Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 41 of 213
Found at i:10966109 original size:17 final size:17
Alignment explanation
Indices: 10966084--10966117 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10966074 GGCGCAGGGC
*
10966084 TTTGCTTTAGTTTAGGT
1 TTTGCTTTAGTATAGGT
*
10966101 TTTGTTTTAGTATAGGT
1 TTTGCTTTAGTATAGGT
10966118 AATAGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.24, T:0.59
Consensus pattern (17 bp):
TTTGCTTTAGTATAGGT
Found at i:10966704 original size:24 final size:24
Alignment explanation
Indices: 10966627--10966691 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
10966617 GAGTTTCTTT
* *
10966627 TATTATTATTTTAAGTTTTA-TATG
1 TATTATTATTTGAA-ATTTACTATG
10966651 TATTATTATTTGAAATTTACTATG
1 TATTATTATTTGAAATTTACTATG
10966675 TATTATTATTT-AAATTT
1 TATTATTATTTGAAATTT
10966692 GACATAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 10 0.26
24 28 0.74
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTATTATTTGAAATTTACTATG
Found at i:10977437 original size:13 final size:15
Alignment explanation
Indices: 10977402--10977438 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10977392 TATGCTTACT
10977402 TATATATTTATATACA
1 TATAT-TTTATATACA
10977418 TATATTTTATATA-A
1 TATATTTTATATACA
10977432 TA-ATTTT
1 TATATTTT
10977439 GAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 3 0.14
15 8 0.38
16 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATACA
Found at i:10977910 original size:109 final size:109
Alignment explanation
Indices: 10977711--10978806 Score: 1863
Period size: 109 Copynumber: 10.1 Consensus size: 109
10977701 TACGCGTACT
* *
10977711 AATATCCTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCTTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
10977776 CAAATGTGCTGGGTTTCTATATTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
10977820 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
10977885 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
10977929 AATATCCTTTCAAAAATTCCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
10977994 CAAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * *
10978038 AATATCCTTTTAAAAATTTCAAAATAAGGCATTGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
10978103 CTAATGTGCTGGGTTTCAATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
10978147 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
10978212 CTAATGTGATGGGTTTCGAGTTTTCTCGTTCGACAAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
10978256 AATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
10978321 CTAATGTGCTAGGTTTCAATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
10978365 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAATTTTGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
10978430 CAAATGTGCTGGGTTTCCATTTTTATCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * *
10978474 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCAAGAAAATGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
10978539 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
10978583 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
10978648 CTAATGTGCTGGGTTTCGATTTTTCTCATTCAACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
10978692 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
10978757 CTAATGTGCTGGGTTTTG--GTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
10978799 AATATCCT
1 AATATCCT
10978807 CCTAAATTTT
Statistics
Matches: 929, Mismatches: 58, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
107 29 0.03
109 900 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (109 bp):
AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:10982829 original size:25 final size:24
Alignment explanation
Indices: 10982783--10982829 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10982773 ACTAATATCA
* * *
10982783 CAAATCACAAATTATCATCAATGG
1 CAAAACACAAATAATCAACAATGG
10982807 CAAAACACAAAATAATCAACAAT
1 CAAAACAC-AAATAATCAACAAT
10982830 TACAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.19
Consensus pattern (24 bp):
CAAAACACAAATAATCAACAATGG
Found at i:10983558 original size:78 final size:78
Alignment explanation
Indices: 10983442--10983712 Score: 203
Period size: 78 Copynumber: 3.5 Consensus size: 78
10983432 ATCAAGGAAT
** * * *
10983442 AATCACTTAATACATGAAATGTTGGTGAAAACATGAAAAGATTTTAAAAAAAATTAAGTAATTCG
1 AATCACTTAATACATGAAATGTTACTGAAAACATGAAAAAAGTTTAAAAAAAATTAAATAATTCG
10983507 TAAATCATAAACG
66 TAAATCATAAACG
* ** ** * *
10983520 AATCACTTAATACATGAAATGTTACTTAAAATGTGAAAAAAGTTTCTAAGAAATTAAATAATTCT
1 AATCACTTAATACATGAAATGTTACTGAAAACATGAAAAAAGTTTAAAAAAAATTAAATAATTCG
*
10983585 TAAATCATGTAA--
66 TAAATCAT-AAACG
* * * *** ** * * *
10983597 AATTACTTAAAACAT-AAACGATTA-TGTAAAACATG-AAGTGGTTTCTAAGAAATTAAGTTATT
1 AATCACTTAATACATGAAATG-TTACTG-AAAACATGAAAAAAGTTTAAAAAAAATTAAATAATT
*
10983659 CCTAAATCATGAAA-G
64 CGTAAATCAT-AAACG
* * * *
10983674 AATTACTTAATCCATTAAATGTTACTTAAAACATGAAAA
1 AATCACTTAATACATGAAATGTTACTGAAAACATGAAAA
10983713 GGCTTCCAAG
Statistics
Matches: 155, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
76 39 0.25
77 46 0.30
78 68 0.44
79 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (78 bp):
AATCACTTAATACATGAAATGTTACTGAAAACATGAAAAAAGTTTAAAAAAAATTAAATAATTCG
TAAATCATAAACG
Found at i:10983668 original size:154 final size:154
Alignment explanation
Indices: 10983469--10983846 Score: 424
Period size: 154 Copynumber: 2.4 Consensus size: 154
10983459 AATGTTGGTG
* * * *
10983469 AAAACATGAAAAGATTT-TAAAAAAAATTAAGTAATTCGTAAATCAT-AAACGAATCACTTAATA
1 AAAACATGAAATGATTTCT--AAGAAATTAAGTAATTCCTAAATCATGAAA-GAATTACTTAATA
** * * * *
10983532 CATGAAATGTTACTTAAAATGTGAAAAAAGTTTCTAAGAAATTAAATAATTC-TTAAATCATGTA
63 CATGAAATGTTACTTAAAACATG-AAAAAGCTTCCAAGAAATTAAATAATTCATAAAATCA-GAA
*
10983596 AA-ATTACTTAAAACATAAACGATTA-TGT
126 AATATTACTTAAAACATAAAAGATTACT-T
* * * *
10983624 AAAACATGAAGTGGTTTCTAAGAAATTAAGTTATTCCTAAATCATGAAAGAATTACTTAATCCAT
1 AAAACATGAAATGATTTCTAAGAAATTAAGTAATTCCTAAATCATGAAAGAATTACTTAATACAT
* * * *
10983689 TAAATGTTACTTAAAACATGAAAAGGCTTCCAAGAAATTAATTAATTCATAAAATTAGAAAATAT
66 GAAATGTTACTTAAAACATGAAAAAGCTTCCAAGAAATTAAATAATTCATAAAATCAGAAAATAT
* * **
10983754 TACTTAATATATAAAATTTTACTT
131 TACTTAAAACATAAAAGATTACTT
* * * *
10983778 AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAATCATGGAAGAATTACTTAATATAT
1 AAAACATGAAATGATTTCTAAGAAATTAAGTAATTCCTAAATCATGAAAGAATTACTTAATACAT
10983843 GAAA
66 GAAA
10983847 CAACTTGCAT
Statistics
Matches: 186, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
153 28 0.15
154 139 0.75
155 18 0.10
156 1 0.01
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (154 bp):
AAAACATGAAATGATTTCTAAGAAATTAAGTAATTCCTAAATCATGAAAGAATTACTTAATACAT
GAAATGTTACTTAAAACATGAAAAAGCTTCCAAGAAATTAAATAATTCATAAAATCAGAAAATAT
TACTTAAAACATAAAAGATTACTT
Found at i:10983724 original size:77 final size:77
Alignment explanation
Indices: 10983446--10983894 Score: 367
Period size: 77 Copynumber: 5.8 Consensus size: 77
10983436 AGGAATAATC
* ** * * * *
10983446 ACTTAATACATGAAATGTTGGTGAAAACATGAAAAGATTT-TAAAAAAAATTAAGTAATTCGTAA
1 ACTTAATACATTAAATGTTACTTAAAACATGAAAAGGTTTCT--AAGAAATTAAGTAATTCCTAA
*
10983510 ATCAT-AAACGAATC
