size:83 final size:83
Alignment explanation
Indices: 71244--71673 Score: 720
Period size: 83 Copynumber: 5.2 Consensus size: 83
71234 AATGGAACAA
*
71244 ATGAATTTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
71309 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
* *
71327 ATTAATTTGTTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
71392 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
*
71410 ATGAA-TTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACA
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
71474 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
* * *
71492 ATTAATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
71557 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* *
71575 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
*
71639 CAGTCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
71658 ATGAATTTGCTCATAG
1 ATGAATTTGTTCATAG
71674 TAGAAATAAG
Statistics
Matches: 324, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
82 82 0.25
83 242 0.75
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (83 bp):
ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:71526 original size:165 final size:166
Alignment explanation
Indices: 71244--71673 Score: 747
Period size: 165 Copynumber: 2.6 Consensus size: 166
71234 AATGGAACAA
*
71244 ATGAATTTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
* *
71309 AATCATTGAATTTGGAAGATTAATTTGTTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTG
66 AATCATTGAATTTGGAAGATTAATTTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
71374 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
131 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
*
71410 ATGAA-TTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACA
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
71474 AATCATTGAATTTGGAAGATTAATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
66 AATCATTGAATTTGGAAGATTAATTTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
71539 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
131 ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
* *
71575 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
* * *
71639 CAGTCATTGAATTTGGAAGATGAATTTGCTCATAG
65 CAATCATTGAATTTGGAAGATTAATTTGATCATAG
71674 TAGAAATAAG
Statistics
Matches: 250, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
165 164 0.66
166 86 0.34
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (166 bp):
ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAGATTAATTTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAG
Found at i:73907 original size:22 final size:22
Alignment explanation
Indices: 73881--73932 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
73871 TACACTCTTC
*
73881 AAAGATGATAGATTCTCTTTTT
1 AAAGATGACAGATTCTCTTTTT
73903 AAAGATGACAGATTCTCTTTTT
1 AAAGATGACAGATTCTCTTTTT
73925 AAAGATGA
1 AAAGATGA
73933 AAGCTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
AAAGATGACAGATTCTCTTTTT
Found at i:74850 original size:76 final size:76
Alignment explanation
Indices: 74602--75719 Score: 2104
Period size: 76 Copynumber: 14.8 Consensus size: 76
74592 CTATTTCCCA
74602 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74666 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
74677 CATCTGTAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
74742 AAGCCTTCGGGT
65 AAGCCTTCGGGT
74754 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74819 AGCCTTCGGGT
66 AGCCTTCGGGT
74830 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
74895 AGCCTTCGGGT
66 AGCCTTCGGGT
*
74906 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
74971 AGCCTTAGGGT
66 AGCCTTCGGGT
74982 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75046 AGCCTTCGGGT
66 AGCCTTCGGGT
*
75057 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75122 AGCCTTCGGGT
66 AGCCTTCGGGT
75133 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75198 AGCCTTCGGGT
66 AGCCTTCGGGT
75209 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75274 AGCCTTCGGGT
66 AGCCTTCGGGT
75285 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75349 AGCCTTCGGGT
66 AGCCTTCGGGT
*
75360 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTTGATGTTTTCA
75425 AAGCCTTCGGGT
65 AAGCCTTCGGGT
75437 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75500 AGCCTTCGGGT
66 AGCCTTCGGGT
*
75511 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75576 AGCCTTCGGGT
66 AGCCTTCGGGT
75587 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
75652 AG-CTTCGGGT
66 AGCCTTCGGGT
75662 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
75720 CCTGGGTCTC
Statistics
Matches: 1021, Mismatches: 14, Indels: 15
0.97 0.01 0.01
Matches are distributed among these distances:
74 49 0.05
75 253 0.25
76 606 0.59
77 113 0.11
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:75150 original size:303 final size:304
Alignment explanation
Indices: 74602--75719 Score: 2104
Period size: 303 Copynumber: 3.7 Consensus size: 304
74592 CTATTTCCCA
*
74602 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
* *
74666 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCATTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTT
*
74731 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATT
74796 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
74861 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
260 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
74906 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
*
74971 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
75036 GATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTC
75100 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
75165 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
261 AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
75209 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
75274 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
75339 GATG-TTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTC
75403 GGGAGCTTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
196 GGGAGC-TTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
75468 C-AAAAGCCTTCGGGAGCTTTTTGATG-TTTCAAAGCCTTCGGGT
260 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
75511 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
75576 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
75641 GATGTTTTCAAAG-CTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCCAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCATT
75705 CGGGAGCTTTTTGAT
195 CGGGAGCTTTTTGAT
75720 CCTGGGTCTC
Statistics
Matches: 801, Mismatches: 9, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
302 193 0.24
303 420 0.52
304 125 0.16
305 63 0.08
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (304 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCATTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC
AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:75861 original size:3 final size:3
Alignment explanation
Indices: 75855--75962 Score: 153
Period size: 3 Copynumber: 35.0 Consensus size: 3
75845 TTCATTTAAA
* * *
75855 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT ATT ATA ATT ATA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
