Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_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: 1697051
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:723666 original size:12 final size:12
Alignment explanation
Indices: 723510--723673 Score: 80
Period size: 12 Copynumber: 13.3 Consensus size: 12
723500 ACAGTAACCT
*
723510 AACCCAAACCCA
1 AACCCAAACCCG
* *
723522 AACTCGAACCCG
1 AACCCAAACCCG
*
723534 AACCCGAACCCG
1 AACCCAAACCCG
723546 AACCCAAACCCG
1 AACCCAAACCCG
* *
723558 AACCCGAACAC-
1 AACCCAAACCCG
* *
723569 AAACCAATACTCG
1 AACCCAA-ACCCG
* *
723582 AACCCGAACCCA
1 AACCCAAACCCG
* * *
723594 AACCTAAATCTG
1 AACCCAAACCCG
* * *
723606 AGA-CCATATCTG
1 A-ACCCAAACCCG
*
723618 AACCCAAACTCG
1 AACCCAAACCCG
*
723630 AACCCAAATCCAATCT
1 AACCCAAA-CC---CG
*
723646 AAACCAAACCCG
1 AACCCAAACCCG
*
723658 AACCCAAACCTG
1 AACCCAAACCCG
723670 AACC
1 AACC
723674 TAAAAAACCC
Statistics
Matches: 113, Mismatches: 31, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
11 6 0.05
12 90 0.80
13 7 0.06
15 2 0.02
16 8 0.07
ACGTcount: A:0.42, C:0.41, G:0.09, T:0.09
Consensus pattern (12 bp):
AACCCAAACCCG
Found at i:730112 original size:23 final size:24
Alignment explanation
Indices: 730084--730135 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
730074 ATTTTTTCTT
730084 TACATAAATTAAACTATA-TAATA
1 TACATAAATTAAACTATATTAATA
*
730107 TACATAAATTAAACTATATTAATT
1 TACATAAATTAAACTATATTAATA
730131 TACAT
1 TACAT
730136 TTAATCACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (24 bp):
TACATAAATTAAACTATATTAATA
Found at i:731365 original size:19 final size:21
Alignment explanation
Indices: 731341--731394 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 21
731331 TGCAAAAATG
731341 GTATCGATACCATAG-CA-TA
1 GTATCGATACCATAGACAGTA
731360 GTATCGATACCATAGTACAGTA
1 GTATCGATACCATAG-ACAGTA
*
731382 GTAGCGATACCAT
1 GTATCGATACCAT
731395 GGTATGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 15 0.48
21 2 0.06
22 14 0.45
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (21 bp):
GTATCGATACCATAGACAGTA
Found at i:731389 original size:22 final size:19
Alignment explanation
Indices: 731345--731394 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 19
731335 AAAATGGTAT
*
731345 CGATACCATAGCATAGTAT
1 CGATACCATAGCATAGTAG
731364 CGATACCATAGTACAGTAGTAG
1 CGATACCATAG--CA-TAGTAG
731386 CGATACCAT
1 CGATACCAT
731395 GGTATGGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.41
21 2 0.07
22 14 0.52
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (19 bp):
CGATACCATAGCATAGTAG
Found at i:731797 original size:54 final size:54
Alignment explanation
Indices: 731724--731956 Score: 351
Period size: 54 Copynumber: 4.3 Consensus size: 54
731714 GATTACCAAA
* * *
731724 TCGAAACTAAATGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
*
731778 TCGACACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
* *
731832 TC-AGCACTAAATGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGA-CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
* *
731886 TCGACACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCATT
1 TCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
* * *
731940 TTGGCACTATGTGTGCA
1 TCGACACTAAGTGTGCA
731957 AAACACAGAA
Statistics
Matches: 163, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 161 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (54 bp):
TCGACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
Found at i:731977 original size:54 final size:54
Alignment explanation
Indices: 731724--731992 Score: 315
Period size: 54 Copynumber: 5.0 Consensus size: 54
731714 GATTACCAAA
* * * * *
731724 TCGAAACTAAATGTACATTTCACGGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGACACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTT
** *
731778 TCGACACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGACACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTT
* *
731832 TC-AGCACTAAATGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTT
1 TCGA-CACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTT
* *
731886 TCGACACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATGAATAACCATT
1 TCGACACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTT
* * * *** * * ** *
731940 TTGGCACTATGTGTGCAAAACACAGAATTTATAATATGTTTATGAATGACCGT
1 TCGACACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGT
731993 ATAGGTACTA
Statistics
Matches: 189, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 187 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (54 bp):
TCGACACTAAGTGTGCATTTCACAGAATTCATCATATGTGGATGAATAACCGTT
Found at i:738169 original size:19 final size:19
Alignment explanation
Indices: 738145--738185 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
738135 TGTAAAAATG
*
738145 GTATCGATACCATAGCATA
1 GTATCGACACCATAGCATA
* *
738164 GTATCGGCACCATAGTATA
1 GTATCGACACCATAGCATA
738183 GTA
1 GTA
738186 GTATCGATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (19 bp):
GTATCGACACCATAGCATA
Found at i:738197 original size:22 final size:22
Alignment explanation
Indices: 738145--738215 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
738135 TGTAAAAATG
*
738145 GTATCGATACCATAG--CA-TA
1 GTATCGATACCATAGTATAGTA
**
738164 GTATCGGCACCATAGTATAGTA
1 GTATCGATACCATAGTATAGTA
*
738186 GTATCGATACCATGGTAT-GT-
1 GTATCGATACCATAGTATAGTA
738206 GTATCGATAC
1 GTATCGATAC
738216 TGAGGAGCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 13 0.30
20 10 0.23
21 3 0.07
22 17 0.40
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:738586 original size:54 final size:54
Alignment explanation
Indices: 738532--738810 Score: 416
Period size: 54 Copynumber: 5.2 Consensus size: 54
738522 ACCAAATCGA
* * *
738532 CACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAATCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* *
738586 CACTAAGTGTGCATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* *
738640 CACTAAGTGTGTA-TTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * * *
738693 TACTAAGTGTGCATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
* * *
738747 CACTAAGTATGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
*
738801 CACTATGTGT
1 CACTAAGTGT
738811 TCTAAACACG
Statistics
Matches: 200, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 48 0.24
54 152 0.76
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGG
Found at i:738689 original size:107 final size:108
Alignment explanation
Indices: 738532--738797 Score: 426
Period size: 107 Copynumber: 2.5 Consensus size: 108
738522 ACCAAATCGA
* *
738532 CACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAATCGTTTCGACACTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTG
*
738597 CATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGG
66 CATTTCACAGAATTCATCCTATATGAATGAATAACCGTTTCGG
* * **
738640 CACTAAGTGTGTA-TTCACGAAATTCATCCTATGTGGATGAATAACCGTTTCGGTACTAAGTGTG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTG
* *
738704 CATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGG
66 CATTTCACAGAATTCATCCTATATGAATGAATAACCGTTTCGG
* *
738747 CACTAAGTATGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTT
1 CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTT
738798 TGGCACTATG
Statistics
Matches: 144, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
107 97 0.67
108 47 0.33
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (108 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGACACTAAGTGTG
CATTTCACAGAATTCATCCTATATGAATGAATAACCGTTTCGG
Found at i:738805 original size:161 final size:162
Alignment explanation
Indices: 738533--738828 Score: 468
Period size: 161 Copynumber: 1.8 Consensus size: 162
738523 CCAAATCGAC
* * * *
738533 ACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAATCGTTTCGACACTAAGTGTGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGACACTAAGTATGC
* **
738598 ATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGGCACTAAGTG-TGTATTCACGAAA
66 ATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGGCACTAAGTGTTCTAAACACGAAA
738662 TTCATCCTATGTGGATGAATAACCGTTTCGGT
131 TTCATCCTATGTGGATGAATAACCGTTTCGGT
*
738694 ACTAAGTGTGCATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGGCACTAAGTATGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGACACTAAGTATGC
* * * * *
738759 ATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTTGGCACTATGTGTTCTAAACACGAAA
66 ATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGGCACTAAGTGTTCTAAACACGAAA
738824 TTCAT
131 TTCAT
738829 AATAAGTTGA
Statistics
Matches: 121, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
161 106 0.88
162 15 0.12
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (162 bp):
ACTAAGTGTGCATTTCACGGAATTCATCCTATATGAATGAATAATCGTTTCGACACTAAGTATGC
ATTTCACAGAATTCATCCTATATGGATGAATAACCGTTTCGGCACTAAGTGTTCTAAACACGAAA
TTCATCCTATGTGGATGAATAACCGTTTCGGT
Found at i:739226 original size:23 final size:23
Alignment explanation
Indices: 739195--739250 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
739185 CATCTCTTTT
*
739195 TGTTCTTATATTTAAGTTAATGT-A
1 TGTT-TTATATTTAAGTGAAT-TAA
739219 TGTTTTAT-TTTAAGTGAATTAAA
1 TGTTTTATATTTAAGTGAATT-AA
739242 TGTTTTATA
1 TGTTTTATA
739251 AAACCAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 10 0.36
23 13 0.46
24 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.55
Consensus pattern (23 bp):
TGTTTTATATTTAAGTGAATTAA
Found at i:746450 original size:13 final size:13
Alignment explanation
Indices: 746432--746476 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
746422 AGGACTCTAA
746432 AAGTGAATAAAAT
1 AAGTGAATAAAAT
**
746445 AAGTGACA-AGCAT
1 AAGTGA-ATAAAAT
746458 AAGTGAATAAAAT
1 AAGTGAATAAAAT
746471 AAGTGA
1 AAGTGA
746477 CAAGCAGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.20, T:0.20
Consensus pattern (13 bp):
AAGTGAATAAAAT
Found at i:746468 original size:26 final size:26
Alignment explanation
Indices: 746432--746482 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
746422 AGGACTCTAA
746432 AAGTGAATAAAATAAGTGACAAGCAT
1 AAGTGAATAAAATAAGTGACAAGCAT
746458 AAGTGAATAAAATAAGTGACAAGCA
1 AAGTGAATAAAATAAGTGACAAGCA
746483 GACAGGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.20, T:0.18
Consensus pattern (26 bp):
AAGTGAATAAAATAAGTGACAAGCAT
Found at i:748572 original size:18 final size:16
Alignment explanation