64 ATCATGAAA-GAATT
* ** * * *
10983524 ACTTAATACATGAAATGTTACTTAAAATGTGAAAAAAGTTTCTAAGAAATTAAATAATTCTTAAA
1 ACTTAATACATTAAATGTTACTTAAAACATG-AAAAGGTTTCTAAGAAATTAAGTAATTCCTAAA
*
10983589 TCATGTAA-AATT
65 TCATGAAAGAATT
* * ** *
10983601 ACTTAAAACA-TAAACGATTA-TGTAAAACATGAAGTGGTTTCTAAGAAATTAAGTTATTCCTAA
1 ACTTAATACATTAAATG-TTACT-TAAAACATGAAAAGGTTTCTAAGAAATTAAGTAATTCCTAA
10983664 ATCATGAAAGAATT
64 ATCATGAAAGAATT
* * * * *
10983678 ACTTAATCCATTAAATGTTACTTAAAACATGAAAAGGCTTCCAAGAAATTAATTAATTCATAAAA
1 ACTTAATACATTAAATGTTACTTAAAACATGAAAAGGTTTCTAAGAAATTAAGTAATTCCT-AAA
*
10983743 TTA-GAAA-ATATT
65 TCATGAAAGA-ATT
* * * * * * *
10983755 ACTTAATATATAAAATTTTACTTAAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAAT
1 ACTTAATACATTAAATGTTACTTAAAACATGAAAAGGTTTCTAAGAAATTAAGTAATTCCTAAAT
*
10983820 CATGGAAGAATT
66 CATGAAAGAATT
* * ** ** * * * *
10983832 ACTTAATATATGAAA--CAACTTGCATCATGAAATGGTTTCTAAGAAATTAAATAATTTCTAAAT
1 ACTTAATACATTAAATGTTACTTAAAACATGAAAAGGTTTCTAAGAAATTAAGTAATTCCTAAAT
10983895 TACAAAAGAA
Statistics
Matches: 299, Mismatches: 60, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
75 38 0.13
76 45 0.15
77 145 0.48
78 61 0.20
79 9 0.03
80 1 0.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (77 bp):
ACTTAATACATTAAATGTTACTTAAAACATGAAAAGGTTTCTAAGAAATTAAGTAATTCCTAAAT
CATGAAAGAATT
Found at i:10983789 original size:19 final size:19
Alignment explanation
Indices: 10983747--10983789 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
10983737 ATAAAATTAG
* *
10983747 AAAATATTACTTAATATAT
1 AAAATATTACTTAAAACAT
*
10983766 AAAATTTTACTTAAAACAT
1 AAAATATTACTTAAAACAT
*
10983785 GAAAT
1 AAAAT
10983790 GATTTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATATTACTTAAAACAT
Found at i:10984261 original size:41 final size:41
Alignment explanation
Indices: 10984163--10984307 Score: 109
Period size: 41 Copynumber: 3.5 Consensus size: 41
10984153 AGACTTCGAA
** * *
10984163 GAAGCTTGATAGGCTCAAGG-CCTGATATGATACATCGGCAC
1 GAAGCTTGATAGGCTCAAGGCCCAAAAAT-ATACACCGGCAC
* * * *
10984204 AAAGCCT-ACTAAGCTCAAGGCCCAAAAATATATACCGGCAC
1 GAAGCTTGA-TAGGCTCAAGGCCCAAAAATATACACCGGCAC
* * *
10984245 GAAGCTTGATAGGCTCAAAGCCTAATACA-ATACACCGGCAC
1 GAAGCTTGATAGGCTCAAGGCCCAA-AAATATACACCGGCAC
* *
10984286 GAA-ATCTGCTAGGCTCAAGGCC
1 GAAGCT-TGATAGGCTCAAGGCC
10984308 TGATATGATA
Statistics
Matches: 81, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
40 2 0.02
41 71 0.88
42 8 0.10
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.18
Consensus pattern (41 bp):
GAAGCTTGATAGGCTCAAGGCCCAAAAATATACACCGGCAC
Found at i:10985551 original size:25 final size:26
Alignment explanation
Indices: 10985499--10985551 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
10985489 ATTTTCTCAA
* *
10985499 GATTTTACTAGGGGTAAAATTGTCAT
1 GATTTTACCAGGGGTAAAATTGGCAT
*
10985525 GATTTTACCA-GGGTAAAATTGGGAT
1 GATTTTACCAGGGGTAAAATTGGCAT
10985550 GA
1 GA
10985552 GAAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (26 bp):
GATTTTACCAGGGGTAAAATTGGCAT
Found at i:10988273 original size:24 final size:23
Alignment explanation
Indices: 10988217--10988375 Score: 127
Period size: 24 Copynumber: 7.0 Consensus size: 23
10988207 TATACATAAA
* *
10988217 AATAGTATATGATAGATCT-AAAT
1 AATAGTA-ATGATAAATTTAAAAT
*
10988240 AAT-G-ATATGATAAGTTTAAAAT
1 AATAGTA-ATGATAAATTTAAAAT
* *
10988262 TATAGTACATGATAAATTTCAAAT
1 AATAGTA-ATGATAAATTTAAAAT
*
10988286 TATCATGT-ATGATAAATTT-AAAT
1 AAT-A-GTAATGATAAATTTAAAAT
*
10988309 AATATTAATGAT-AATTTAAAAT
1 AATAGTAATGATAAATTTAAAAT
10988331 AATAGT-AT-ATTAAATATTAAAAT
1 AATAGTAATGA-TAAAT-TTAAAAT