75903 ATTT ATT ATT ATT ATT ATT ATT ATT AAT ATT ATAT ATT ATT ATT ATAT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT AT-T
75951 ATT ATT ATT ATT
1 ATT ATT ATT ATT
75963 TAATAAATAA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
3 85 0.90
4 9 0.10
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:76416 original size:16 final size:14
Alignment explanation
Indices: 76377--76407 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76367 CAGACGGCAG
76377 AGAACGAAAAAAAC
1 AGAACGAAAAAAAC
76391 AGAACGAAAAAAAC
1 AGAACGAAAAAAAC
76405 AGA
1 AGA
76408 GGAGGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.71, C:0.13, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAACGAAAAAAAC
Found at i:77305 original size:53 final size:53
Alignment explanation
Indices: 77245--77345 Score: 123
Period size: 53 Copynumber: 1.9 Consensus size: 53
77235 GATGATTCAG
* * * *
77245 GTTATGTTCATAATTTTACATTTATTATTTT-ATTTATTTTTAATCATTGTTTA
1 GTTATGTT-ATAACTTAACATTTATTATTTTAATATATTTTCAATCATTGTTTA
* **
77298 GTTATGTTTTAACTTAATTTTTATTATTTTAATATATTTTCAATCATT
1 GTTATGTTATAACTTAACATTTATTATTTTAATATATTTTCAATCATT
77346 ACTTTAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
52 17 0.43
53 23 0.57
ACGTcount: A:0.28, C:0.06, G:0.05, T:0.61
Consensus pattern (53 bp):
GTTATGTTATAACTTAACATTTATTATTTTAATATATTTTCAATCATTGTTTA
Found at i:77392 original size:35 final size:35
Alignment explanation
Indices: 77317--77392 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 35
77307 TAACTTAATT
* * *
77317 TTTATTATTTTAATATATTTTCAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACATTA
* * *
77352 ATTATTGTTTTACTATATTATAAAT-ATATACATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACATTA
77387 TTTATT
1 TTTATT
77393 TAACAATGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACATTA
Found at i:88685 original size:2 final size:2
Alignment explanation
Indices: 88678--88708 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88668 ATCTCATCCC
88678 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88709 GAAGATCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90457 original size:16 final size:16
Alignment explanation
Indices: 90436--90469 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90426 TTACTATTCA
*
90436 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
90452 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
90468 CG
1 CG
90470 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:91240 original size:15 final size:16
Alignment explanation
Indices: 91220--91251 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
91210 TGGCAGATCC
91220 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
91235 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
91251 A
1 A
91252 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:96518 original size:37 final size:36
Alignment explanation
Indices: 96444--96833 Score: 243
Period size: 37 Copynumber: 10.4 Consensus size: 36
96434 ATACATTTAT
* *
96444 ATATATAG-TTTACAAATGATTTTTGAAAATATGTATATG
1 ATATATAGTTTTA-AAA-CATTTTTGAAAATA--TATATA
*
96483 ATATATAGTTTTAAAACATTTTTTGAAACTATATATA
1 ATATATAGTTTTAAAACA-TTTTTGAAAATATATATA
* *
96520 TTATATAGTTTTTAAAACATTTTCGAAAAT-TATATA
1 ATATATAG-TTTTAAAACATTTTTGAAAATATATATA
*
96556 ATATATAGTTTTTAAAACATTTTT-AAAAAATTATATA
1 ATATATAG-TTTTAAAACATTTTTGAAAATA-TATATA
* *
96593 TTATATAATTTTTAAAAACATTTTT-AAAATATATATA
1 ATATAT-AGTTTT-AAAACATTTTTGAAAATATATATA
*
96630 ATATATAGTTTTTTAAATCA-TTTTGAAAACT-TATATA
1 ATATATAG--TTTTAAAACATTTTTGAAAA-TATATATA
* * *
96667 ATATATTA-TTTTGGAAAAAATATTTTTGAAAACAATTGTATA
1 ATATA-TAGTTTT----AAAACATTTTTGAAAA-TA-TATATA
* *
96709 TTATATAGTTTTTCAAAAACATGTTTG-AAA-ATATAT-
1 ATATATAG-TTTT--AAAACATTTTTGAAAATATATATA
*
96745 ATA-A-A--TTTAAAATATTTTTTTGAAAATATATTATA
1 ATATATAGTTTTAAAACA--TTTTTGAAAATATA-TATA
* *
96780 TTATATGGTTTTGAAAACCATTTTT-AAAATCATATATA
1 ATATATAGTTTT-AAAA-CATTTTTGAAAAT-ATATATA
* *
96818 AAATATAATTTTAAAA
1 ATATATAGTTTTAAAA
96834 AATATATTTT
Statistics
Matches: 283, Mismatches: 34, Indels: 70
0.73 0.09 0.18
Matches are distributed among these distances:
29 5 0.02
31 8 0.03
32 3 0.01
33 3 0.01
34 4 0.01
35 11 0.04
36 36 0.13
37 75 0.27
38 53 0.19
39 37 0.13
40 21 0.07
41 14 0.05
42 9 0.03
43 4 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATAGTTTTAAAACATTTTTGAAAATATATATA
Found at i:96763 original size:70 final size:69
Alignment explanation
Indices: 96683--96819 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 69
96673 TATTTTGGAA
*
96683 AAAATA-TTTTTGAAAACAAT-TGTATATTATATAGTTTTTCAAAAACATGTTTGAAAAT-ATAT
1 AAAATATTTTTTGAAAA-AATAT-TATATTATAT-GGTTTTCAAAAACAT-TTTGAAAATCATAT
96745 ATAAATTT
62 ATAAATTT
* * * *
96753 AAAATATTTTTTTGAAAATATATTATATTATATGGTTTTGAAAACCATTTTTAAAATCATATATA
1 AAAATA-TTTTTTGAAAAAATATTATATTATATGGTTTTCAAAAACATTTTGAAAATCATATATA
96818 AA
65 AA
96820 ATATAATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
69 8 0.14
70 27 0.47
71 12 0.21
72 11 0.19
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (69 bp):
AAAATATTTTTTGAAAAAATATTATATTATATGGTTTTCAAAAACATTTTGAAAATCATATATAA
ATTT
Found at i:96890 original size:23 final size:23
Alignment explanation
Indices: 96849--96893 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
96839 ATTTTTATAT
*
96849 ATATTTTTTATTTCTTTTATTTG
1 ATATTTTTTATTTCATTTATTTG
96872 ATATTTATTTATTT-ATTTATTT
1 ATATTT-TTTATTTCATTTATTT
96894 CGTTTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
ATATTTTTTATTTCATTTATTTG
Found at i:100675 original size:21 final size:22
Alignment explanation
Indices: 100651--100702 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
100641 TGATATAAGG
*
100651 ATAAAATAATTTAAAATTTA-A
1 ATAAAATAAATTAAAATTTATA
* *
100672 AT-AATTAAATTGAAATTTATA
1 ATAAAATAAATTAAAATTTATA
100693 ATTAAAATAA
1 A-TAAAATAA
100703 GAATACGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.58
21 4 0.17
22 1 0.04
23 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
ATAAAATAAATTAAAATTTATA
Found at i:107831 original size:21 final size:21
Alignment explanation
Indices: 107805--107865 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
107795 CCCCCTTTGA
* *
107805 AGGGGAACCGATTCCCCCCAC
1 AGGGGAATCGATACCCCCCAC
107826 AGGGGAATCGATACCCCCCAC
1 AGGGGAATCGATACCCCCCAC
107847 AGGGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
107866 TGGGGTTATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.26, C:0.39, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAATCGATACCCCCCAC
Found at i:111562 original size:59 final size:60
Alignment explanation
Indices: 111450--111608 Score: 158
Period size: 59 Copynumber: 2.7 Consensus size: 60
111440 CATATGTTCC
* * * * *
111450 CAAACTATGATACTCATTCTAAATTAATCCTTAAACTTTTTAATATTATAATTTTACCCT
1 CAAACTATGATACTCACTCTAAATTAATCCTTAAACTTTTGAACATTACAATTTAACCCT
* * * * **
111510 CAAACTATGATAGTCACTCT-AATTAGTCCTTAAACTTTTGAGCATTCCAATTTAATTCT
1 CAAACTATGATACTCACTCTAAATTAATCCTTAAACTTTTGAACATTACAATTTAACCCT
** * * * *
111569 CAAACTATGACCCTTATTCTAAATTAGTCCCTAAACTTTT
1 CAAACTATGATACTCACTCTAAATTAATCCTTAAACTTTT
111609 AAACCTTCCA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
59 45 0.56
60 36 0.44
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (60 bp):
CAAACTATGATACTCACTCTAAATTAATCCTTAAACTTTTGAACATTACAATTTAACCCT
Found at i:112128 original size:6 final size:6
Alignment explanation