Indices: 748534--748567 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
748524 AAATGTCTAT
*
748534 AATTTTTTTTAAGAAA
1 AATTGTTTTTAAGAAA
748550 AATTGTTTTTAAGAAA
1 AATTGTTTTTAAGAAA
748566 AA
1 AA
748568 AATTGGTACG
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:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
AATTGTTTTTAAGAAA
Found at i:750420 original size:21 final size:21
Alignment explanation
Indices: 750396--750445 Score: 50
Period size: 21 Copynumber: 2.3 Consensus size: 21
750386 ATTTTGTAAA
750396 TATTATGTATTT-TCAATAT-TT
1 TATTAT-TATTTGT-AATATATT
750417 TATTGATTATTTGTAATATAATT
1 TATT-ATTATTTGTAATAT-ATT
750440 TATTAT
1 TATTAT
750446 AGGATGATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
23 6 0.24
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (21 bp):
TATTATTATTTGTAATATATT
Found at i:753379 original size:2 final size:2
Alignment explanation
Indices: 753372--753401 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
753362 TGATGTATCA
753372 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
753402 CTGCTAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:756610 original size:25 final size:25
Alignment explanation
Indices: 756573--756637 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
756563 GGTCAATGGC
* * *
756573 TCGGTTCGACTCAGTTTGGCTCGGT
1 TCGGTTCGGCTCAGTTCGGCTCGAT
756598 TCGGTTCGGCTCAGTTCGGCTCGAT
1 TCGGTTCGGCTCAGTTCGGCTCGAT
*
756623 CCGGTTCGGCTCAGT
1 TCGGTTCGGCTCAGT
756638 CAGACTGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.08, C:0.28, G:0.32, T:0.32
Consensus pattern (25 bp):
TCGGTTCGGCTCAGTTCGGCTCGAT
Found at i:764357 original size:46 final size:46
Alignment explanation
Indices: 764304--764395 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
764294 GTTGGGATAG
764304 GTATAAAAGTTTACTTTGTAAATGTGTTAACCATGGATTCCATGAT
1 GTATAAAAGTTTACTTTGTAAATGTGTTAACCATGGATTCCATGAT
764350 GTATAAAAGTTTACTTTGTAAATGTGTTAACCATGGATTCCATGAT
1 GTATAAAAGTTTACTTTGTAAATGTGTTAACCATGGATTCCATGAT
764396 TGGACGCAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (46 bp):
GTATAAAAGTTTACTTTGTAAATGTGTTAACCATGGATTCCATGAT
Found at i:771643 original size:174 final size:169
Alignment explanation
Indices: 771359--771702 Score: 627
Period size: 174 Copynumber: 2.0 Consensus size: 169
771349 GCAGAATTTT
771359 ATTGCCTAGGCCAAAAATTATTGTTAAGACTTTCTAAAAGAACCAACCCTAGCCTTGATTCTTTG
1 ATTGCCTAGGCCAAAAATTATTGTTAAGACTTTCTAAAAGAACCAACCCTAGCCTTGATTCTTTG
771424 AATTATAAACATGATTGTAGGTTGTCTTTGCTCTAGGTAATTTGTAAAATTTTTAGAAAAGAACT
66 AATTATAAACATGATTGTAGGTTGTCTTTGCTCTAGGTAATTTGTAAAATTTTTAGAAAAGAACT
771489 TTCTAATTGTCGAGACTTC-AAAAAATATTCTAAGGGTA
131 TTCTAATTGTCGAGACTTCAAAAAAATATTCTAAGGGTA
771527 ATTGCCTAGGCCAAAAATTATTGTTAAGACTTTCTAAAGAAGAGAACCAACCCTAGCCTTGATTC
1 ATTGCCTAGGCCAAAAATTATTGTTAAGACTTTCT--A-AA-AGAACCAACCCTAGCCTTGATTC
771592 TTTGAAATTTATAAACATGATTGTAGGTTGTCTTTGCTCTAGGTAATTTGTAAAATTTTTAGAAA
62 TTTG-AA-TTATAAACATGATTGTAGGTTGTCTTTGCTCTAGGTAATTTGTAAAATTTTTAGAAA
771657 AGAACTTTCTAATTGTCGAGACTTCAAAAAAATATTCTAAGGGTA
125 AGAACTTTCTAATTGTCGAGACTTCAAAAAAATATTCTAAGGGTA
771702 A
1 A
771703 AGTAAAAACT
Statistics
Matches: 169, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
168 35 0.21
170 1 0.01
171 2 0.01
172 27 0.16
173 2 0.01
174 82 0.49
175 20 0.12
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (169 bp):
ATTGCCTAGGCCAAAAATTATTGTTAAGACTTTCTAAAAGAACCAACCCTAGCCTTGATTCTTTG
AATTATAAACATGATTGTAGGTTGTCTTTGCTCTAGGTAATTTGTAAAATTTTTAGAAAAGAACT
TTCTAATTGTCGAGACTTCAAAAAAATATTCTAAGGGTA
Found at i:776150 original size:25 final size:26
Alignment explanation
Indices: 776122--776170 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
776112 TCTAACGGGC
776122 AATTTTGAAAACTAT-TTTGAAAAGT
1 AATTTTGAAAACTATGTTTGAAAAGT
*
776147 AATTTTGAAAAGTATGTTTGAAAA
1 AATTTTGAAAACTATGTTTGAAAA
776171 ATTATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (26 bp):
AATTTTGAAAACTATGTTTGAAAAGT
Found at i:776153 original size:13 final size:12
Alignment explanation
Indices: 776123--776170 Score: 69
Period size: 13 Copynumber: 3.8 Consensus size: 12
776113 CTAACGGGCA
*
776123 ATTTTGAAAACT
1 ATTTTGAAAAGT
776135 ATTTTGAAAAGT
1 ATTTTGAAAAGT
776147 AATTTTGAAAAGT
1 -ATTTTGAAAAGT
776160 ATGTTTGAAAA
1 AT-TTTGAAAA
776171 ATTATAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 13 0.39
13 20 0.61
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (12 bp):
ATTTTGAAAAGT
Found at i:778756 original size:24 final size:22
Alignment explanation
Indices: 778722--778792 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
778712 TAGAGGGAAA
*
778722 AAAAT-AAATAAATGAAAAAAT
1 AAAATAAAATAAATAAAAAAAT
*
778743 GAAGAATAAAATAAGTAAAAAAAT
1 -AA-AATAAAATAAATAAAAAAAT
*
778767 AAAATAAAAGGAAA-AAAATAAAT
1 AAAATAAAA-TAAATAAAA-AAAT
778790 AAA
1 AAA
778793 TGAATATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
22 13 0.32
23 14 0.34
24 14 0.34
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAATAAAATAAATAAAAAAAT
Found at i:779142 original size:22 final size:23
Alignment explanation
Indices: 779094--779141 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
779084 ATATAATAAT
779094 AAATATAGTATTAAAAATAACCA
1 AAATATAGTATTAAAAATAACCA
779117 AAATATAGTATTAAAAATAACCA
1 AAATATAGTATTAAAAATAACCA
779140 AA
1 AA
779142 TGAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (23 bp):
AAATATAGTATTAAAAATAACCA
Found at i:779692 original size:37 final size:37
Alignment explanation
Indices: 779651--779755 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
779641 GTTCTTGTGG
* * *
779651 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
779688 ATCCTATTTTTTGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
779725 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
779756 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:780672 original size:106 final size:106
Alignment explanation
Indices: 780487--781759 Score: 2014
Period size: 106 Copynumber: 12.0 Consensus size: 106
780477 GCATTGTTCC
* * ** *
780487 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * * *
780551 ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780593 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
780658 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
780699 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
780764 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
780805 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAA-TGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
780869 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
780910 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
780975 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
781016 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
781081 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
781122 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
781187 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
781228 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
781293 CCAACGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * **
781334 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAGTTGTTTGCTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
781398 CCAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
781439 GAGTACAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
781504 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
781545 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
781610 CCAACGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
781651 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * *
781715 CCAGCTGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
781756 GAGT
1 GAGT
781760 GGCACGATAT
Statistics
Matches: 1080, Mismatches: 84, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
105 240 0.22
106 839 0.78
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:781107 original size:317 final size:318
Alignment explanation
Indices: 780487--781759 Score: 2142
Period size: 317 Copynumber: 4.0 Consensus size: 318
780477 GCATTGTTCC
* * * ** *
780487 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-ATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
* * * *
780551 ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTACGCTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGA
* *
780616 AGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
130 AGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAG
780681 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
195 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGA
780746 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
260 GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
780805 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAA-TGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
*
780869 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
* *
780934 GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGT
780999 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
781064 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
781122 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
781187 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
* *
781252 GTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAACGGTCCCTTCGTCCTGAAGT
131 GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGT
*
781317 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTGAG
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
* *
781381 AAGTTGTTTGCTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTG
261 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
781439 GAGTACAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * *
781504 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
* *
781569 GTTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGT
131 GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGT
* *
781634 TGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-G
196 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
* * * * * *
781698 AAAATTG-TTGTTGACAACCAGCTGTCTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
261 -AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
781756 GAGT
1 GAGT
781760 GGCACGATAT
Statistics
Matches: 912, Mismatches: 39, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
317 663 0.73
318 248 0.27