*
10988354 AATACTAATGATAAATTTAAAA
1 AATAGTAATGATAAATTTAAAA
10988376 CAATGTTAAG
Statistics
Matches: 113, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
20 1 0.01
21 19 0.17
22 25 0.22
23 28 0.25
24 36 0.32
25 2 0.02
26 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (23 bp):
AATAGTAATGATAAATTTAAAAT
Found at i:10988400 original size:46 final size:44
Alignment explanation
Indices: 10988298--10988406 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 44
10988288 TCATGTATGA
* *
10988298 TAAAT-TTAAATAATATTAATGATAATTTAAAATAATAGTATAT
1 TAAATATTAAATAATACTAATGATAATTTAAAACAATAGTATAT
10988341 TAAATATTAAAATAATACTAATGATAAATTTAAAACAAT-GT-TAAGCT
1 TAAATATT-AAATAATACTAATGAT-AATTTAAAACAATAGTAT-A--T
10988388 TAAATATTAAATAATACTA
1 TAAATATTAAATAATACTA
10988407 GATTTAAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
43 5 0.09
44 3 0.05
45 18 0.31
46 23 0.40
47 9 0.16
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (44 bp):
TAAATATTAAATAATACTAATGATAATTTAAAACAATAGTATAT
Found at i:10995529 original size:17 final size:17
Alignment explanation
Indices: 10995492--10995529 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
10995482 GTTTTACCAT
10995492 TTTTGGAGTATGACTTGG
1 TTTTGGAGTATGAC-TGG
10995510 TTTTGAGAGTATGA-TGG
1 TTTTG-GAGTATGACTGG
10995527 TTT
1 TTT
10995530 ACGGAGTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (17 bp):
TTTTGGAGTATGACTGG
Found at i:11000833 original size:30 final size:29
Alignment explanation
Indices: 11000797--11000864 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
11000787 TGAATGTAAG
*
11000797 AACTAAATTTACT-AATATAAAAAATATAAA
1 AACTAAATTTAATCAA-AT-AAAAATATAAA
* *
11000827 AACTAAAATTAATCAAATAAAAGTATAAA
1 AACTAAATTTAATCAAATAAAAATATAAA
*
11000856 AATTAAATT
1 AACTAAATT
11000865 CATAACTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 17 0.53
30 13 0.41
31 2 0.06
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (29 bp):
AACTAAATTTAATCAAATAAAAATATAAA
Found at i:11001056 original size:14 final size:14
Alignment explanation
Indices: 11001037--11001068 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11001027 AGGTCATTTA
11001037 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11001051 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11001065 GCCC
1 GCCC
11001069 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:11006181 original size:14 final size:14
Alignment explanation
Indices: 11006162--11006193 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11006152 AGGTCATTTA
11006162 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11006176 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11006190 GCCC
1 GCCC
11006194 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:11011874 original size:146 final size:146
Alignment explanation
Indices: 11011582--11011878 Score: 531
Period size: 146 Copynumber: 2.0 Consensus size: 146
11011572 GAAAATTTCC
11011582 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
1 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
* *
11011647 AGTCCAAATTTCTGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAAATTTTTGTTGGGTCAAG
66 AGTCCAAATTTCAGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAAATTTTAGTTGGGTCAAG
11011712 AAGAAGCAAGCAAAAA
131 AAGAAGCAAGCAAAAA
* *
11011728 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTGAAAAGGATTGTCGATTCAAGGAAAAAGACA
1 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
* *
11011793 AGTCCAAATTTCAGTGTATTTTTTTGCCAAAAGTCTGGACATACTGACAATTTTAGTTGGGTCAA
66 AGTCCAAATTTCAGTGTA-TTTTTTGCCAAAAGTCTGGACATACTAAAAATTTTAGTTGGGTCAA