Indices: 112112--112141 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
112102 AATGTTTCAT
112112 ATTTT- ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
112142 GATAATTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:116091 original size:19 final size:19
Alignment explanation
Indices: 116067--116105 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
116057 ATTACTCGAT
116067 TTGTGCCAATTAATAAATA
1 TTGTGCCAATTAATAAATA
116086 TTGTGCCAATTAATAAATA
1 TTGTGCCAATTAATAAATA
116105 T
1 T
116106 ATAGAGGATC
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:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (19 bp):
TTGTGCCAATTAATAAATA
Found at i:117134 original size:20 final size:20
Alignment explanation
Indices: 117074--117134 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
117064 TAGAATTAGG
* *
117074 GTTTATGGTTCATAGATTATAT
1 GTTTATGATTTATA-ATT-TAT
* ***
117096 GGTTATGATTTAGGGTTTAT
1 GTTTATGATTTATAATTTAT
117116 GTTTATGATTTATAATTTA
1 GTTTATGATTTATAATTTA
117135 GGGTTTTAAG
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
20 18 0.62
21 2 0.07
22 9 0.31
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (20 bp):
GTTTATGATTTATAATTTAT
Found at i:128661 original size:3 final size:3
Alignment explanation
Indices: 128653--128724 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
128643 AGGTGGACTG
128653 ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
128700 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
128725 GGGTAAACTA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:129154 original size:48 final size:48
Alignment explanation
Indices: 129062--129158 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
129052 CTACCGGTCG
* * *
129062 CCTCCTGTTGTCTTGGTCTGTTGCTGAACCACTTGGCGGCTGCTGCTT
1 CCTCCTGTTGTCTTGGTCTATTGCTGAACCACTTGGAGACTGCTGCTT
* *
129110 CCTCCTGTTGTCTTGGTCTATTGCTGAACTACTTGGAGATTGCTGCTT
1 CCTCCTGTTGTCTTGGTCTATTGCTGAACCACTTGGAGACTGCTGCTT
129158 C
1 C
129159 TTGGCCTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.09, C:0.27, G:0.25, T:0.39
Consensus pattern (48 bp):
CCTCCTGTTGTCTTGGTCTATTGCTGAACCACTTGGAGACTGCTGCTT
Found at i:130321 original size:3 final size:3
Alignment explanation
Indices: 130313--130371 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
130303 TTAGGAGAGG
130313 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
130361 AGA AGA AGA AG
1 AGA AGA AGA AG
130372 GGTCAACGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:134745 original size:2 final size:2
Alignment explanation
Indices: 134738--134768 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
134728 ATTATTCTTT
134738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
134769 TAATTTGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:135882 original size:18 final size:15
Alignment explanation
Indices: 135860--135909 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 15
135850 TCACGGAATG
135860 TAAGATTACCTGGGAA
1 TAAGATTA-CTGGGAA
*
135876 TAAAAGATTATTAGGGAA
1 T--AAGATTACT-GGGAA
135894 TAAGATTACTGGGAA
1 TAAGATTACTGGGAA
135909 T
1 T
135910 GTTGTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 1 0.03
18 13 0.45
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (15 bp):
TAAGATTACTGGGAA
Found at i:137790 original size:18 final size:18
Alignment explanation
Indices: 137767--137802 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
137757 CAATTTTTTT
137767 TATAAAAATTAAGAAAAA
1 TATAAAAATTAAGAAAAA
*
137785 TATAAATATTAAGAAAAA
1 TATAAAAATTAAGAAAAA
137803 GGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
TATAAAAATTAAGAAAAA
Found at i:149535 original size:17 final size:18
Alignment explanation
Indices: 149503--149540 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
149493 AGATCAATCT
149503 TTTAGTTATCAATTAATAC
1 TTTAGTTA-CAATTAATAC
149522 TTTAGTTA-AATTAATAC
1 TTTAGTTACAATTAATAC
149539 TT
1 TT
149541 GAATGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTAGTTACAATTAATAC
Found at i:154357 original size:2 final size:2
Alignment explanation
Indices: 154352--154383 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
154342 TCAAACCATA
154352 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
154384 TAATAACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158504 original size:20 final size:19
Alignment explanation
Indices: 158465--158504 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
158455 AGTGATGCTG
**
158465 ATTTGACTTTTATATGAAT
1 ATTTGACTTTTATACCAAT
158484 ATTTGACTTTATATACCAAT
1 ATTTGACTTT-TATACCAAT
158504 A
1 A
158505 AACATATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTTGACTTTTATACCAAT
Found at i:165987 original size:65 final size:64
Alignment explanation
Indices: 165884--166013 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 64
165874 TACTAAATAT
165884 GTGCATGAAATAAGTACATTCGTGGTAAAGAAAATGTTGTTATTCCTTGAGGACCAAGGTTCGA
1 GTGCATGAAATAAGTACATTCGTGGTAAAGAAAATGTTGTTATTCCTTGAGGACCAAGGTTCGA
*
165948 GTGCATGAAATAAGTAACCTTCGTGGTAAAGAAAATGTTGTTATTCCTTGAGGACCAAGGTTCGA
1 GTGCATGAAATAAGT-ACATTCGTGGTAAAGAAAATGTTGTTATTCCTTGAGGACCAAGGTTCGA
166013 G
1 G
166014 CACCATAGAT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 15 0.23
65 49 0.77
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (64 bp):
GTGCATGAAATAAGTACATTCGTGGTAAAGAAAATGTTGTTATTCCTTGAGGACCAAGGTTCGA
Found at i:167010 original size:2 final size:2
Alignment explanation
Indices: 167003--167073 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
166993 CATCATCATC
167003 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
167045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
167074 GAGAGAGAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:167078 original size:2 final size:2
Alignment explanation
Indices: 167073--167103 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
167063 ATATATATAT
167073 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
167104 ATTAAAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:169088 original size:4 final size:4
Alignment explanation
Indices: 169081--169110 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
169071 GTGAGAGAGA
169081 ACAT ACAT ACAT ACAT ACAT AACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT -ACAT ACAT A
169111 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:169115 original size:2 final size:2
Alignment explanation
Indices: 169108--169136 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
169098 CATAACATAC
169108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
169137 ACAGACAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:176029 original size:18 final size:19
Alignment explanation
Indices: 175994--176030 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
175984 CACGGAATGT
175994 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
176014 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
176031 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:177312 original size:20 final size:22
Alignment explanation
Indices: 177273--177312 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
177263 TTTTCATATT
*
177273 TGACTAAATAGTGGAATTTTAG
1 TGACTAAATAGTGCAATTTTAG
177295 TGACTAAA-A-TGCAATTTT
1 TGACTAAATAGTGCAATTTT
177313 TAAAAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 1 0.06
22 8 0.47