319 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (318 bp):
GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGT
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:781398 original size:423 final size:423
Alignment explanation
Indices: 780487--781759 Score: 2064
Period size: 423 Copynumber: 3.0 Consensus size: 423
780477 GCATTGTTCC
* * **
780487 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCT-GAATTGGGAAATTGTTTGTTGACAA
* * * * * *
780552 CCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTACGCTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* *
780617 GTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
780682 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAG
195 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
780747 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
260 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCA
* *
780812 ATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAA-TGGGAAATTGTTTATTGACAACCAGCGG
325 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
*
780876 TCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTT
390 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * *
780910 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTAGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTG-AATTGGGAAATTGTTTGTTGACAA
*
780975 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
* * *
781040 GTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
781105 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGG
195 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
781170 AAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
260 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCA
*
781235 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAACGG
325 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
* *
781300 TCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTG
390 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
* * * *
781334 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGAGAAGTTGTTTGCTGACAAC
1 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAATTGGGAAATTGTTTGTTGACAAC
* * *
781399 CAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTGGAGTACAATATCCTTCACTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
781464 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
781529 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGGGA
196 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
* *
781594 AATTGTTTATTGACAACCAACGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTAGAGTCCAA
261 AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAA
* * *
781659 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTG-TTGTTGACAACCAGCTGT
326 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGT
* * *
781723 CTCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
391 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
781756 GAGT
1 GAGT
781760 GGCACGATAT
Statistics
Matches: 785, Mismatches: 63, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
422 49 0.06
423 642 0.82
424 94 0.12
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (423 bp):
GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAATTGGGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
AATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAA
TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
Found at i:782596 original size:22 final size:22
Alignment explanation
Indices: 782570--782646 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
782560 TTATGTTTGG
782570 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
782592 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
782614 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
782636 TCAACGGTTTG
1 TCAAAGGTTTG
782647 ATGGGGTAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:783317 original size:14 final size:14
Alignment explanation
Indices: 783298--783347 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
783288 CTTTCTTTGT
*
783298 TTTTTTGTTTTTCC
1 TTTTTTCTTTTTCC
* *
783312 TTTTTTCCTTTTGC
1 TTTTTTCTTTTTCC
783326 TTCTTTTCTTTTTCC
1 TT-TTTTCTTTTTCC
783341 TTTTTTC
1 TTTTTTC
783348 CCTTTTTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTTTCTTTTTCC
Found at i:783317 original size:15 final size:15
Alignment explanation
Indices: 783297--783346 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
783287 TCTTTCTTTG
*
783297 TTTTTTTGTTTTTCC
1 TTTTTTTCTTTTTCC
* *
783312 -TTTTTTCCTTTTGC
1 TTTTTTTCTTTTTCC
*
783326 TTCTTTTCTTTTTCC
1 TTTTTTTCTTTTTCC
783341 TTTTTT
1 TTTTTT
783347 CCCTTTTTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTTTCTTTTTCC
Found at i:787394 original size:26 final size:24
Alignment explanation
Indices: 787365--787433 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
787355 GGAAAAAATG
*
787365 AATAAATGAAAAAAATGAAGAA-TAAA
1 AATAAAT-AAAAAAAT-AA-AAGGAAA
*
787391 AATAAGTTAAAAAAATAAAAGGAAA
1 AATAA-ATAAAAAAATAAAAGGAAA
*
787416 AATAAATAAATAAATAAA
1 AATAAATAAAAAAATAAA
787434 TTAAATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 13 0.35
25 10 0.27
26 13 0.35
27 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (24 bp):
AATAAATAAAAAAATAAAAGGAAA
Found at i:787564 original size:29 final size:29
Alignment explanation
Indices: 787526--787595 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
787516 ATAATATAAT
787526 ATAAACAAATAAAAAAACCAAAAACAAAA
1 ATAAACAAATAAAAAAACCAAAAACAAAA
* * * * *
787555 ATAAATAAATATATAAACCAAATATAAAA
1 ATAAACAAATAAAAAAACCAAAAACAAAA
* *
787584 ATATACATATAA
1 ATAAACAAATAA
787596 TGATAACCGG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (29 bp):
ATAAACAAATAAAAAAACCAAAAACAAAA
Found at i:787739 original size:18 final size:17
Alignment explanation
Indices: 787716--787758 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
787706 GTAAAATATT
*
787716 TTAAAAAATATATA-TA
1 TTAAAAAAAATATAGTA
787732 TATAAAAATAAATATAGTA
1 T-TAAAAA-AAATATAGTA
787751 TTAAAAAA
1 TTAAAAAA
787759 TAACCAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 12 0.52
19 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TTAAAAAAAATATAGTA
Found at i:787744 original size:20 final size:19
Alignment explanation
Indices: 787716--787761 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 19
787706 GTAAAATATT
*
787716 TTAAAAAATATATATA-TA
1 TTAAAAAATAAATATAGTA
787734 -T-AAAAATAAATATAGTA
1 TTAAAAAATAAATATAGTA
787751 TTAAAAAATAA
1 TTAAAAAATAA
787762 CCAAATGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 1 0.04
19 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAAAATAAATATAGTA
Found at i:787793 original size:20 final size:20
Alignment explanation
Indices: 787717--787793 Score: 50
Period size: 23 Copynumber: 3.6 Consensus size: 20
787707 TAAAATATTT
787717 TAAAAAATATATATATATAAAAA
1 TAAAAAATATATA-A-A-AAAAA
* *
787740 T-AAATATAGTAT-TAAAAAA
1 TAAAAAATA-TATAAAAAAAA
*
787759 TAACCAAATGAATATAAAAAAAA
1 TAA-AAAAT--ATATAAAAAAAA
787782 TAAAAAATATAT
1 TAAAAAATATAT
787794 GTATATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
19 6 0.14
20 6 0.14
21 3 0.07
22 13 0.31
23 14 0.33
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (20 bp):
TAAAAAATATATAAAAAAAA
Found at i:788315 original size:36 final size:36
Alignment explanation
Indices: 788275--788376 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 36
788265 GTGCTTGTGG
* * *
788275 ATCCTAATTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
788311 ATCCTATTTTAGGAG-TTGAATCCTAGCAAAATTCT
1 ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
788346 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTA-TTTTAGGAGTTTGAATCCTAGTAG
788377 GATGAAAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
35 21 0.38
36 23 0.41
37 12 0.21
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:790133 original size:20 final size:21
Alignment explanation
Indices: 790108--790148 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
790098 AAACTTACAT
790108 AGGGGTATCGGTACCC-TAGG
1 AGGGGTATCGGTACCCATAGG
790128 AGGGGTATCGGTACCCATAGG
1 AGGGGTATCGGTACCCATAGG
790149 GTATTATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.20
Consensus pattern (21 bp):
AGGGGTATCGGTACCCATAGG
Found at i:792237 original size:14 final size:14
Alignment explanation
Indices: 792214--792257 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
792204 TCCTAATGGG
792214 CAAT-TTTGAAAAA
1 CAATGTTTGAAAAA
*
792227 CTATGTTTG-AAAA
1 CAATGTTTGAAAAA
*
792240 CAATGTTTGAAAAT
1 CAATGTTTGAAAAA
792254 CAAT
1 CAAT
792258 ATGTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (14 bp):
CAATGTTTGAAAAA
Found at i:792731 original size:20 final size:22
Alignment explanation
Indices: 792706--792786 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 22
792696 CCAGAACCCG
792706 ATGGGGGTATCGATACCC-TT-
1 ATGGGGGTATCGATACCCATTA
*
792726 ATGGGGGTATCTATACCCATTCA
1 ATGGGGGTATCGATACCCATT-A
* * **
792749 AAGGGGGTATCGATACCTAGCA
1 ATGGGGGTATCGATACCCATTA
792771 A-GGGGGTATCGATACC
1 ATGGGGGTATCGATACC
792787 TGGCACACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
20 17 0.33
21 17 0.33
22 2 0.04
23 16 0.31
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGGGGGTATCGATACCCATTA
Found at i:798536 original size:74 final size:74
Alignment explanation
Indices: 798458--798595 Score: 197
Period size: 74 Copynumber: 1.9 Consensus size: 74
798448 GTTATATGAC
* * * *
798458 TAGGGGTATCGGTACCCATAAG-GGGGTATCGGTACCTATAGGGCATTCTATTTTTCTCGGAGCC
1 TAGGGGTATCGATACCC-TAAGAGGGGTATCGATACCCATAGGGCATTCTATTTTTCTCGAAGCC
798522 AAAACTTACA
65 AAAACTTACA
** *
798532 TAGGGGTATCGATATGCTAGGAGGGGTATCGATACCCATAGGGCATTCTATTTTTCTCGAAGCC
1 TAGGGGTATCGATACCCTAAGAGGGGTATCGATACCCATAGGGCATTCTATTTTTCTCGAAGCC
798596 CTTCTATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 3 0.05
74 53 0.95
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (74 bp):
TAGGGGTATCGATACCCTAAGAGGGGTATCGATACCCATAGGGCATTCTATTTTTCTCGAAGCCA
AAACTTACA
Found at i:800410 original size:18 final size:18
Alignment explanation
Indices: 800387--800428 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
800377 ATATCCTTAT
*
800387 CTTTAGTAGTATTGAGTC
1 CTTTAGTAGTATTGAATC
800405 CTTTAGTAGTATTGAATC
1 CTTTAGTAGTATTGAATC
800423 CTTTAG
1 CTTTAG
800429 GAACCCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (18 bp):
CTTTAGTAGTATTGAATC