11011858 GAAGAAGCAAGCAAAAA
130 GAAGAAGCAAGCAAAAA
11011875 ACCA
1 ACCA
11011879 AGATCAATAG
Statistics
Matches: 144, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
146 80 0.56
147 64 0.44
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (146 bp):
ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
AGTCCAAATTTCAGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAAATTTTAGTTGGGTCAAG
AAGAAGCAAGCAAAAA
Found at i:11014978 original size:36 final size:35
Alignment explanation
Indices: 11014931--11015050 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 35
11014921 TATTCCAACT
* *
11014931 GAAACACACCAGATGATCATAAGAGCTAATCCATCC
1 GAAACACACCAGATGCTCATAAGAGCTAGTCCA-CC
*
11014967 GAAACACACCAGATGCTCATAAGAGCCAGTCCACC
1 GAAACACACCAGATGCTCATAAGAGCTAGTCCACC
*
11015002 TGATAACATACCA-ATGGCTCCA-AAGAGCTAGTCCAACC
1 -GA-AACACACCAGAT-GCT-CATAAGAGCTAGTCC-ACC
11015040 GAAACACACCA
1 GAAACACACCA
11015051 AAACATAGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
35 2 0.03
36 42 0.58
37 24 0.33
38 5 0.07
ACGTcount: A:0.40, C:0.31, G:0.15, T:0.14
Consensus pattern (35 bp):
GAAACACACCAGATGCTCATAAGAGCTAGTCCACC
Found at i:11017580 original size:14 final size:14
Alignment explanation
Indices: 11017561--11017587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11017551 CACTAGATAT
11017561 ATCAAAATTTAAAA
1 ATCAAAATTTAAAA
11017575 ATCAAAATTTAAA
1 ATCAAAATTTAAA
11017588 CTAAAGATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
ATCAAAATTTAAAA
Found at i:11017597 original size:19 final size:18
Alignment explanation
Indices: 11017570--11017609 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11017560 TATCAAAATT
11017570 TAAAAATCAAAATTTAAAC
1 TAAAAATC-AAATTTAAAC
* *
11017589 TAAAGATCAATTTTAAAC
1 TAAAAATCAAATTTAAAC
11017607 TAA
1 TAA
11017610 TTACAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:11019116 original size:21 final size:21
Alignment explanation
Indices: 11019079--11019121 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11019069 TTTCTTTTAT
*
11019079 ATTCAACATAAATTAAACTGA
1 ATTCAAAATAAATTAAACTGA
*
11019100 ATTCAAAATTAAA-TAAATTGA
1 ATTCAAAA-TAAATTAAACTGA
11019121 A
1 A
11019122 ATAACTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
ATTCAAAATAAATTAAACTGA
Found at i:11021063 original size:19 final size:19
Alignment explanation
Indices: 11021039--11021076 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11021029 AAAGTTAATA
11021039 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
11021058 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
11021077 GTGACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:11024474 original size:9 final size:9
Alignment explanation
Indices: 11024447--11024483 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11024437 TGAGTTTTCG
11024447 AATTCGAAT
1 AATTCGAAT
* *
11024456 AACTCAAAT
1 AATTCGAAT
11024465 AATTCGAAT
1 AATTCGAAT
11024474 AATTCGAAT
1 AATTCGAAT
11024483 A
1 A
11024484 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11025424 original size:20 final size:20
Alignment explanation
Indices: 11025399--11025438 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11025389 AATATTTTCC
*
11025399 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11025419 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11025439 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11025453 original size:34 final size:35
Alignment explanation
Indices: 11025387--11025453 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11025377 CAAACACCAG
*
11025387 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