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (22 bp):
TGACTAAATAGTGCAATTTTAG
Found at i:180448 original size:29 final size:29
Alignment explanation
Indices: 180406--180462 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
180396 AGTGTTGGGC
180406 GTAGGTCGCCATGC-CTTCCGAGCGACCTT
1 GTAGGTCGCCATGCAC-TCCGAGCGACCTT
*
180435 GTAGGTCGCCATGCACTCCGGGCGACCT
1 GTAGGTCGCCATGCACTCCGAGCGACCT
180463 ACCCTTGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.14, C:0.35, G:0.30, T:0.21
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCGAGCGACCTT
Found at i:180761 original size:29 final size:29
Alignment explanation
Indices: 180724--180781 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
180714 GCAATCTCTT
*
180724 GTAGCTCGC-CGGGAAGACATGGTGACCTA
1 GTAGCTCGCTC-GGAAGACATGGCGACCTA
* *
180753 GTAGGTCGCTCGGAAGGCATGGCGACCTA
1 GTAGCTCGCTCGGAAGACATGGCGACCTA
180782 CGACCAACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.17
Consensus pattern (29 bp):
GTAGCTCGCTCGGAAGACATGGCGACCTA
Found at i:182082 original size:53 final size:53
Alignment explanation
Indices: 182024--182138 Score: 131
Period size: 53 Copynumber: 2.2 Consensus size: 53
182014 AGTATAAATA
** * *
182024 AAATTTCAAGATGGACATTGTCCGTAAAATAAGTAACTAATCGAAGAAAACTT
1 AAATTTCAAGATGGACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
* * * * * *
182077 AAATTTTAAGATGGATATCATCAGTAAAGTAAATTACTAATTGAAGAAAATTT
1 AAATTTCAAGATGGACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
*
182130 GAATTTCAA
1 AAATTTCAA
182139 TATAAACACG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (53 bp):
AAATTTCAAGATGGACATCATCAGTAAAATAAATAACTAATCGAAGAAAACTT
Found at i:187741 original size:23 final size:24
Alignment explanation
Indices: 187715--187763 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
187705 ATTGTTCGCA
187715 AACATATTCGCTTA-ATGTTTATG
1 AACATATTCGCTTATATGTTTATG
* * *
187738 AACATGTTCGTTTATATGTTTTTG
1 AACATATTCGCTTATATGTTTATG
187762 AA
1 AA
187764 TAAGTCCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (24 bp):
AACATATTCGCTTATATGTTTATG
Found at i:195614 original size:36 final size:36
Alignment explanation
Indices: 195566--195648 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
195556 TGTCTCTTCA
*
195566 TGATGATGGTGGTGCTCAGCCT-TGGAGTGCTCCTCAG
1 TGATGATGGTGGTGCTC-GCCTGTGGAGTGCCCCTC-G
* *
195603 -GATGATGGTGGTGTTCTCCTGTGGAGTGCCCCTCG
1 TGATGATGGTGGTGCTCGCCTGTGGAGTGCCCCTCG
195638 TGATGATGGTG
1 TGATGATGGTG
195649 TGCGGTAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.12, C:0.19, G:0.37, T:0.31
Consensus pattern (36 bp):
TGATGATGGTGGTGCTCGCCTGTGGAGTGCCCCTCG
Found at i:195693 original size:6 final size:6
Alignment explanation
Indices: 195686--195744 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
195676 ATCACTATGG
* * * *
195686 CCATGG CCATGG CCATGA TCATGA CCATGA CCATGA TCATGA CCATGA
1 CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA CCATGA
195734 CCATGA CCATG
1 CCATGA CCATG
195745 TCCCAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (6 bp):
CCATGA
Found at i:197446 original size:2 final size:2
Alignment explanation
Indices: 197337--197433 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
197327 AGGGAGCTGT
197337 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
197379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
197421 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
197434 CTGTGTGTAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:198311 original size:22 final size:21
Alignment explanation
Indices: 198270--198311 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
198260 CATAAATTGA
*
198270 ATTTGAAGTTTAAGGTTTATG
1 ATTTGAAGTTTAAGGGTTATG
198291 ATTTAGAAG-TTATAGGGTTAT
1 ATTT-GAAGTTTA-AGGGTTAT
198312 ATCTTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (21 bp):
ATTTGAAGTTTAAGGGTTATG
Found at i:198635 original size:21 final size:21
Alignment explanation
Indices: 198599--198653 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
198589 ATAATTAGAA
*
198599 TAAATTA-TATTTTTAGTATC
1 TAAATTATTAATTTTAGTATC
* *
198619 TAAATTATTAGTTTTAGTATT
1 TAAATTATTAATTTTAGTATC
198640 TAAATT-TTAATTTT
1 TAAATTATTAATTTT
198654 TTTTAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TAAATTATTAATTTTAGTATC
Found at i:200950 original size:36 final size:37
Alignment explanation
Indices: 200917--200985 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 37
200907 TACAAATTGT
200917 AAAATATTTATAT-ATTTTCTTTA-AAAATTAAATTC
1 AAAATATTTATATAATTTTCTTTACAAAATTAAATTC
* *
200952 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTCTTTACAAAATTAAA
200986 AATATAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 12 0.40
36 9 0.30
37 9 0.30
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (37 bp):
AAAATATTTATATAATTTTCTTTACAAAATTAAATTC
Found at i:201728 original size:17 final size:17
Alignment explanation
Indices: 201706--201740 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
201696 TTGACTAATT
201706 TAAATGGTATAGGAAAA
1 TAAATGGTATAGGAAAA
*
201723 TAAATGTTATAGGAAAA
1 TAAATGGTATAGGAAAA
201740 T
1 T
201741 GTCCAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (17 bp):
TAAATGGTATAGGAAAA
Found at i:201952 original size:2 final size:2
Alignment explanation
Indices: 201945--201970 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
201935 TTTGCACTGA
201945 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
201971 TAAGTAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:202183 original size:15 final size:15
Alignment explanation
Indices: 202165--202193 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
202155 GTTAAATCCC
202165 CTTTTGTTTAAGTCT
1 CTTTTGTTTAAGTCT
202180 CTTTTGTTTAAGTC
1 CTTTTGTTTAAGTC
202194 CCTAACATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
CTTTTGTTTAAGTCT
Found at i:203231 original size:2 final size:2
Alignment explanation
Indices: 203185--203212 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
203175 GATCAAGATC
203185 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
203213 TATCCGACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:206184 original size:35 final size:35
Alignment explanation
Indices: 206138--206209 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
206128 CCCGAGATTA
*
206138 TAGCTGTTGATATCTGTGCGTAGCTTGTAATGGTT
1 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
206173 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
1 TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
206208 TA
1 TA
206210 CGATCATGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.43
Consensus pattern (35 bp):
TAGCTGTTGATATCTGTACGTAGCTTGTAATGGTT
Found at i:209451 original size:26 final size:26
Alignment explanation
Indices: 209422--209477 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
209412 ACTCACTATT
209422 TAACTGAATACTCACTACTCATCTCG
1 TAACTGAATACTCACTACTCATCTCG
209448 TAACTGAATACTCACTACTCATCTCG
1 TAACTGAATACTCACTACTCATCTCG
209474 TAAC
1 TAAC
209478 CACTTATATC
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:0.32, C:0.30, G:0.07, T:0.30
Consensus pattern (26 bp):
TAACTGAATACTCACTACTCATCTCG
Found at i:212654 original size:22 final size:21
Alignment explanation
Indices: 212627--212680 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
212617 ATATATTTAT
*