Found at i:803724 original size:462 final size:473
Alignment explanation
Indices: 802842--803751 Score: 1691
Period size: 462 Copynumber: 1.9 Consensus size: 473
802832 CCGATACCAA
*
802842 ACTACTTTATGTAGTGTATCGATACCCCCATGGACAATATCGATACTACACTACAAAGTAGTACC
1 ACTACTTTACGTAGTGTATCGATACCCCCATGGACAATATCGATACTACACTACAAAGTAGTACC
802907 GATACCTCTTGGCCAGTATCGATACCATTGGAATGCAATAGTCAAAATATTTGAAGTGGATACTC
66 GATACCTCTTGGCCAGTATCGATACCATTGGAATGCAATAGTCAAAATATTTGAAGTGGATACTC
802972 AGAACCATCCACAAATGATATGGGTATCGGTACTACTTTGTAGTGTAGTATCTTCATAGGCCTGT
131 AGAACCATCCACAAATGATATGGGTATCGGTACTACTTTGTAGTGTAGTATCTTCATAGGCCTGT
803037 TATAAATTCAAATATTTTGACTATTGCATTCCAATGGTATCGATACTGGCCAAGAGGTATCGGTA
196 TATAAATTCAAATATTTTGACTATTGCATTCCAATGGTATCGATACTGGCCAAGAGGTATCGGTA
803102 CTACTTTGTAGTGTAGTATCGATATTGTCCATGGGGGTATCGATACTACTACGTAAAGTAGTATC
261 CTACTTTGTAGTGTAGTATCGATATTGTCCATGGGGGTATCGATACTACTACGTAAAG-AGTATC
803167 AGTACCTTAAGTGGTATTAGTATCCATTTTGCATTCTGTTATTTCTCGGAGTCAAAACCAAAGGG
325 AGTACCTTAAGTGGTATTA-TATCCATTTTGCATTCTGTTATTTCTCGGAGTCAAAACCAAAGGG
803232 GTAGTATCAATACCATAGACCATGGTATCAGTACTACTATGTATAGGGGTATCGATACTACACTA
389 GTAGTATCAATACCATAGACCATGGTATCAGTACTACTATGTATAGGGGTATCGATACTACACTA
803297 ATACCACTTAAGGTACTGAT
454 ATACCACTTAAGGTACTGAT
803317 ACTACTTTACGTAGTAGTATCGATACCCCCATGGACAATATCGATACTACACTACAAAGTAGTA-
1 ACTACTTTACGTAGT-GTATCGATACCCCCATGGACAATATCGATACTACACTACAAAGTAGTAC
803381 CGATACCTCTTGGCCAGTATCGATACCATTGGAATGCAATAGTCAAAATA-TTG-AGTGGATACT
65 CGATACCTCTTGGCCAGTATCGATACCATTGGAATGCAATAGTCAAAATATTTGAAGTGGATACT
803444 CAGAACCATCCACAAATGATATGGGTATCGGTACTAC-TTGTAGTGTAGTATCTTCATAGGCCTG
130 CAGAACCATCCACAAATGATATGGGTATCGGTACTACTTTGTAGTGTAGTATCTTCATAGGCCTG
803508 TTA-AAATTCAAATATTTTGACTATTGCATTCCAATGGTATCGATA-TGGCCAAGAGGTATCGGT
195 TTATAAATTCAAATATTTTGACTATTGCATTCCAATGGTATCGATACTGGCCAAGAGGTATCGGT
803571 ACTACTTTGTAGTGTAGTATCGATATTGTCCATGGGGGTATCGATACTACTACGT-AA-A-TATC
260 ACTACTTTGTAGTGTAGTATCGATATTGTCCATGGGGGTATCGATACTACTACGTAAAGAGTATC
803633 AGTACCTT-AGTGGTA-T-TATCCATTTTGCATTCTGTTATTTCTCGGAGTCAAAACCAAAGGGG
325 AGTACCTTAAGTGGTATTATATCCATTTTGCATTCTGTTATTTCTCGGAGTCAAAACCAAAGGGG
*
803695 TAGTATCAATACCATAGACCATGGTATCAGTACTACTATTTATAGGGGTATCGATAC
390 TAGTATCAATACCATAGACCATGGTATCAGTACTACTATGTATAGGGGTATCGATAC
803752 CGTGTAGGGG
Statistics
Matches: 432, Mismatches: 2, Indels: 15
0.96 0.00 0.03
Matches are distributed among these distances:
462 102 0.24
464 1 0.00
465 7 0.02
466 12 0.03
467 1 0.00
469 2 0.00
470 73 0.17
471 42 0.10
472 30 0.07
473 47 0.11
474 3 0.01
475 64 0.15
476 48 0.11
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (473 bp):
ACTACTTTACGTAGTGTATCGATACCCCCATGGACAATATCGATACTACACTACAAAGTAGTACC
GATACCTCTTGGCCAGTATCGATACCATTGGAATGCAATAGTCAAAATATTTGAAGTGGATACTC
AGAACCATCCACAAATGATATGGGTATCGGTACTACTTTGTAGTGTAGTATCTTCATAGGCCTGT
TATAAATTCAAATATTTTGACTATTGCATTCCAATGGTATCGATACTGGCCAAGAGGTATCGGTA
CTACTTTGTAGTGTAGTATCGATATTGTCCATGGGGGTATCGATACTACTACGTAAAGAGTATCA
GTACCTTAAGTGGTATTATATCCATTTTGCATTCTGTTATTTCTCGGAGTCAAAACCAAAGGGGT
AGTATCAATACCATAGACCATGGTATCAGTACTACTATGTATAGGGGTATCGATACTACACTAAT
ACCACTTAAGGTACTGAT
Found at i:804562 original size:27 final size:28
Alignment explanation
Indices: 804532--804587 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
804522 AACTTTTTTA
*
804532 TGATTTTAAAAAGAT-TTTATAAAATTT
1 TGATTCTAAAAAGATATTTATAAAATTT
* *
804559 TGATTCTAAAAAGATATTTTTATAATTT
1 TGATTCTAAAAAGATATTTATAAAATTT
804587 T
1 T
804588 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (28 bp):
TGATTCTAAAAAGATATTTATAAAATTT
Found at i:805506 original size:222 final size:224
Alignment explanation
Indices: 805231--805677 Score: 880
Period size: 222 Copynumber: 2.0 Consensus size: 224
805221 TAAACTTTAT
805231 GCATTGGATTTTTTTGGGTAATGAAGCCATGTCACATAACGACATTATTGATGAAATAACTGAAT
1 GCATTGGATTTTTTTGGGTAATGAAGCCATGTCACATAACGACATTATTGATGAAATAACTGAAT
805296 AACAAAAAAAACTCAATATATTAAGTTCAATGAAAAATTAAAAATATTTAAAGTATAGTGAGTGA
66 AACAAAAAAAACTCAATATATTAAGTTCAATGAAAAATTAAAAATATTTAAAGTATAGTGAGTGA
805361 AACAAGAGATAGAGTAAAGTTTAGGGTTAATTATCCAACTCATACATGAACTATACCTGATTCTC
131 AACAAGAGATAGAGTAAAGTTTAGGGTTAATTATCCAACTCATACATGAACTATACCTGATTCTC
805426 AGTTTTATACAT-AAGTTTAAAAATTCTC
196 AGTTTTATACATAAAGTTTAAAAATTCTC
805454 GCATTGGA-TTTTTTGGGTAATGAAGCCATGTCACATAACGACATTATTGATGAAATAACTGAAT
1 GCATTGGATTTTTTTGGGTAATGAAGCCATGTCACATAACGACATTATTGATGAAATAACTGAAT
805518 AACAAAAAAAACTCAATATATTAAGTTCAATGAAAAATTAAAAATATTTAAAGTATAGTGAGTGA
66 AACAAAAAAAACTCAATATATTAAGTTCAATGAAAAATTAAAAATATTTAAAGTATAGTGAGTGA
805583 AACAAGAGATAGAGTAAAGTTTAGGGTTAATTATCCAACTCATACATGAACTATACCTGATTCTC
131 AACAAGAGATAGAGTAAAGTTTAGGGTTAATTATCCAACTCATACATGAACTATACCTGATTCTC
805648 AGTTTTATACATAAAGTTTAAAAATTCTC
196 AGTTTTATACATAAAGTTTAAAAATTCTC
805677 G
1 G
805678 ATTAACTACA
Statistics
Matches: 223, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
222 198 0.89
223 25 0.11
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (224 bp):
GCATTGGATTTTTTTGGGTAATGAAGCCATGTCACATAACGACATTATTGATGAAATAACTGAAT
AACAAAAAAAACTCAATATATTAAGTTCAATGAAAAATTAAAAATATTTAAAGTATAGTGAGTGA
AACAAGAGATAGAGTAAAGTTTAGGGTTAATTATCCAACTCATACATGAACTATACCTGATTCTC
AGTTTTATACATAAAGTTTAAAAATTCTC
Found at i:806558 original size:21 final size:21
Alignment explanation
Indices: 806532--806609 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
806522 GGGCTTGATA
* *
806532 GTATCGATACTATTGTTCACG
1 GTATCGATACTACTGTTCATG
806553 GTATCGATACTACTGTTCATG
1 GTATCGATACTACTGTTCATG
*
806574 GTATTGATACTACTGTTCATG
1 GTATCGATACTACTGTTCATG
806595 GTATCGATACTACTG
1 GTATCGATACTACTG
806610 CTCACATAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (21 bp):
GTATCGATACTACTGTTCATG
Found at i:809439 original size:21 final size:21
Alignment explanation
Indices: 809389--809439 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
809379 TTAGCATCGG
*
809389 TACTGTTCATGGTATTGATAC
1 TACTGTTCATGGTATCGATAC
*
809410 TAATGTTCATGGTATCGATAC
1 TACTGTTCATGGTATCGATAC
*
809431 TACTTTTCA
1 TACTGTTCA
809440 CACAGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (21 bp):
TACTGTTCATGGTATCGATAC
Found at i:809459 original size:20 final size:20
Alignment explanation
Indices: 809431--809500 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
809421 GTATCGATAC
* *
809431 TACTTTTCACACAGTATCGG
1 TACTATTCATACAGTATCGG
809451 TACTATTCATACAGTATCGG
1 TACTATTCATACAGTATCGG
* *
809471 TATTATTCATACAGTA-CGA
1 TACTATTCATACAGTATCGG
809490 TACTATTCATA
1 TACTATTCATA
809501 AAAAGATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 12 0.27
20 33 0.73
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
TACTATTCATACAGTATCGG
Found at i:811524 original size:15 final size:15
Alignment explanation
Indices: 811500--811533 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
811490 GGAAATAAAG
811500 AAATTCTATAAATAA
1 AAATTCTATAAATAA
*
811515 AAATTTTATAAATAA
1 AAATTCTATAAATAA
811530 AAAT
1 AAAT
811534 ATATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTCTATAAATAA
Found at i:811538 original size:14 final size:14
Alignment explanation
Indices: 811506--811554 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
811496 AAAGAAATTC
*
811506 TATAAATAAAAATTT
1 TATAAATAAAAA-TA
811521 TATAAATAAAAATA
1 TATAAATAAAAATA
*
811535 TATAAATTAGAAATA
1 TATAAA-TAAAAATA
811550 -ATAAA
1 TATAAA
811555 ATATAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TATAAATAAAAATA
Found at i:814182 original size:24 final size:26
Alignment explanation
Indices: 814140--814187 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
814130 GATGCGTCTG
*
814140 CAACAACAACACAATAATATCAAACA
1 CAACAACAACACAATAATAGCAAACA
814166 CAAC-ACAA-ACAATAATAGCAAA
1 CAACAACAACACAATAATAGCAAA
814188 GCGGGAACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 4 0.19
26 4 0.19
ACGTcount: A:0.62, C:0.25, G:0.02, T:0.10
Consensus pattern (26 bp):
CAACAACAACACAATAATAGCAAACA
Found at i:816221 original size:20 final size:20
Alignment explanation
Indices: 816196--816248 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
816186 AATTTTCCAT
*
816196 AATCGCAACGCGAATATATA
1 AATCGCAACGCGAACATATA
816216 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
*
816236 AATCGCAATGCGA
1 AATCGCAACGCGA
816249 TTTTGACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:816280 original size:61 final size:60
Alignment explanation
Indices: 816214--816422 Score: 194
Period size: 61 Copynumber: 3.5 Consensus size: 60
816204 CGCGAATATA
** *
816214 TAAATCGCAACGCGAACATATAAATCGCAATGCGATTTTG-ACTATCGTAACGAGTATCCG
1 TAAATCGCAACGCGAACACGTAAATCGCAATGCGATTTTGTA-AATCGTAACGAGTATCCG
* * * * *
816274 TAAAATCGCAACGCGTATC-CGTAAATCGCAACGAC-AATTCGTAAAATCGTAACGCGTATCCG
1 T-AAATCGCAACGCG-AACACGTAAATCGCAATG-CGATTTTGT-AAATCGTAACGAGTATCCG
* * * *
816336 TAAATCGCAACGAGAATACGTAAATCGCAATGCG-TATTTGTAAATCGTAACGAGAATACG
1 TAAATCGCAACGCGAACACGTAAATCGCAATGCGAT-TTTGTAAATCGTAACGAGTATCCG
* *
816396 TAAATCGCAATGCGTATC-CGTAAATCG
1 TAAATCGCAACGCG-AACACGTAAATCG
816423 TAACGACAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 18
0.75 0.13 0.11
Matches are distributed among these distances:
60 40 0.34
61 58 0.49
62 20 0.17
63 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (60 bp):
TAAATCGCAACGCGAACACGTAAATCGCAATGCGATTTTGTAAATCGTAACGAGTATCCG
Found at i:816301 original size:20 final size:20
Alignment explanation
Indices: 816257--816450 Score: 158
Period size: 20 Copynumber: 9.6 Consensus size: 20
816247 GATTTTGACT
* *
816257 ATCGTAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
816278 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
816298 ATCGCAACGAC-AATTCGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
816319 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
816339 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* **
816359 ATCGCAATGCGTATTTGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
816379 ATCGTAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
816399 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
816419 ATCGTAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
816440 ATCGCAACGCG
1 ATCGCAACGCG
816451 ATTTTTAAAG
Statistics
Matches: 135, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
20 92 0.68
21 43 0.32
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:816372 original size:40 final size:41
Alignment explanation
Indices: 816257--816450 Score: 266