11025422 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11025454 CATTTTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11026147 original size:5 final size:5
Alignment explanation
Indices: 11026137--11026163 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11026127 AAAATTTTTT
11026137 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
11026164 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:11031469 original size:9 final size:9
Alignment explanation
Indices: 11031440--11031506 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
11031430 GTAGTGATTC
11031440 AATTCGGTT
1 AATTCGGTT
* **
11031449 AATTTGAAT
1 AATTCGGTT
*
11031458 AATTCAGTT
1 AATTCGGTT
11031467 AATTCGGTT
1 AATTCGGTT
11031476 AATTCGGTT
1 AATTCGGTT
11031485 AATTCCGG-T
1 AATT-CGGTT
11031494 AATTCGGTT
1 AATTCGGTT
11031503 AATT
1 AATT
11031507 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 3 0.06
9 42 0.88
10 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11031472 original size:27 final size:27
Alignment explanation
Indices: 11031440--11031507 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
11031430 GTAGTGATTC
*
11031440 AATTCGGTTAATTTGAATAATTCAGTT
1 AATTCGGTTAATTTGAATAATTCAGGT
* ** *
11031467 AATTCGGTTAATTCGGTTAATTCCGGT
1 AATTCGGTTAATTTGAATAATTCAGGT
11031494 AATTCGGTTAATTT
1 AATTCGGTTAATTT
11031508 TTAACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (27 bp):
AATTCGGTTAATTTGAATAATTCAGGT
Found at i:11033961 original size:16 final size:16
Alignment explanation
Indices: 11033940--11033970 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11033930 GTCACTCTTA
11033940 ATAGGGCCACCAACAT
1 ATAGGGCCACCAACAT
11033956 ATAGGGCCACCAACA
1 ATAGGGCCACCAACA
11033971 CAATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.19, T:0.10
Consensus pattern (16 bp):
ATAGGGCCACCAACAT
Found at i:11037234 original size:25 final size:26
Alignment explanation
Indices: 11037206--11037261 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
11037196 TTATCATCCC
* *
11037206 AAAATCATGTCAATTTTA-CCCTGGT
1 AAAATCATGACAATTTTACCCCGGGT
11037231 AAAATCATGACAATTTTACCCCGGGT
1 AAAATCATGACAATTTTACCCCGGGT
11037257 AAAAT
1 AAAAT
11037262 TTTGAGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (26 bp):
AAAATCATGACAATTTTACCCCGGGT
Found at i:11038558 original size:41 final size:41
Alignment explanation
Indices: 11038501--11038610 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
11038491 TTTACTTTCA
* *
11038501 GTATCATATCAGGCCTTGAGTCTAGTAGGCTTCGTGCCGGT
1 GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
* * *
11038542 GTATCATATTAGGCCTTGCGCCTAGCAGGTTTCGTGCCGGT
1 GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
11038583 GTATCATATTAGGCCTTGAGCCTA-TAGG
1 GTATCATATTAGGCCTTGAGCCTAGTAGG
11038611 TATATATTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 3 0.05
41 59 0.95
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (41 bp):
GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
Found at i:11039097 original size:19 final size:19
Alignment explanation
Indices: 11039073--11039109 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11039063 TTAGACACCA
11039073 TTTCATG-ATTCAAGTAATG
1 TTTCATGTATT-AAGTAATG
11039092 TTTCATGTATTAAGTAAT
1 TTTCATGTATTAAGTAAT
11039110 TCTTCCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (19 bp):
TTTCATGTATTAAGTAATG
Found at i:11039129 original size:77 final size:77
Alignment explanation
Indices: 11038921--11039146 Score: 253
Period size: 77 Copynumber: 3.0 Consensus size: 77
11038911 AAGAATATTC
* * * * ** ** * * * *