212627 AAAATATATATTTTATTAAATA
1 AAAATATATATTTAATTAAA-A
*
212649 AAAATA-AGAATTTAATTAAAA
1 AAAATATA-TATTTAATTAAAA
212670 AATAATATATA
1 AA-AATATATA
212681 AAAGAGTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.15
22 21 0.81
23 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATATATATTTAATTAAAA
Found at i:218135 original size:26 final size:26
Alignment explanation
Indices: 218085--218135 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
218075 ATACGTAATG
* *
218085 GGGTAAGGGGAGGTAGGGTAGTAGGC
1 GGGTAAGGGGAGGTAGGGCAATAGGC
218111 GGGTAAGGGGAGGTAGGGCAATAGG
1 GGGTAAGGGGAGGTAGGGCAATAGG
218136 TTGCCCCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.57, T:0.14
Consensus pattern (26 bp):
GGGTAAGGGGAGGTAGGGCAATAGGC
Found at i:220659 original size:125 final size:126
Alignment explanation
Indices: 220435--220667 Score: 450
Period size: 125 Copynumber: 1.9 Consensus size: 126
220425 TATAATAGTT
220435 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
1 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
*
220500 TGCACATGTGATATGATAAGTGATATGAGCTATGTGATCACAAGAGAAATGACATGAGCAC
66 TGCACATGTGATATGATAAGTGATATGAGATATGTGATCACAAGAGAAATGACATGAGCAC
220561 ATGAACATGCATACATGGTAATTATTATGATACATAGATAA-GTATATATGTGAATAGATTTAAA
1 ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
220625 TGCACATGTGATATGATAAGTGATATGAGATATGTGATCACAA
66 TGCACATGTGATATGATAAGTGATATGAGATATGTGATCACAA
220668 TATGAGCTAT
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
125 65 0.61
126 41 0.39
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (126 bp):
ATGAACATGCATACATGGTAATTATTATGATACATAGATAAGGTATATATGTGAATAGATTTAAA
TGCACATGTGATATGATAAGTGATATGAGATATGTGATCACAAGAGAAATGACATGAGCAC
Found at i:220672 original size:20 final size:20
Alignment explanation
Indices: 220647--220687 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
220637 ATGATAAGTG
220647 ATATGAGATATGTGATCACA
1 ATATGAGATATGTGATCACA
*
220667 ATATGAGCTATGTGATCACA
1 ATATGAGATATGTGATCACA
220687 A
1 A
220688 GAGAAATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
ATATGAGATATGTGATCACA
Found at i:221409 original size:21 final size:22
Alignment explanation
Indices: 221365--221409 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
221355 TACGGAAATA
*
221365 CTGTAGCAGGGGTATCGATACC
1 CTGTAGCAGGGGAATCGATACC
221387 CTGTAGCA-GGGAATC-AGTACC
1 CTGTAGCAGGGGAATCGA-TACC
221408 CT
1 CT
221410 TTTTGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 12 0.57
22 8 0.38
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATACC
Found at i:225315 original size:26 final size:27
Alignment explanation
Indices: 225286--225337 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
225276 TCGTGTTAGA
*
225286 CTGTTAAAG-AACATGCACGTGTATTG
1 CTGTTAAAGAAACATGCACATGTATTG
*
225312 CTGTTAAAGAAATATGCACATGTATT
1 CTGTTAAAGAAACATGCACATGTATT
225338 AAGCAGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (27 bp):
CTGTTAAAGAAACATGCACATGTATTG
Found at i:226978 original size:36 final size:36
Alignment explanation
Indices: 226931--227143 Score: 304
Period size: 36 Copynumber: 5.9 Consensus size: 36
226921 TGAATAAGAA
**
226931 GAACGAAAGGAAGCATCAACACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
*
226967 GAACGAAAGGAAGCATCGGCACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
227003 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * * * *
227039 GAATGGAAGGAAGCATCCGTACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
227075 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* *
227111 GAACGGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
227144 TTGTTCATCT
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
35 6 0.04
36 145 0.92
37 6 0.04
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:227049 original size:72 final size:72
Alignment explanation
Indices: 226926--227143 Score: 382
Period size: 72 Copynumber: 3.0 Consensus size: 72
226916 GAAGGTGAAT
** * *
226926 AAGAAGAACGAAAGGAAGCATCAACACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
226991 TCGATTC
66 TCGATTC
* *
226998 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAATGGAAGGAAGCATCCGTACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
227063 TCGATTC
66 TCGATTC
227070 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
227135 TCGATTC
66 TCGATTC
227142 AA
1 AA
227144 TTGTTCATCT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 138 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
TCGATTC
Found at i:227223 original size:26 final size:27
Alignment explanation
Indices: 227194--227244 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
227184 AATGTTAGAC
*
227194 TGTTAAAG-AACATGCACGTGTATTGT
1 TGTTAAAGAAACATGCACATGTATTGT
*
227220 TGTTAAAGAAATATGCACATGTATT
1 TGTTAAAGAAACATGCACATGTATT
227245 AAGCAGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (27 bp):
TGTTAAAGAAACATGCACATGTATTGT
Found at i:228263 original size:47 final size:46
Alignment explanation
Indices: 228184--228282 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 46
228174 AAATTACGCA
* *
228184 TTTAATACATAAACTATCAGTTATGGTATGTTTTAGTACTTAACACG
1 TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAA-ACG
** * * * *
228231 TTTAATATTTAAACTATCAGTTTTTGTTTGTTTTAATACCTAAACT
1 TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAAACG
228277 TTTAAT
1 TTTAAT
228283 TTTTTCAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 8 0.18
47 36 0.82
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (46 bp):
TTTAATACATAAACTATCAGTTATGGTATGTTTTAATACCTAAACG
Found at i:228962 original size:21 final size:21
Alignment explanation
Indices: 228932--228986 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
228922 GATTTACATA
*
228932 TTCGCATTGCGATACTCCAAG
1 TTCGCGTTGCGATACTCCAAG
* *
228953 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATACTCCAAG
228974 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
228987 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATACTCCAAG
Found at i:228998 original size:21 final size:21
Alignment explanation
Indices: 228931--228999 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
228921 CGATTTACAT
*
228931 ATTCGCATTGCGATACTCCAA
1 ATTCGCGTTGCGATACTCCAA
* * *
228952 GTTCGCGTTGCGATAGTCGAA
1 ATTCGCGTTGCGATACTCCAA
* **
228973 GTTCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATACTCCAA
228994 ATTCGC
1 ATTCGC
229000 AACGCGAACT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
ATTCGCGTTGCGATACTCCAA
Found at i:229494 original size:42 final size:42
Alignment explanation
Indices: 228996--229483 Score: 872
Period size: 42 Copynumber: 11.7 Consensus size: 42
228986 TTTTCCAAAT
228996 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
229038 TCGCAACGTGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
229080 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
229122 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
229164 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
229206 TCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* * *
229248 TCGCAACGCGAACTTGGACTATCGCAATGAATTGGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
*
229290 TCGCAACGCAAACTTCGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* *
229332 TCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
* *