Period size: 40 Copynumber: 4.8 Consensus size: 41
816247 GATTTTGACT
* *
816257 ATCGTAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGTAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * * *
816298 ATCGCAACGACAATTCGTAAAATCGTAACGCGTATCCGTAA
1 ATCGTAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * **
816339 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATTTGTAA
1 ATCGTAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
816379 ATCGTAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGTAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
816419 ATCGTAACGACAATACGTAAAATCGCAACGCG
1 ATCGTAACGAGAATACGTAAAATCGCAACGCG
816451 ATTTTTAAAG
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 72 0.53
41 64 0.47
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (41 bp):
ATCGTAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:817050 original size:21 final size:21
Alignment explanation
Indices: 816989--817067 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
816979 TTTTAAACTT
816989 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
* *
817009 AAAATCGCAAC-ACAAAAATG
1 AAAATCGCAACGAGAGAAATG
**
817029 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
817050 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
817068 TCGCAACGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 26 0.52
21 23 0.46
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:817071 original size:14 final size:14
Alignment explanation
Indices: 817049--817113 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
817039 CGAGAGAAAT
817049 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
817063 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
817081 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
817096 GATAATCGCAACGC
1 GAAAATCGCAACGA
817110 GAAA
1 GAAA
817114 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:817085 original size:33 final size:33
Alignment explanation
Indices: 817044--817124 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
817034 CGCAACGAGA
817044 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
817077 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
817110 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
817125 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:817142 original size:19 final size:19
Alignment explanation
Indices: 817120--817231 Score: 117
Period size: 19 Copynumber: 6.1 Consensus size: 19
817110 GAAACCAAAA
817120 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
817139 TCGCGTTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
817158 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
817177 TCGCGTTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
* **
817191 TCTCATTGCGATAGTCATT
1 TCGCATTGCGATTTTCATT
817210 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
817230 TC
1 TC
817232 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.12
16 2 0.03
17 3 0.04
19 48 0.62
20 16 0.21
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:819273 original size:21 final size:21
Alignment explanation
Indices: 819249--819315 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
819239 TCATTCCTCG
819249 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
819270 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
819291 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
819312 AGAG
1 AGAG
819316 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:819273 original size:42 final size:42
Alignment explanation
Indices: 819197--819315 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 42
819187 GACTCGCCTG
* * * *
819197 TCATCCCTC-AAGA-GTCCACTCCTATCATTGAAGAGGCCCCTA
1 TCAT-CCTCGAAGAGGTCC-CTCCCACCATTCAAGAGGCCACTA
* *
819239 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCA-TCCTCGAAGAGGT-CCCTCCCACCATTCAAGAGGCCACTA
* *
819281 TCATCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAG
819316 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.06
42 54 0.86
43 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCCTCGAAGAGGTCCCTCCCACCATTCAAGAGGCCACTA
Found at i:820682 original size:14 final size:14
Alignment explanation
Indices: 820663--820698 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
820653 ATTGTTTAAT
820663 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
820677 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
820691 TGATTTGT
1 TGATTTGT
820699 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:820839 original size:19 final size:19
Alignment explanation
Indices: 820800--820859 Score: 93
Period size: 19 Copynumber: 3.1 Consensus size: 19
820790 AAAATAGACT
* *
820800 ATCGCAACGCGGAAATCAAA
1 ATCGCAATGC-GAAATGAAA
820820 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
820839 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
820858 AT
1 AT
820860 GATTCGCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 29 0.76
20 9 0.24
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:820926 original size:19 final size:19
Alignment explanation
Indices: 820862--821070 Score: 234
Period size: 19 Copynumber: 11.7 Consensus size: 19
820852 ATGAAAATGA
*
820862 TTCGCATTGCGATTTTAATT
1 TTCGCATTGCGATTTTCA-T
820882 TTCGCATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
820898 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
820915 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
820934 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
820953 TTCACATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
820972 TTCGCATTGCGA---TC--
1 TTCGCATTGCGATTTTCAT
* *
820986 CTCGCGTTG-GATTTTCATT
1 TTCGCATTGCGATTTTCA-T
821005 TTCGCATTGCGA--TTCA-
1 TTCGCATTGCGATTTTCAT
*
821021 ATCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
821038 TTCGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
821057 TTCGCATTGCGATT
1 TTCGCATTGCGATT
821071 CTCTCGTTGC
Statistics
Matches: 161, Mismatches: 11, Indels: 35
0.78 0.05 0.17
Matches are distributed among these distances:
13 2 0.01
14 19 0.12
16 18 0.11
17 6 0.04
18 7 0.04
19 95 0.59
20 14 0.09
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:821051 original size:33 final size:33
Alignment explanation
Indices: 820921--821051 Score: 147
Period size: 33 Copynumber: 3.8 Consensus size: 33
820911 TCATTTCGCA
* *
820921 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCATTGCGA--TTCA-AT--CG
* ***
820959 TTGCGATTTTCATTTCGCATTGCGATCCTCGCG
1 TTGCGATTTTCATTTCGCATTGCGATTCAATCG
820992 TTG-GATTTTCATTTTCGCATTGCGATTCAATCG
1 TTGCGATTTTCA-TTTCGCATTGCGATTCAATCG
821025 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
821052 TTCATTTCGC
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
32 8 0.10
33 39 0.48
34 8 0.10
36 2 0.02
38 25 0.30
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCAATCG
Found at i:821060 original size:52 final size:51
Alignment explanation
Indices: 820921--821083 Score: 179
Period size: 52 Copynumber: 3.1 Consensus size: 51
820911 TCATTTCGCA
* * *
820921 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCACATTGCGATT-TTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCATCG
* * * *
820971 TTTCGCA-TTGCGATCCTCGCGTTG-GATTTTCATTTTCGCATTGCGATTCAATCG
1 TTGCG-ATTTTC-AT-TTCGCATTGCGATTTTCA-TTTCGCATTGCGATTC-ATCG
*
821025 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTC-ATCG
821077 TTGCGAT
1 TTGCGAT
821084 AGTCAAATGA
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
50 7 0.08
51 11 0.12
52 54 0.59
53 11 0.12
54 9 0.10
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCATCG
Found at i:823538 original size:24 final size:24
Alignment explanation
Indices: 823504--823557 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
823494 CTGAAAAATC
823504 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
823528 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
823552 ATCAAA
1 ATCAAA
823558 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:823571 original size:24 final size:24
Alignment explanation
Indices: 823504--823571 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
823494 CTGAAAAATC
* * *
823504 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
823528 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
823552 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
823572 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:824504 original size:80 final size:80
Alignment explanation
Indices: 824415--824612 Score: 249
Period size: 80 Copynumber: 2.5 Consensus size: 80
824405 CAGAATCTCG
*
824415 TTGCGATTTACAG-ATTCGCA-TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCACATTG
1 TTGCGATTTAC-GTATTC-CAGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCACATTG
824478 CGATTTACGGATACGCA
64 CGATTTACGGATACGCA
* * * * * *
824495 TTGCGATTTACGTATTCTAGTTGTGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGTG
1 TTGCGATTTACGTATTCCAGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCACATTGCG
*
824560 ATTTACGGATACGCG
66 ATTTACGGATACGCA
* *
824575 TTGCGATTTTACGTATTGTC-GTTGCGATTTACGGATAC
1 TTGCGA-TTTACGTATT-CCAGTTGCGATTTACAGATAC
824613 TCGATGCGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.02
80 74 0.73
81 26 0.25
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (80 bp):
TTGCGATTTACGTATTCCAGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCACATTGCG
ATTTACGGATACGCA
Found at i:824620 original size:20 final size:20
Alignment explanation
Indices: 824411--824622 Score: 163
Period size: 20 Copynumber: 10.6 Consensus size: 20
824401 TAGTCAGAAT
* *
824411 CTCGTTGCGATTTACAGATT
1 CTCGTTGCGATTTACGGATA
* * * *
824431 CGCATTGCGATTTACAGATT
1 CTCGTTGCGATTTACGGATA
* * * *
824451 CGCATTGCGATTTACGTATT
1 CTCGTTGCGATTTACGGATA
* *
824471 CACATTGCGATTTACGGATA
1 CTCGTTGCGATTTACGGATA
* * * *
824491 CGCATTGCGATTTACGTATT
1 CTCGTTGCGATTTACGGATA
* * *
824511 CTAGTTGTGATTTACAGATA
1 CTCGTTGCGATTTACGGATA
* * *
824531 CGCGTTGCGATTTACGTATT
1 CTCGTTGCGATTTACGGATA
*
824551 CTCGTTGTGATTTACGGATA
1 CTCGTTGCGATTTACGGATA
* * *
824571 CGCGTTGCGATTTTACGTATT
1 CTCGTTGCGA-TTTACGGATA
*
824592 GTCGTTGCGATTTACGGATA
1 CTCGTTGCGATTTACGGATA
*
824612 CTCGATGCGAT
1 CTCGTTGCGAT
824623 AGTCAGAATC
Statistics
Matches: 154, Mismatches: 37, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
20 138 0.90
21 16 0.10
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
CTCGTTGCGATTTACGGATA
Found at i:824638 original size:81 final size:80
Alignment explanation
Indices: 824435--824645 Score: 221
Period size: 80 Copynumber: 2.6 Consensus size: 80
824425 CAGATTCGCA
* * * * * *
824435 TTGCGATTTACAGATTCGC-ATTGCGATTTACGTATTCACATTGCGATTTACGGATACGCATTGC
1 TTGCGATTTACAGATACGCGA-TGCGATTCACGTAATCGCGTTGTGATTTACGGATACGCATTGC
824499 GATTTACGTATTCTAG
65 GATTTACGTATTCTAG
* * * * * *
824515 TTGTGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGTGATTTACGGATACGCGTTGCG
1 TTGCGATTTACAGATACGCGATGCGATTCACGTAATCGCGTTGTGATTTACGGATACGCATTGCG
* *
824580 ATTTTACGTATTGTCG
66 A-TTTACGTATTCTAG
* *
824596 TTGCGATTTACGGATACTCGATGCGATAGTCA-G-AATCGCGTTGTGATTTA
1 TTGCGATTTACAGATACGCGATGCGAT--TCACGTAATCGCGTTGTGATTTA
824646 TATGTTCGCG
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 58 0.52
81 50 0.45
82 1 0.01
83 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (80 bp):
TTGCGATTTACAGATACGCGATGCGATTCACGTAATCGCGTTGTGATTTACGGATACGCATTGCG
ATTTACGTATTCTAG
Found at i:824656 original size:20 final size:20
Alignment explanation
Indices: 824631--824683 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
824621 ATAGTCAGAA
*
824631 TCGCGTTGTGATTTAT-ATGT
1 TCGCGTTGTGATTT-TCATAT
824651 TCGCGTTGTGATTTTCATAT
1 TCGCGTTGTGATTTTCATAT
*
824671 TCGCGTTGCGATT
1 TCGCGTTGTGATT
824684 ATGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.15, G:0.25, T:0.47
Consensus pattern (20 bp):
TCGCGTTGTGATTTTCATAT
Found at i:826618 original size:32 final size:33
Alignment explanation
Indices: 826573--826674 Score: 161
Period size: 32 Copynumber: 3.1 Consensus size: 33
826563 TGAAACCCTT
* *
826573 GAAAGAAAGGATTCAAATATCAACCAAAAACAGA
1 GAAA-AAACGATTCGAATATCAACCAAAAACAGA
826607 GAAAAAA-GATTCGAATATCAACCAAAAACAGA
1 GAAAAAACGATTCGAATATCAACCAAAAACAGA
*
826639 GAAAAAACGATTCGAATATCAACCAAAAATAGA
1 GAAAAAACGATTCGAATATCAACCAAAAACAGA
826672 GAA
1 GAA
826675 TTTGAGAGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
32 31 0.48
33 30 0.46
34 4 0.06
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.13
Consensus pattern (33 bp):
GAAAAAACGATTCGAATATCAACCAAAAACAGA
Found at i:826723 original size:22 final size:22
Alignment explanation
Indices: 826698--826746 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
826688 GAAAGCTAGT
* *
826698 GAGATCAAAATGAGAGAAATGA
1 GAGATCAAAATAAGACAAATGA
826720 GAGATCAAAATAAGACAAATGA
1 GAGATCAAAATAAGACAAATGA
826742 GAGAT
1 GAGAT
826747 AACCAGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.24, T:0.14
Consensus pattern (22 bp):
GAGATCAAAATAAGACAAATGA
Found at i:828207 original size:18 final size:18
Alignment explanation
Indices: 828184--828254 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
828174 GTACTATAAG
828184 TTACATATATAGTTTACA
1 TTACATATATAGTTTACA
* * *
828202 TTACATGTATACATATACTATAA
1 TTACATATATA-GT-T--TA-CA
828225 GTTACATATATAGTTTACA
1 -TTACATATATAGTTTACA
*
828244 TTACATGTATA
1 TTACATATATA
828255 CACATACTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 20 0.50
19 2 0.05
20 3 0.08
22 3 0.08
23 2 0.05
24 10 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.42
Consensus pattern (18 bp):
TTACATATATAGTTTACA
Found at i:828214 original size:42 final size:42
Alignment explanation
Indices: 828168--828277 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
828158 TAGTTTATAC
*
828168 ATACATGTACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
828210 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
1 ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
*
828252 ATACACATACTATAAGTTACATATAT
1 ATACATATACTATAAGTTACATATAT
828278 TAACTATTGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (42 bp):
ATACATATACTATAAGTTACATATATAGTTTACATTACATGT
Found at i:828229 original size:24 final size:24
Alignment explanation
Indices: 828202--828273 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
828192 ATAGTTTACA
828202 TTACATGTATACATATACTATAAG
1 TTACATGTATACATATACTATAAG
* * *
828226 TTACATATATA-GT-T--TA-CA-
1 TTACATGTATACATATACTATAAG
*
828244 TTACATGTATACACATACTATAAG
1 TTACATGTATACATATACTATAAG
828268 TTACAT
1 TTACAT
828274 ATATTAACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
18 10 0.29
19 1 0.03
20 3 0.09
22 3 0.09
23 2 0.06
24 16 0.46
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (24 bp):
TTACATGTATACATATACTATAAG
Found at i:828558 original size:53 final size:53
Alignment explanation
Indices: 828492--828645 Score: 141
Period size: 57 Copynumber: 2.8 Consensus size: 53
828482 ATTTCTTTAA
* * * *
828492 TATATATATATATATATATATATATATATATTCTATATAT-TACTTATATTAG-T
1 TATACATACATATATATATATATATATATATTATATATATAAAC-TATA-TAGTT
* * *
828545 TATGCATACATATATATACTATATTAATATAAATTATAACATATAAACTATATAGTT
1 TATACATACATATATATA-TATA-T-ATATATATTAT-ATATATAAACTATATAGTT
* *
828602 TATACATATATAGTTTATATATATATATATATTAATATATATAA
1 TATACATACATA-TATATATATATATATATATT-ATATATATAA
828646 TATTTTATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
53 15 0.19
54 4 0.05
55 16 0.20
56 15 0.19
57 24 0.30
58 7 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (53 bp):
TATACATACATATATATATATATATATATATTATATATATAAACTATATAGTT
Found at i:828613 original size:15 final size:15
Alignment explanation
Indices: 828593--828786 Score: 102
Period size: 15 Copynumber: 12.9 Consensus size: 15
828583 ACATATAAAC
*
828593 TATATAGTTTATACA
1 TATATAGTTTATATA
828608 TATATAGTTTATATA
1 TATATAGTTTATATA
*
828623 TATATATATATTAATATA
1 TATATA-GT-TT-ATATA
* *
828641 TATAATATTTTATAAA
1 TAT-ATAGTTTATATA
828657 CTATATA--TT-T-T-
1 -TATATAGTTTATATA
* *
828668 T-TGTAGTTTATACA
1 TATATAGTTTATATA
828682 TATATAG-TT-TATA
1 TATATAGTTTATATA
*
828695 TACATAGTTTATATA
1 TATATAGTTTATATA
* *
828710 TATATAGTTCACATA
1 TATATAGTTTATATA
* * *
828725 AACATA-ATT-TATA
1 TATATAGTTTATATA
*
828738 TATATAGCTTATAATAA
1 TATATAGTTTAT-AT-A
828755 TTATATAGTTTATAATA
1 -TATATAGTTTAT-ATA
828772 TAAATATAGTTTATA
1 T--ATATAGTTTATA
828787 ATTTTATATA
Statistics
Matches: 137, Mismatches: 22, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
9 3 0.02
10 1 0.01
11 2 0.01
12 1 0.01
13 17 0.12
14 10 0.07
15 45 0.33
16 11 0.08
17 10 0.07
18 34 0.25
19 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:828647 original size:74 final size:73
Alignment explanation
Indices: 828439--828696 Score: 183
Period size: 74 Copynumber: 3.5 Consensus size: 73
828429 TTAGGATTTT
* * * * *
828439 TATAAACTATATAATTTATTACTTTATATAGTTTATGTATAGTATTTCT-TTAATATATATATAT
1 TATAAACTATATAGTTTA-TAC-ATATATAGTTTATATATA-TATATATATTAATATATATA-AT
*
828503 ATATATATATATATA
62 ATA-AT-TATA-ACA
** * ** * *
828518 TATATTCTATATA---T-TACTTATATTAG-TTATGCATACATATATA-TACTATAT-TAATATA
1 TATAAACTATATAGTTTATACATATA-TAGTTTATATATATATATATATTAATATATATAATAT-
828576 AATTATAACA
64 AATTATAACA
*
828586 TATAAACTATATAGTTTATACATATATAGTTTATATATATATATATATTAATATATATAATAT-T
1 TATAAACTATATAGTTTATACATATATAGTTTATATATATATATATATTAATATATATAATATAA
828650 TTATAAACTA
66 TTAT-AAC-A
*** * *
828660 TATATTTTTTGTAGTTTATACATATATAGTTTATATA
1 TATAAACTATATAGTTTATACATATATAGTTTATATA
828697 CATAGTTTAT
Statistics
Matches: 146, Mismatches: 21, Indels: 29
0.74 0.11 0.15
Matches are distributed among these distances:
68 13 0.09
69 4 0.03
70 6 0.04
71 7 0.05
72 36 0.25
73 23 0.16
74 45 0.31
76 1 0.01
79 11 0.08
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (73 bp):
TATAAACTATATAGTTTATACATATATAGTTTATATATATATATATATTAATATATATAATATAA
TTATAACA
Found at i:828663 original size:2 final size:2
Alignment explanation
Indices: 828491--828648 Score: 88
Period size: 2 Copynumber: 82.0 Consensus size: 2
828481 TATTTCTTTA
*
828491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T CT 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
** *
828532 -T ACT -T AT AT -T AGT -T AT GC AT AC AT AT AT AT ACT AT AT -T
1 AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
828570 A- AT AT AA AT -T AT A- AC AT AT AA ACT AT AT AGT TT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT
*
828611 AT AGT TT AT AT AT AT AT AT AT AT -T A- AT AT AT AT A- AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
828649 TTTATAAACT
Statistics
Matches: 120, Mismatches: 18, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
1 12 0.10
2 101 0.84
3 7 0.06
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:828778 original size:18 final size:18
Alignment explanation
Indices: 828734--828864 Score: 92
Period size: 18 Copynumber: 7.2 Consensus size: 18
828724 AAACATAATT
*
828734 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
828752 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
828770 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
828788 TTTTATATACATAGTTTAT-A
1 ---TATATATATAGTTTATAA
** * **
828808 TATAGTGCACA-TAAATAA
1 TATA-TATATAGTTTATAA
*
828826 TTTATATATAGTTTATAA
1 TATATATATAGTTTATAA
828844 TA-ATTATATAGTTTAT-A
1 TATA-TATATAGTTTATAA
828861 TATA
1 TATA
828865 ATTTTATATT
Statistics
Matches: 88, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
17 15 0.17
18 57 0.65
19 1 0.01
20 1 0.01
21 14 0.16
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:828847 original size:92 final size:98
Alignment explanation
Indices: 828689--828865 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 98
828679 ACATATATAG
*
828689 TTTATATACATAGTTTATATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATA
1 TTTATATACATAG-TTATATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATA
828754 ATTATATAGTTTATAATATAAATATAGTTTATAAT
65 ATTATATAGTTTAT-ATATAAATATAGTTTATAAT
*
828789 TTTATATACATAG-T-T-TATATATAGTGCACAT-AA-ATAA-TT-TATATATAGTTTATAATAA
1 TTTATATACATAGTTATATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAA
828847 TTATATAGTTTATATATAA
66 TTATATAGTTTATATATAA
828866 TTTTATATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 9
0.87 0.02 0.10
Matches are distributed among these distances:
91 6 0.08
92 31 0.41
93 2 0.03
94 4 0.05
95 2 0.03
96 15 0.20
97 1 0.01
98 1 0.01
100 13 0.17
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (98 bp):
TTTATATACATAGTTATATATATATAGTGCACATAAACATAATTTATATATATAGCTTATAATAA
TTATATAGTTTATATATAAATATAGTTTATAAT
Found at i:828860 original size:29 final size:26
Alignment explanation
Indices: 828826--828879 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
828816 ACATAAATAA
*
828826 TTTATATATAGTTTATAATAATTATATAG
1 TTTATATATAATTT-T-AT-ATTATATAG