229374 TCGCAATGCGAACTTGGACTATCGCAACGAATTTGGAATAAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
229416 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-AAA
1 TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
229456 TCGCAACGCGAACTTCGACTATCGCAAC
1 TCGCAACGCGAACTTCGACTATCGCAAC
229484 ACGAACTTGG
Statistics
Matches: 428, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
40 31 0.07
41 1 0.00
42 396 0.93
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
TCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAAA
Found at i:230068 original size:133 final size:135
Alignment explanation
Indices: 229839--230103 Score: 500
Period size: 133 Copynumber: 2.0 Consensus size: 135
229829 TCCAATTCCG
229839 CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTGGAATCCCTCATGGATTCAACTTTCC
1 CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTGGAATCCCTCATGGATTCAACTTTCC
229904 ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
66 ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
229969 TTCTA
131 TTCTA
229974 CCAC-TTTCTCATGTTTGGTTCAAGTTTTCCAAGGGAATT-GAATCCCTCATGGATTCAAC-TTC
1 CCACTTTTC-CATGTTTGGTTCAAGTTTTCCAAGGGAATTGGAATCCCTCATGGATTCAACTTTC
230036 CATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGA
65 CATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGA
230101 ATT
130 ATT
230104 GAAATTTAAC
Statistics
Matches: 129, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
133 71 0.55
134 24 0.19
135 34 0.26
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (135 bp):
CCACTTTTCCATGTTTGGTTCAAGTTTTCCAAGGGAATTGGAATCCCTCATGGATTCAACTTTCC
ATCAAATGAGGGAAAGTGAATTTCATCCATTCTATGATGGAATTCAATTCCCTTATTGGACGGAA
TTCTA
Found at i:230630 original size:225 final size:228
Alignment explanation
Indices: 230234--230702 Score: 737
Period size: 225 Copynumber: 2.1 Consensus size: 228
230224 ACTTTATTTT
* * * *
230234 GGTCGGGTTGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTTCGGGTTTAGGGTGA
1 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
* *
230299 AAAATACTCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
66 AAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
* *
230364 CCCTCTATATATAAATTTTTTCAATTATGTCACTGTTTTTATTGAATAAAAATAAAATTTTATTA
131 CCCTCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAAAATTTTATTA
230429 TTTC-GG-GTCGGGTTTCTAATTCATATATTCG
196 TTTCGGGAGTCGGGTTTCTAATTCATATATTCG
*
230460 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGGGTCGAGTTCGGGTTTAGGGTGA
1 GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
230525 AAAATACCCGACCC-AAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
66 AAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
* * * * ***
230589 CCTTTTCTATATATATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATATTTTTTTATTA
131 CCCTCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAAAATTTTATTA
230654 TTTCGGGTCAAGTCGGGTTTCTAATTCATATATTCG
196 TTTCGGG---AGTCGGGTTTCTAATTCATATATTCG
*
230690 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
230703 GAAACTTTAT
Statistics
Matches: 221, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
225 109 0.49
226 75 0.34
230 37 0.17
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (228 bp):
GGTCGGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGAGTCGAGTCGAGTTCGGGTTTAGGGTGA
AAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATAC
CCCTCTATATATAAATTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAAAATTTTATTA
TTTCGGGAGTCGGGTTTCTAATTCATATATTCG
Found at i:232308 original size:18 final size:18
Alignment explanation
Indices: 232285--232322 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
232275 TTTTAAGATT
232285 TTATATTAGATTTAAATA
1 TTATATTAGATTTAAATA
* *
232303 TTATATTCGATTTAATTA
1 TTATATTAGATTTAAATA
232321 TT
1 TT
232323 CAAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (18 bp):
TTATATTAGATTTAAATA
Found at i:232833 original size:90 final size:90
Alignment explanation
Indices: 232734--232897 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 90
232724 ACGCTCTCAA
* * * * * *
232734 CAGTTTTTTGATGTGGAAAATACACTACAACGGCTCTATTGACTCCAATATAATTTCTAACGTTT
1 CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAACTCCAATATAATTTCCAAAGTTT
232799 AGAATTCATACCCCTACACTCCGAG
66 AGAATTCATACCCCTACACTCCGAG
* * * *
232824 CAGTTTTTTGAAGTGAAAAACACATTACAACGGCTCTATTAATTTCAATATGATTTCCAAAGTTT
1 CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAACTCCAATATAATTTCCAAAGTTT
232889 AGAATTCAT
66 AGAATTCAT
232898 CCAAAGAGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 64 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (90 bp):
CAGTTTTTTGAAGTGAAAAACACACTACAACGGCTCTATTAACTCCAATATAATTTCCAAAGTTT
AGAATTCATACCCCTACACTCCGAG
Found at i:236822 original size:3 final size:3
Alignment explanation
Indices: 236809--236840 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
236799 GATCGTTAAC
*
236809 TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
236841 ATTTGTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:250636 original size:15 final size:15
Alignment explanation
Indices: 250613--250646 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
250603 GTTTGAAACG
250613 TAAAATATTTTTAAA
1 TAAAATATTTTTAAA
* *
250628 TAAATTATTTTTAAT
1 TAAAATATTTTTAAA
250643 TAAA
1 TAAA
250647 GATTTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAAATATTTTTAAA
Found at i:254679 original size:24 final size:26
Alignment explanation
Indices: 254634--254692 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
254624 AATGATATTA
* *
254634 TTATATTTATTATATAAGTTAATA-T
1 TTATTTTTATTATATAACTTAATAGT
*
254659 TTATTTTTATTTTA-AACTTAATAGT
1 TTATTTTTATTATATAACTTAATAGT
254684 TT-TTTTTAT
1 TTATTTTTAT
254693 CAAATTATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (26 bp):
TTATTTTTATTATATAACTTAATAGT
Found at i:275344 original size:71 final size:72
Alignment explanation
Indices: 275202--275345 Score: 256
Period size: 71 Copynumber: 2.0 Consensus size: 72
275192 GATTTAGTCC
275202 TTTATTTTAATTTACTATGGTTGATCTTATTAATAAATCCAAAATATATCGTAAATAGTTTTATC
1 TTTATTTTAATTTACTATGGTTGATCTTATTAATAAATCCAAAATATATCGTAAATAGTTTTATC
275267 GTTAAAA
66 GTTAAAA
*
275274 TTTATTTTAATTTACTATGGTTGATC-T-TTAATAAATCCAAATTTATATCGTAAATAGTTTTAT
1 TTTATTTTAATTTACTATGGTTGATCTTATTAATAAATCCAAA-ATATATCGTAAATAGTTTTAT
275337 CGTTAAAA
65 CGTTAAAA
275345 T
1 T
275346 GCCGACATAG
Statistics
Matches: 70, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
70 14 0.20
71 30 0.43
72 26 0.37
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (72 bp):
TTTATTTTAATTTACTATGGTTGATCTTATTAATAAATCCAAAATATATCGTAAATAGTTTTATC
GTTAAAA
Found at i:276454 original size:13 final size:13
Alignment explanation
Indices: 276417--276465 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
276407 ACCAATTTAA
*
276417 TTAATCTATCATG
1 TTAATCTATCACG
* *
276430 TCATTC-ATCACG
1 TTAATCTATCACG
276442 TTAATCTATCACG
1 TTAATCTATCACG
*
276455 TTAAACTATCA
1 TTAATCTATCA
276466 TGTGAACTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (13 bp):
TTAATCTATCACG
Found at i:277958 original size:12 final size:12
Alignment explanation
Indices: 277943--277975 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
277933 TGTTCACATT
277943 ATCAATCACGTC
1 ATCAATCACGTC
277955 ATCAATCACGTC
1 ATCAATCACGTC
277967 ATCAATCAC
1 ATCAATCAC
277976 TGTAGATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.06, T:0.24
Consensus pattern (12 bp):
ATCAATCACGTC
Found at i:279133 original size:2 final size:2
Alignment explanation
Indices: 279126--279151 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
279116 AATCGTGTAA
279126 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
279152 CTTGTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:279236 original size:16 final size:16
Alignment explanation
Indices: 279217--279251 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
279207 TGAAATACTC
*
279217 CATGTATGTATGAATG
1 CATGTAGGTATGAATG
*
279233 CATGTAGGTATGTATG
1 CATGTAGGTATGAATG
279249 CAT
1 CAT
279252 ATATATAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (16 bp):
CATGTAGGTATGAATG
Found at i:290355 original size:21 final size:20
Alignment explanation
Indices: 290325--290389 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 20
290315 CTCAACTCCC
*
290325 AAACTATAAATCATAAATCAT
1 AAACT-TAAATCTTAAATCAT
*
290346 AAACTCTAAATCTTAAATTAT
1 AAACT-TAAATCTTAAATCAT
290367 GAAACTTAAATCTTAAACTCAT
1 -AAACTTAAATCTTAAA-TCAT
290389 A
1 A
290390 TCCTAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 30 0.79
22 8 0.21
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (20 bp):
AAACTTAAATCTTAAATCAT
Found at i:290730 original size:22 final size:21
Alignment explanation
Indices: 290684--290735 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
290674 ATAATTATTT
290684 AAAAAATTAAATAAAAATACCA
1 AAAAAATTAAATAAAAATA-CA
* *
290706 AAAATATTTAATAAAAAATA-A
1 AAAAAATTAAAT-AAAAATACA
290727 AAAAAATTA
1 AAAAAATTA
290736 GGTTGAACCG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 10 0.40
23 7 0.28
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACA
Found at i:301706 original size:31 final size:31
Alignment explanation
Indices: 301667--301748 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
301657 TTGTTAAAAA
301667 TAAGTGTCTAACGTTTTTTCTATTATATTTT
1 TAAGTGTCTAACGTTTTTTCTATTATATTTT
* * *
301698 T-AGATGTCTTACGTTTTCTCTGTTATATTTT
1 TAAG-TGTCTAACGTTTTTTCTATTATATTTT
* *
301729 TAAGTATCTAATGTTTTTTC
1 TAAGTGTCTAACGTTTTTTC
301749 GTTACCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (31 bp):
TAAGTGTCTAACGTTTTTTCTATTATATTTT
Found at i:303682 original size:20 final size:21
Alignment explanation
Indices: 303653--303693 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
303643 TTGACGAGGA
303653 AATAAATATTTATG-GAATTT
1 AATAAATATTTATGAGAATTT
* *
303673 AATAAGTATTTGTGAGAATTT
1 AATAAATATTTATGAGAATTT
303694 TAAGTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
AATAAATATTTATGAGAATTT
Found at i:307051 original size:39 final size:39
Alignment explanation
Indices: 306997--307078 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
306987 TGTTGTATTG
306997 TATACAATCAAGGTAATACAAAACATGATAATATATATA
1 TATACAATCAAGGTAATACAAAACATGATAATATATATA
* *
307036 TATACAATCACGGTAATACAAAACATGATATTATATATA
1 TATACAATCAAGGTAATACAAAACATGATAATATATATA
307075 TATA
1 TATA
307079 TATACACACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (39 bp):
TATACAATCAAGGTAATACAAAACATGATAATATATATA
Found at i:308078 original size:39 final size:39
Alignment explanation
Indices: 308024--308102 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
308014 GATTAATGGT
* *
308024 CCAGCTTGATTAATGTCAACTAGTTCTTATATATAAGAA
1 CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
* *
308063 CCAGCATGATTAATGTCAAGTTCTTCTTATATATAAGAA
1 CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
308102 C
1 C
308103 TAGTGTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (39 bp):
CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
Found at i:320836 original size:35 final size:35
Alignment explanation
Indices: 320797--320909 Score: 126
Period size: 35 Copynumber: 3.3 Consensus size: 35
320787 CAAAACAATC
320797 TTCAATTTCATTCTAAACCATAAATTCCAAAATAA
1 TTCAATTTCATTCTAAACCATAAATTCCAAAATAA
*
320832 TTCAATGTCATTCTAAA-CACTAAATT-CAAAATAA
1 TTCAATTTCATTCTAAACCA-TAAATTCCAAAATAA
* * * *
320866 TTCAATTACACTT-TAAAACC-CAAATTCTAAAATAC
1 TTCAATTTCA-TTCT-AAACCATAAATTCCAAAATAA
320901 TTCAATTTC
1 TTCAATTTC
320910 TGTCTTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
34 24 0.36
35 41 0.62
36 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (35 bp):
TTCAATTTCATTCTAAACCATAAATTCCAAAATAA
Found at i:321997 original size:35 final size:33
Alignment explanation
Indices: 321949--322060 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 33
321939 ATTCCTCCTT
*
321949 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTT-GAATTTGGG-TTTAGAATG
*
321984 TAATTGAATTATTTTGTAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTG-AATTT-GGGTTTAGAATG
*
322019 AAATTGAATTACTTTGGAATTTGAGGTTTAGAATG
1 AAATTGAATTA-TTTTGAATTTG-GGTTTAGAATG
322054 AAATTGA
1 AAATTGA
322061 TGAATGTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
34 2 0.03
35 60 0.87
36 7 0.10
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.43
Consensus pattern (33 bp):
AAATTGAATTATTTTGAATTTGGGTTTAGAATG
Found at i:327250 original size:31 final size:31
Alignment explanation
Indices: 327212--327278 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
327202 ATCTATATTG
* *
327212 AAAGTATGATAAGTAAAATAAAAGAGAGATT
1 AAAGTATGATAAGTAAAATAAAAGAAAGAGT
* *
327243 AAAGTATGATGAGTAAAATAAGAGAAAGAGT
1 AAAGTATGATAAGTAAAATAAAAGAAAGAGT
327274 AAAGT
1 AAAGT
327279 TCAAGGAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.21
Consensus pattern (31 bp):
AAAGTATGATAAGTAAAATAAAAGAAAGAGT
Found at i:328302 original size:29 final size:29
Alignment explanation
Indices: 328266--328330 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
328256 AAATAAGAAA
*
328266 TTTA-TTCATTTCAGTTTGGTGCCTAAAG
1 TTTATTTCATTTCAGTTTGGTACCTAAAG
*
328294 TTTATTTCATTTCAGTTTGGTACCTAACG
1 TTTATTTCATTTCAGTTTGGTACCTAAAG
*
328323 TTTCTTTC
1 TTTATTTC
328331 CCCCTTTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTATTTCATTTCAGTTTGGTACCTAAAG
Found at i:333775 original size:50 final size:51
Alignment explanation
Indices: 333715--333821 Score: 207
Period size: 50 Copynumber: 2.1 Consensus size: 51
333705 AGTTGGTTCA
333715 AATTTCAACATTTATGGGAACAAGGTTAACACGGATCAACGGTTCGAAATC
1 AATTTCAACATTTATGGGAACAAGGTTAACACGGATCAACGGTTCGAAATC
333766 -ATTTCAACATTTATGGGAACAAGGTTAACACGGATCAACGGTTCGAAATC
1 AATTTCAACATTTATGGGAACAAGGTTAACACGGATCAACGGTTCGAAATC
333816 AATTTC
1 AATTTC
333822 TATCGTATTC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 50 0.91
51 5 0.09
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (51 bp):
AATTTCAACATTTATGGGAACAAGGTTAACACGGATCAACGGTTCGAAATC
Found at i:335131 original size:29 final size:29
Alignment explanation
Indices: 335099--335155 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
335089 TTATTTTCTA
* * *
335099 ACTTCGAAGGCTATATTGGATTTATTTTG
1 ACTTCGAAGGCTACATTAGATTAATTTTG
*
335128 ACTTCGAGGGCTACATTAGATTAATTTT
1 ACTTCGAAGGCTACATTAGATTAATTTT
335156 ATGAGTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.42
Consensus pattern (29 bp):
ACTTCGAAGGCTACATTAGATTAATTTTG
Found at i:343987 original size:208 final size:214
Alignment explanation
Indices: 343625--344046 Score: 793
Period size: 208 Copynumber: 2.0 Consensus size: 214
343615 TTAAATGAAT
343625 GTTGTTTGATTGGTTGCATTGAAATTGAATAGCTTATTAGAAGTGGGAAATCAATTATTGAATAC