828855 TTTATATATAATTTTATATTATATA
1 TTTATATATAATTTTATATTATATA
828880 TATATATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
28 1 0.04
29 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTATATATAATTTTATATTATATAG
Found at i:828890 original size:26 final size:26
Alignment explanation
Indices: 828828--828895 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
828818 ATAAATAATT
* *
828828 TATATATAGTTTATAATAATTATATAGTT
1 TATATATAATTT-T-AT-ATTATATAGTA
828857 TATATATAATTTTATATTATATA-TA
1 TATATATAATTTTATATTATATAGTA
*
828882 TATATTATATTTTT
1 TATA-TATAATTTT
828896 TTCATTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 5 0.14
26 16 0.46
27 2 0.06
28 1 0.03
29 11 0.31
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (26 bp):
TATATATAATTTTATATTATATAGTA
Found at i:831733 original size:30 final size:31
Alignment explanation
Indices: 831699--831768 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
831689 ATTTGTTTAA
831699 TATAAAATATTAC-ATAATTACTTTAAAA-AT
1 TATAAAATATTACAAT-ATTACTTTAAAATAT
* *
831729 TATAAAATCTTACAATATTATTTTAAAATAT
1 TATAAAATATTACAATATTACTTTAAAATAT
831760 TA-AAAATAT
1 TATAAAATAT
831769 CTAAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (31 bp):
TATAAAATATTACAATATTACTTTAAAATAT
Found at i:831773 original size:10 final size:9
Alignment explanation
Indices: 831753--831830 Score: 67
Period size: 9 Copynumber: 8.7 Consensus size: 9
831743 ATATTATTTT
831753 AAAATATTA
1 AAAATATTA
831762 AAAATATCT-
1 AAAATAT-TA
831771 AAAA-ATT-
1 AAAATATTA
831778 AAAATATGTA
1 AAAATAT-TA
831788 GAAAATA-TA
1 -AAAATATTA
*
831797 AAATTATTA
1 AAAATATTA
831806 AAAATTATTA
1 AAAA-TATTA
831816 AAAA-ATCTA
1 AAAATAT-TA
831825 AAAATA
1 AAAATA
831831 AACTCTAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
7 5 0.09
8 11 0.19
9 25 0.43
10 11 0.19
11 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATATTA
Found at i:831798 original size:18 final size:16
Alignment explanation
Indices: 831752--831812 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
831742 AATATTATTT
831752 TAAAATATTAAAAATATC
1 TAAAA-ATT-AAAATATC
*
831770 TAAAAATTAAAATATG
1 TAAAAATTAAAATATC
831786 TAGAAAATATAAAATTAT-
1 TA-AAAAT-TAAAA-TATC
831804 TAAAAATTA
1 TAAAAATTA
831813 TTAAAAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 11 0.28
17 13 0.33
18 12 0.31
19 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAAAATTAAAATATC
Found at i:831805 original size:27 final size:24
Alignment explanation
Indices: 831751--831829 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 24
831741 CAATATTATT
831751 TTAAAATATTAAAAATATCTAAAAA
1 TTAAAATATTAAAAATA-CTAAAAA
831776 TTAAAATATGTAGAAAATA-TAAAATTA
1 TTAAAATAT-TA-AAAATACTAAAA--A
831803 TTAAAAATTATTAAAAA-ATCTAAAAA
1 TT-AAAA-TATTAAAAATA-CTAAAAA
831829 T
1 T
831830 AAACTCTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 14 0.30
26 5 0.11
27 13 0.28
28 11 0.24
29 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
TTAAAATATTAAAAATACTAAAAA
Found at i:831932 original size:12 final size:12
Alignment explanation
Indices: 831915--831949 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
831905 GAATTTGTAT
831915 GATTACAATTTA
1 GATTACAATTTA
831927 GATTACAATTTA
1 GATTACAATTTA
*
831939 GATTATAATTT
1 GATTACAATTT
831950 GGGGTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.46
Consensus pattern (12 bp):
GATTACAATTTA
Found at i:832309 original size:10 final size:9
Alignment explanation
Indices: 832282--832317 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
832272 AAAATTTTCA
832282 AATTTTAAT
1 AATTTTAAT
832291 AATTTTAAT
1 AATTTTAAT
832300 AATATTTAAT
1 AAT-TTTAAT
*
832310 ATTTTTAA
1 AATTTTAA
832318 ATTAGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTAAT
Found at i:832387 original size:3 final size:3
Alignment explanation
Indices: 832379--832437 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
832369 GAGGCTTGAG
832379 ATA ATA ATA ATA ATA ATA 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
832427 ATA ATA ATA AT
1 ATA ATA ATA AT
832438 TCCATCAAAA
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:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:835001 original size:29 final size:29
Alignment explanation
Indices: 834969--835106 Score: 134
Period size: 29 Copynumber: 4.7 Consensus size: 29
834959 TTTTCCTTTG
* * *
834969 ATTGTAATATATAAAAAGTTTTGGTGTTT
1 ATTGTAATTTATAAAAAGTTTTGATATTT
* * *
834998 ATTGTAATTTTTAGAAAA-TTGTGGTATTT
1 ATTGTAATTTATA-AAAAGTTTTGATATTT
* *
835027 ATTGTAATTTACATAAAGTTTTGATATTT
1 ATTGTAATTTATAAAAAGTTTTGATATTT
* * **
835056 ATTATAATTTACAAAAAAAATTTGATATTT
1 ATTGTAATTTA-TAAAAAGTTTTGATATTT
*
835086 ATTATAATTTATAAAAAGTTT
1 ATTGTAATTTATAAAAAGTTT
835107 AGTCTTGATT
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
28 3 0.03
29 57 0.64
30 29 0.33
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (29 bp):
ATTGTAATTTATAAAAAGTTTTGATATTT
Found at i:835031 original size:58 final size:58
Alignment explanation
Indices: 834969--835106 Score: 152
Period size: 58 Copynumber: 2.4 Consensus size: 58
834959 TTTTCCTTTG
* * * * ** * *
834969 ATTGTAATATATAAAAAGTTTTGGTGTTTATTGTAATTT-TTAGAAAATTGTGGTATTT
1 ATTGTAATTTATAAAAAGTTTTGATATTTATTATAATTTAAAAAAAAATT-TGATATTT
* *
835027 ATTGTAATTTACATAAAGTTTTGATATTTATTATAATTTACAAAAAAAATTTGATATTT
1 ATTGTAATTTATAAAAAGTTTTGATATTTATTATAATTTA-AAAAAAAATTTGATATTT
*
835086 ATTATAATTTATAAAAAGTTT
1 ATTGTAATTTATAAAAAGTTT
835107 AGTCTTGATT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
58 33 0.51
59 25 0.38
60 7 0.11
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (58 bp):
ATTGTAATTTATAAAAAGTTTTGATATTTATTATAATTTAAAAAAAAATTTGATATTT
Found at i:835082 original size:30 final size:30
Alignment explanation
Indices: 835012--835102 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
835002 TAATTTTTAG
* * *
835012 AAAATTGTGGTATTTATTGTAATTTAC-ATA
1 AAAATT-TGATATTTATTATAATTTACAAAA
**
835042 AAGTTTTGATATTTATTATAATTTACAAAA
1 AAAATTTGATATTTATTATAATTTACAAAA
*
835072 AAAATTTGATATTTATTATAATTTATAAAA
1 AAAATTTGATATTTATTATAATTTACAAAA
835102 A
1 A
835103 GTTTAGTCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.35
30 34 0.65
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (30 bp):
AAAATTTGATATTTATTATAATTTACAAAA
Found at i:836189 original size:81 final size:81
Alignment explanation
Indices: 836064--836281 Score: 348
Period size: 81 Copynumber: 2.7 Consensus size: 81
836054 CTCGGCCGTG
* * * *
836064 TTTAACCATTCATCTAACTGGCATGTTTGACACCTTTT-TTCCAATTGCACAGTTAGGTCATTAT
1 TTTAACCGTTCATCTAACTGGCATATTTGACA-CTTTTCTGCCAATTGCACAGTTAGGCCATTAT
836128 TCTTTTACTCAACGGTA
65 TCTTTTACTCAACGGTA
*
836145 TTTAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAATTGCACAGTTAGGCCATTATT
1 TTTAACCGTTCATCTAACTGGCATATTTGACACTTTTCTGCCAATTGCACAGTTAGGCCATTATT
836210 CTTTTACTCAACGGTA
66 CTTTTACTCAACGGTA
** *
836226 TTTAACCGTTCATCTAACTAACATATTTGACACCTTTCTGCCAATTGCACAGTTAG
1 TTTAACCGTTCATCTAACTGGCATATTTGACACTTTTCTGCCAATTGCACAGTTAG
836282 TCCTCAAAGG
Statistics
Matches: 127, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
80 5 0.04
81 122 0.96
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATATTTGACACTTTTCTGCCAATTGCACAGTTAGGCCATTATT
CTTTTACTCAACGGTA
Found at i:836325 original size:68 final size:68
Alignment explanation
Indices: 836234--836761 Score: 716
Period size: 68 Copynumber: 7.8 Consensus size: 68
836224 TATTTAACCG
** ** * * *
836234 TTCATCTAACTAACATATTTGACACCTTTCTGCCAATTGCACAGTTAGTCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836299 CCT
66 CCT
* ** * * * * *
836302 TTTATCTAACTGGCATATTTGACACCTTTCTGCCAATTGTACAGTTAGGCCTCAAAGACATTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836367 CCT
66 CCT
* * * * *
836370 TTAATTTAACTGACATAAATGACACATTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836435 CCT
66 CCT
* *
836438 TTCATCTAACTGGCATAAATGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836503 CCT
66 CCT
* * * * * *
836506 TTCATCTAACTGGCATAAATGACACCTTTATGTCAAATGGAGAGTAAAGCCTCAAAAGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836571 CCT
66 CCT
* * * * **
836574 TTTATCTAACTGACATAAATGACACATTTATGTCAAATGCACAGTTATACCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836639 CCT
66 CCT
*
836642 TTCATCTAACTGGCATAAATGACACCTTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
836707 CCT
66 CCT
*
836710 TTCATCTAACTGGCATAAGTGACACC-TTCATGTCAAATGCACAGTTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTC-TGTCAAATGCACAGTTAGGCCT
836762 ATTAATCTTT
Statistics
Matches: 410, Mismatches: 49, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
67 2 0.00
68 408 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:837899 original size:14 final size:14
Alignment explanation
Indices: 837864--837902 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
837854 TCTGTCCATG
* *
837864 TGCAGAGATTTTTT
1 TGCAGGGATTTATT
837878 TCGCAGGGATTTATT
1 T-GCAGGGATTTATT
837893 TGCAGGGATT
1 TGCAGGGATT
837903 ACTTTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (14 bp):
TGCAGGGATTTATT
Found at i:837967 original size:4 final size:4
Alignment explanation
Indices: 837958--837987 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
837948 TTCAACCATG
837958 TATT TATT TATT TATT TATT TA-T TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
837988 ACATGCATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:838294 original size:54 final size:55
Alignment explanation
Indices: 838228--838365 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 55
838218 ATATATTTCT
* * *
838228 CATACGGAAATTCATACACTTGGTATGAATTTCTTAG-TTCGCACACATAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCATAGTTTCGCACACAAAGTGCC
* * *
838282 TATACGGAAATTCATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCATAGTTTCGCACACAAAGTGCC
*
838337 CATACAGAAATTCATACACTTAGTATGAA
1 CATACGGAAATTCATACACTTAGTATGAA
838366 CCTATACAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 33 0.45
55 41 0.55
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (55 bp):
CATACGGAAATTCATACACTTAGTATGAATTTCATAGTTTCGCACACAAAGTGCC
Found at i:838374 original size:31 final size:31
Alignment explanation
Indices: 838338--838396 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
838328 CAAAGTGCCC
838338 ATACAGAAATTCATACACTTAGTATGAACCT
1 ATACAGAAATTCATACACTTAGTATGAACCT
*
838369 ATACAGAAATTTATACACTTAGTATGAA
1 ATACAGAAATTCATACACTTAGTATGAA
838397 ATTCATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (31 bp):
ATACAGAAATTCATACACTTAGTATGAACCT
Found at i:838385 original size:86 final size:86
Alignment explanation
Indices: 838280--838451 Score: 281
Period size: 86 Copynumber: 2.0 Consensus size: 86
838270 ACACATAGTG
* * *
838280 CCTATACGGAAATTCATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCCCATACAGA
1 CCTATACAGAAATTCATACACATAGTATGAAATTCATAGTTTTGCACACAAAGTGCCCATACAAA
*
838345 AATTCATACACTTAGTATGAA
66 AATTCATACACCTAGTATGAA
* * *
838366 CCTATACAGAAATTTATACACTTAGTATGAAATTCATAGTTTTGCACACAAAGTGCCTATACAAA
1 CCTATACAGAAATTCATACACATAGTATGAAATTCATAGTTTTGCACACAAAGTGCCCATACAAA
838431 AATTCATACACCTAGTATGAA
66 AATTCATACACCTAGTATGAA
838452 TTTCATAGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (86 bp):
CCTATACAGAAATTCATACACATAGTATGAAATTCATAGTTTTGCACACAAAGTGCCCATACAAA
AATTCATACACCTAGTATGAA
Found at i:838434 original size:55 final size:55
Alignment explanation
Indices: 838366--838494 Score: 195
Period size: 55 Copynumber: 2.3 Consensus size: 55
838356 TTAGTATGAA
* * *
838366 CCTATACAGAAATTTATACACTTAGTATGAAATTCATAGTTTTGCACACAAAGTG
1 CCTATACAAAAATTCATACACCTAGTATGAAATTCATAGTTTTGCACACAAAGTG
* *
838421 CCTATACAAAAATTCATACACCTAGTATGAATTTCATAGTTTTGTACACAAAGTG
1 CCTATACAAAAATTCATACACCTAGTATGAAATTCATAGTTTTGCACACAAAGTG
* *
838476 CCCATACATAAATTCATAC
1 CCTATACAAAAATTCATAC
838495 CTTTACTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (55 bp):
CCTATACAAAAATTCATACACCTAGTATGAAATTCATAGTTTTGCACACAAAGTG
Found at i:838489 original size:141 final size:140
Alignment explanation
Indices: 838229--838494 Score: 415
Period size: 141 Copynumber: 1.9 Consensus size: 140
838219 TATATTTCTC
* * * * * **
838229 ATACGGAAATTCATACACTTGGTATGAATTTCTTAGTTCGCACACATAGTGCCTATACGGAAATT
1 ATACAGAAATTCATACACTTAGTATGAAATTCATAGTTCGCACACAAAGTGCCTATACAAAAATT
838294 CATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCCCATACAGAAATTCATACACTTA
66 CATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCCCATACAGAAATTCATACACTTA
838359 GTATGAACCT
131 GTATGAACCT
* *
838369 ATACAGAAATTTATACACTTAGTATGAAATTCATAGTTTTGCACACAAAGTGCCTATACAAAAAT
1 ATACAGAAATTCATACACTTAGTATGAAATTCATAG-TTCGCACACAAAGTGCCTATACAAAAAT
* * *
838434 TCATACACCTAGTATGAATTTCATAGTTTTGTACACAAAGTGCCCATACATAAATTCATAC
65 TCATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCCCATACAGAAATTCATAC
838495 CTTTACTATA
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
140 31 0.27
141 82 0.73
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.31
Consensus pattern (140 bp):
ATACAGAAATTCATACACTTAGTATGAAATTCATAGTTCGCACACAAAGTGCCTATACAAAAATT
CATACACATAGTATGAATTTCATAGTTTTGCACACAAAGTGCCCATACAGAAATTCATACACTTA
GTATGAACCT
Found at i:838509 original size:55 final size:55
Alignment explanation
Indices: 838369--838510 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 55
838359 GTATGAACCT
* * * * *
838369 ATACAGAAATTTATACACTTAGTATGAAA-TTCATAGTTTTGCACACAAAGTGCCT
1 ATACAAAAATTCATACACCTACTAT-AAATTTCATAGTTTTGCACACAAAGTGCCC
* * *
838424 ATACAAAAATTCATACACCTAGTATGAATTTCATAGTTTTGTACACAAAGTGCCC
1 ATACAAAAATTCATACACCTACTATAAATTTCATAGTTTTGCACACAAAGTGCCC
* *
838479 ATACATAAATTCATAC-CTTTACTATAAATTTC
1 ATACAAAAATTCATACAC-CTACTATAAATTTC
838511 TTAAATTTTT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
54 3 0.04
55 72 0.96
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (55 bp):
ATACAAAAATTCATACACCTACTATAAATTTCATAGTTTTGCACACAAAGTGCCC
Found at i:848784 original size:28 final size:28
Alignment explanation
Indices: 848742--848797 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
848732 ATCCAAAGCA
* *
848742 ATTTGGATACTAAAATCCACATAAATGT
1 ATTTGGATACCAAAATCCACAAAAATGT
848770 ATTTGGATACCAAAATCCACAAAAATGT
1 ATTTGGATACCAAAATCCACAAAAATGT
848798 CTTTTATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.29
Consensus pattern (28 bp):
ATTTGGATACCAAAATCCACAAAAATGT
Found at i:850245 original size:20 final size:22
Alignment explanation
Indices: 850222--850293 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 22
850212 AAGACTTCAC
*
850222 TATGAATACCCAA-TC-TTTGG
1 TATGGATACCCAATTCATTTGG
850242 TATGGATA-CCAATTCATTTGG
1 TATGGATACCCAATTCATTTGG
* * *
850263 TATGGATA-CCAA-GCCTTCGG
1 TATGGATACCCAATTCATTTGG
850283 TATGGATACCC
1 TATGGATACCC
850294 CTTCAGTACT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 4 0.09
20 22 0.49
21 19 0.42
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (22 bp):
TATGGATACCCAATTCATTTGG
Found at i:850263 original size:21 final size:20
Alignment explanation
Indices: 850237--850292 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
850227 ATACCCAATC
*
850237 TTTGGTATGGATACCAATTCA
1 TTTGGTATGGATACCAA-GCA
*
850258 TTTGGTATGGATACCAAGCC
1 TTTGGTATGGATACCAAGCA
*
850278 TTCGGTATGGATACC
1 TTTGGTATGGATACC
850293 CCTTCAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TTTGGTATGGATACCAAGCA
Found at i:874822 original size:27 final size:27
Alignment explanation
Indices: 874767--874822 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
874757 GAACTACCAC
*
874767 CACTTTGAACTTGAAACTCCATAGAAT
1 CACTTTGAACTTGAAACTCCACAGAAT
* *
874794 CACTTTGAACTTGAAAGTCCACAGCAT
1 CACTTTGAACTTGAAACTCCACAGAAT
874821 CA
1 CA
874823 AGATCTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (27 bp):
CACTTTGAACTTGAAACTCCACAGAAT
Found at i:877906 original size:22 final size:21
Alignment explanation
Indices: 877881--877947 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
877871 AGAATAAAAA
877881 TAAAATATAATATATATACTTT
1 TAAAATATAATATATATA-TTT
877903 TAAAAT-T-ATATATATATTT
1 TAAAATATAATATATATATTT
* *
877922 T-CAATATATTATATAT-TTT
1 TAAAATATAATATATATATTT
877941 TCAAAAT
1 T-AAAAT
877948 TATATTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.08
19 9 0.24
20 16 0.42
21 4 0.11
22 6 0.16
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATATAATATATATATTT
Found at i:879789 original size:13 final size:12
Alignment explanation
Indices: 879751--879791 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
879741 GACCAGACCC
879751 GACCCGACCGTT
1 GACCCGACCGTT
*
879763 GACCCGATCGTT
1 GACCCGACCGTT
*
879775 GACCGTGACCGTT
1 GACC-CGACCGTT
879788 GACC
1 GACC
879792 TCCTTTGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.17, C:0.37, G:0.27, T:0.20
Consensus pattern (12 bp):
GACCCGACCGTT
Found at i:883768 original size:13 final size:14
Alignment explanation
Indices: 883750--883780 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
883740 GGTCAAAGGA
883750 GGTCAACGGTC-AC
1 GGTCAACGGTCAAC
883763 GGTCAACGGTCAAC
1 GGTCAACGGTCAAC
883777 GGTC
1 GGTC
883781 GGGTCGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (14 bp):
GGTCAACGGTCAAC
Found at i:883792 original size:17 final size:16
Alignment explanation
Indices: 883770--883820 Score: 79
Period size: 14 Copynumber: 3.2 Consensus size: 16
883760 CACGGTCAAC
883770 GGTCAACGGTCGGGTCG
1 GGTCAACGGTC-GGTCG
883787 GGTCAACGGTCGGTCG
1 GGTCAACGGTCGGTCG
883803 GGTC-A-GGTCGGTCG
1 GGTCAACGGTCGGTCG
883817 GGTC
1 GGTC
883821 TGGTCAGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.38
15 1 0.03
16 9 0.26
17 11 0.32
ACGTcount: A:0.10, C:0.24, G:0.47, T:0.20
Consensus pattern (16 bp):
GGTCAACGGTCGGTCG
Found at i:883797 original size:7 final size:7
Alignment explanation
Indices: 883750--883780 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
883740 GGTCAAAGGA
883750 GGTCAAC
1 GGTCAAC
883757 GGTC-AC
1 GGTCAAC
883763 GGTCAAC
1 GGTCAAC
883770 GGTCAAC
1 GGTCAAC
883777 GGTC
1 GGTC
883781 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.23, C:0.29, G:0.32, T:0.16
Consensus pattern (7 bp):
GGTCAAC
Found at i:883813 original size:14 final size:14
Alignment explanation
Indices: 883777--883825 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 14
883767 AACGGTCAAC
883777 GGTCGGGTCGGGTCAA
1 GGTC-GGTCGGGTC-A
883793 CGGTCGGTCGGGTCA
1 -GGTCGGTCGGGTCA
*
883808 GGTCGGTCGGGTCT
1 GGTCGGTCGGGTCA
883822 GGTC
1 GGTC
883826 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 9 0.29
17 4 0.13
ACGTcount: A:0.06, C:0.22, G:0.49, T:0.22
Consensus pattern (14 bp):
GGTCGGTCGGGTCA
Found at i:889073 original size:13 final size:14
Alignment explanation
Indices: 889057--889087 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
889047 AAATTGTCTA
889057 CCAAAATTCTCAT-
1 CCAAAATTCTCATG
889070 CCAAAATTCTCATG
1 CCAAAATTCTCATG
889084 CCAA
1 CCAA
889088 TACCAGCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.39, C:0.32, G:0.03, T:0.26
Consensus pattern (14 bp):
CCAAAATTCTCATG
Found at i:890603 original size:16 final size:17
Alignment explanation
Indices: 890582--890613 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
890572 AATGGGCAGT
890582 AATCCCTGC-AAAAAAA
1 AATCCCTGCGAAAAAAA
890598 AATCCCTGCGAAAAAA
1 AATCCCTGCGAAAAAA
890614 TCTCTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.25, G:0.09, T:0.12
Consensus pattern (17 bp):
AATCCCTGCGAAAAAAA
Found at i:892708 original size:7 final size:7
Alignment explanation
Indices: 892696--892739 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
892686 GGTCAAAGGA
892696 GGTCAAC
1 GGTCAAC
*
892703 GGTCAAA
1 GGTCAAC
892710 GGTCAAC
1 GGTCAAC
892717 GGTCAAC
1 GGTCAAC
*
892724 GGTC--G
1 GGTCAAC
892729 GGTCAAC
1 GGTCAAC
892736 GGTC
1 GGTC
892740 GGGTCGGTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
7 27 0.87
ACGTcount: A:0.25, C:0.25, G:0.34, T:0.16
Consensus pattern (7 bp):
GGTCAAC
Found at i:892734 original size:12 final size:12
Alignment explanation
Indices: 892717--892744 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
892707 AAAGGTCAAC
892717 GGTCAACGGTCG
1 GGTCAACGGTCG
892729 GGTCAACGGTCG
1 GGTCAACGGTCG
892741 GGTC
1 GGTC
892745 GGTCGGGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:892812 original size:10 final size:9
Alignment explanation
Indices: 892750--892819 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
892740 GGGTCGGTCG
*
892750 GGTCAGACC
1 GGTCAAACC
892759 GGTCAAACC
1 GGTCAAACC
* * *
892768 GATTTAGACC
1 G-GTCAAACC
*
892778 GGTCCGAACC
1 GGT-CAAACC
892788 GGTCGAAACC
1 GGTC-AAACC
892798 GGTCAAAACC
1 GGTC-AAACC
892808 GGTCAAACC
1 GGTCAAACC
892817 GGT
1 GGT
892820 TTTCCAGCTG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
9 19 0.40
10 29 0.60
ACGTcount: A:0.29, C:0.30, G:0.27, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Done.