1 GTTGTTTGATTGGTTGCATTGAAATTGAATAGCTTATTAGAAGTGGGAAATCAATTATTGAATAC
343690 CAACAGTTTCAATTTCAGTGAACTAGAAAATTTAGATATTCTTTTTTGGGTAAAGTATATAAGGG
66 CAACAGTTTCAATTTCAGTGAACTAGAAAATTTAGATATTCTTTTTTGGGTAAAGTATATAAGGG
343755 TTCTTGAACTATCCTCAAATGATGGTTCGAACACTGAACTTTTAAAAGCTACAAAATAATTA-TA
131 TTCTTGAACTATCCTCAAATGATGGTTCGAACACTGAACTTTTAAAAGCTACAAAATAATTATTA
343819 AATTA-TGAACTTTGCAAA
196 AATTATTGAACTTTGCAAA
343837 GTTGTTTGATTGGTTGCATTG-AA-TGAATAG-TTATTAGAAGTGGGAAATCAATTA-TGAATAC
1 GTTGTTTGATTGGTTGCATTGAAATTGAATAGCTTATTAGAAGTGGGAAATCAATTATTGAATAC
*
343898 CAACAGTTTCAATTTCAGTGAACTGGAAAATTTAGATATTCTTTTTTGGGTAAAGTATATAAGGG
66 CAACAGTTTCAATTTCAGTGAACTAGAAAATTTAGATATTCTTTTTTGGGTAAAGTATATAAGGG
343963 TTCTTGAACTATCCTCAAATGATGGTTCGAACACTGAACTTTTAAAAGCTACAAAATAATTATTA
131 TTCTTGAACTATCCTCAAATGATGGTTCGAACACTGAACTTTTAAAAGCTACAAAATAATTATTA
344028 AATTATTGAACTTTGCAAA
196 AATTATTGAACTTTGCAAA
344047 ATGCTCACTG
Statistics
Matches: 207, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
208 133 0.64
209 31 0.15
210 20 0.10
211 2 0.01
212 21 0.10
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (214 bp):
GTTGTTTGATTGGTTGCATTGAAATTGAATAGCTTATTAGAAGTGGGAAATCAATTATTGAATAC
CAACAGTTTCAATTTCAGTGAACTAGAAAATTTAGATATTCTTTTTTGGGTAAAGTATATAAGGG
TTCTTGAACTATCCTCAAATGATGGTTCGAACACTGAACTTTTAAAAGCTACAAAATAATTATTA
AATTATTGAACTTTGCAAA
Found at i:346616 original size:21 final size:21
Alignment explanation
Indices: 346590--346634 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
346580 GATTTTAAAA
346590 AAAACTAAAAATTTAAATACT
1 AAAACTAAAAATTTAAATACT
* * * *
346611 AAAACTGATAGTTTAAGTACT
1 AAAACTAAAAATTTAAATACT
346632 AAA
1 AAA
346635 CTTATACTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAACTAAAAATTTAAATACT
Found at i:355466 original size:114 final size:113
Alignment explanation
Indices: 355248--355473 Score: 420
Period size: 114 Copynumber: 2.0 Consensus size: 113
355238 TTCCCAGAAC
355248 TAGTAGAGCCCTAACTTTCATTTTTATTCACTCTCTCAACTTAGGTTCACAAAGATCGCTTAGTC
1 TAGTAGAGCCCTAACTTTCATTTTTATTCACTCTCTCAACTTAGGTTCACAAAGATCGCTTAGTC
355313 GCGAAGTAAACTGCAATTTATTTCTTTCTTAAATGTTTTTTTTTCTTTT
66 GCGAAGTAAACTGCAA-TTATTTCTTTCTTAAATGTTTTTTTTTCTTTT
355362 TAGTAGAGCCCTAACTTTCATTTTTATTCACTCTCTCAACTTAGGTTCACAAAGAATCGCTTAGT
1 TAGTAGAGCCCTAACTTTCATTTTTATTCACTCTCTCAACTTAGGTTCACAAAG-ATCGCTTAGT
355427 CGCGAAGTAAACTGCAA-T-TTTCTTTCTTAAATGTTTTTTTTTCTTTT
65 CGCGAAGTAAACTGCAATTATTTCTTTCTTAAATGTTTTTTTTTCTTTT
355474 CATTTTCTCA
Statistics
Matches: 111, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
112 29 0.26
113 1 0.01
114 54 0.49
115 27 0.24
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (113 bp):
TAGTAGAGCCCTAACTTTCATTTTTATTCACTCTCTCAACTTAGGTTCACAAAGATCGCTTAGTC
GCGAAGTAAACTGCAATTATTTCTTTCTTAAATGTTTTTTTTTCTTTT
Found at i:356700 original size:108 final size:108
Alignment explanation
Indices: 356502--356714 Score: 256
Period size: 108 Copynumber: 2.0 Consensus size: 108
356492 ACATTTAGTA
* * * * *
356502 CCTAAACTATCAGTATTAGTCTGTTTTAGTACTTAATTTTTGTTAAAATCATACATAATATTAAT
1 CCTAAACTATCAGTATGAGTCCGTTTTAATACCTAATTTTTGTTAAAACCATACATAATATTAAT
**
356567 TTTTGTTTCATTTTAGTACCATTGTTAAAA-TCTTAACACAGTT
66 TTTTCATTCATTTTAGTACCATTGTTAAAAGT-TTAACACAGTT
* *
356610 CCTAAACTATCAGTATCGA-TCCGTTTTAATACCTAATTTTT-TT-AAACCATACCTAATGTTTA
1 CCTAAACTATCAGTAT-GAGTCCGTTTTAATACCTAATTTTTGTTAAAACCATACATAAT-ATTA
*
356672 GTTTTTCATTCATTTTA-TACCACGTTGTTAAAAGTTTAACACA
64 ATTTTTCATTCATTTTAGTACCA--TTGTTAAAAGTTTAACACA
356715 ATACATAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
106 17 0.19
107 19 0.21
108 52 0.58
109 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (108 bp):
CCTAAACTATCAGTATGAGTCCGTTTTAATACCTAATTTTTGTTAAAACCATACATAATATTAAT
TTTTCATTCATTTTAGTACCATTGTTAAAAGTTTAACACAGTT
Found at i:364764 original size:156 final size:156
Alignment explanation
Indices: 364449--364767 Score: 446
Period size: 156 Copynumber: 2.0 Consensus size: 156
364439 CCCGGTCGGG
* * * *
364449 TCTGTTCTTGTTCCCCGACCAACTTCCCTTTCAGCTCAGGATGGACCGAGAAAGGGGCGGGCGGG
1 TCTGTTCTTGCTCCCCGACCAACTTCCCTTTCAGCTCAAGATAGACCGAGAAA---GAGGGCGGG
** * * *
364514 CTGAAATAGATGTTTTCTCTAAATTTTCAAATTAATTAATATCATATTTTAGATATACACCCCTA
63 AAGAAATAGACG--TTATCAAAATTTTCAAATTAATTAATATCATATTTTAGATATACACCCCTA
*
364579 GACTGAGAGGGGTGGGCAGAAATAGACGTCC
126 GACTGAGAGGGGTAGGCAGAAATAGACGTCC
*
364610 TCTGTTCTTGCTCCCCGACCAACTTCCCTTTCAGCTCAAGATAGACCGAGAAA-AGGGTGGGAAG
1 TCTGTTCTTGCTCCCCGACCAACTTCCCTTTCAGCTCAAGATAGACCGAGAAAGAGGGCGGGAAG
364674 AAATAGACG-TAT-AAAATTTTCAAATTAATTAATTATCATATACTTTAGATATACACCCCTAGA
66 AAATAGACGTTATCAAAATTTTCAAATTAATTAA-TATCATAT--TTTAGATATACACCCCTAGA
364737 CTGAGAGGGGTAGGCAGAAATAGACGTCC
128 CTGAGAGGGGTAGGCAGAAATAGACGTCC
364766 TC
1 TC
364768 CTCTTAGAAT
Statistics
Matches: 144, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
153 19 0.13
154 10 0.07
156 50 0.35
157 15 0.10
161 50 0.35
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (156 bp):
TCTGTTCTTGCTCCCCGACCAACTTCCCTTTCAGCTCAAGATAGACCGAGAAAGAGGGCGGGAAG
AAATAGACGTTATCAAAATTTTCAAATTAATTAATATCATATTTTAGATATACACCCCTAGACTG
AGAGGGGTAGGCAGAAATAGACGTCC
Found at i:367250 original size:37 final size:37
Alignment explanation
Indices: 367151--367269 Score: 156
Period size: 35 Copynumber: 3.3 Consensus size: 37
367141 TGGTAATCAA
* *
367151 CTTTGAAAAA-ATGGTTTTCAAAGCTTGATAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
367188 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
367223 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
367260 -GTTGAAAAAT
1 CTTTGAAAAAT
367270 GATAATGAGA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 28 0.38
36 18 0.24
37 28 0.38
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:371792 original size:21 final size:20
Alignment explanation
Indices: 371768--371832 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
371758 AACTTTGAAA
371768 AAATGGTTTCCAAAGTTTGGT
1 AAAT-GTTTCCAAAGTTTGGT
*
371789 AAATGTTT-C----TTT-GA
1 AAATGTTTCCAAAGTTTGGT
*
371803 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTCCAAAGTTTGGT
371824 AAATGTTTC
1 AAATGTTTC
371833 TTTGAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 15
0.65 0.06 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 11 0.32
21 9 0.26
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (20 bp):
AAATGTTTCCAAAGTTTGGT
Found at i:371859 original size:37 final size:36
Alignment explanation
Indices: 371760--371878 Score: 152
Period size: 35 Copynumber: 3.3 Consensus size: 36
371750 TGGTAACCAA
* *
371760 CTTTGAAAAAATGGTTTCCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
371797 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
* *
371832 CTTTGAAAAATAATTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-AGTTTTCAAAGTTTGGTAAATGTTT
*
371869 -GTTGAAAAAT
1 CTTTGAAAAAT
371879 GATAATGGGA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 34 0.45
36 14 0.19
37 27 0.36
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:376079 original size:22 final size:22
Alignment explanation
Indices: 376051--376094 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
376041 CAGGAAAATC
*
376051 TCCAAATAAGAATTTCTGAGTG
1 TCCAAATAAGAATTTCAGAGTG
376073 TCCAAATAAGAATTTCAGAGTG
1 TCCAAATAAGAATTTCAGAGTG
376095 ACCCACCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
TCCAAATAAGAATTTCAGAGTG
Done.