11038921 TTTCATGTTTCCAGTAATATATCATGTATTAAGTTTTTCTTCTGTAATTTAGAAATTATTTAATT
1 TTTCATGATTCAAGTAATGTTTCATGTATTAAGTAATTCTTCCATGATTTTGGAATTACTTAATT
11038986 TCTTAGAAACCA
66 TCTTAGAAACCA
* * *
11038998 TTTCATGATGCAAGT--TGTTTCATATATTAAATAATTCTTCCATGATTTAT-GAATTACTTAA-
1 TTTCATGATTCAAGTAATGTTTCATGTATTAAGTAATTCTTCCATGATTT-TGGAATTACTTAAT
*
11039059 TTCTTTAGACACCA
65 TTC-TTAGAAACCA
11039073 TTTCATGATTCAAGTAATGTTTCATGTATTAAGTAATTCTTCCATGATTTTGGAATTACTTAATT
1 TTTCATGATTCAAGTAATGTTTCATGTATTAAGTAATTCTTCCATGATTTTGGAATTACTTAATT
*
11039138 TCATAGAAA
66 TCTTAGAAA
11039147 ATACAAATTA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
74 3 0.02
75 56 0.46
76 1 0.01
77 59 0.48
78 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (77 bp):
TTTCATGATTCAAGTAATGTTTCATGTATTAAGTAATTCTTCCATGATTTTGGAATTACTTAATT
TCTTAGAAACCA
Found at i:11039372 original size:16 final size:16
Alignment explanation
Indices: 11039351--11039383 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11039341 AATATATATA
11039351 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
11039367 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
11039383 T
1 T
11039384 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:11039455 original size:31 final size:30
Alignment explanation
Indices: 11039420--11039485 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
11039410 TTAAGTTTTT
*
11039420 AGTTTTAGTTTTCAATTTCATTTCCCCTGAC
1 AGTTTAAGTTTTCAATTTCATTTCCCC-GAC
11039451 AGTTTAAGTTTTCAATTTCATTTCCCCGAC
1 AGTTTAAGTTTTCAATTTCATTTCCCCGAC
11039481 A-TTTA
1 AGTTTA
11039486 CTCTTCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 4 0.12
30 4 0.12
31 26 0.76
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (30 bp):
AGTTTAAGTTTTCAATTTCATTTCCCCGAC
Found at i:11039549 original size:13 final size:14
Alignment explanation
Indices: 11039526--11039556 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11039516 TATATATTTA
11039526 TTTTTATGTTTAAG
1 TTTTTATGTTTAAG
11039540 TTTTTA-GTTTAAG
1 TTTTTATGTTTAAG
11039553 TTTT
1 TTTT
11039557 CAATTTTATT
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:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (14 bp):
TTTTTATGTTTAAG
Found at i:11039826 original size:16 final size:16
Alignment explanation
Indices: 11039805--11039843 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11039795 ATTTTGTTAC
*
11039805 AACAATTAATATAATT
1 AACAATTAATACAATT
11039821 AACAATTAATACAATT
1 AACAATTAATACAATT
*
11039837 AATAATT
1 AACAATT
11039844 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:11039934 original size:16 final size:16
Alignment explanation
Indices: 11039913--11039954 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11039903 AATAATTTGA
* *
11039913 TAATTTTACTGACAAT
1 TAATTTTAATAACAAT
11039929 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
11039945 TAGTTTTAAT
1 TAATTTTAAT
11039955 TTTATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11040149 original size:77 final size:76
Alignment explanation
Indices: 11040056--11040401 Score: 329
Period size: 77 Copynumber: 4.5 Consensus size: 76
11040046 ACAGGTTTAA
* * * *
11040056 TATTAAGTAATACTTTCTAATTTTATGAATTACTTAATTTCTTGGAAACCTTTTCATGTTTTAAG
1 TATTAAGTAATTCTTTCTGA-TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAG
*
11040121 TAACATTTAATG
65 TAACATTTCATG
* * * ** *
11040133 GATTAAGTAATTCTTTCATGATTTAGGAATAACTTAATTTCTTAGAAACCACTTCATGTTATACA
1 TATTAAGTAATTCTTTC-TGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTA-A
*
11040198 -TAATCGTTT-ATG
64 GTAA-CATTTCATG
* * * *
11040210 TTTTAAGTAATT-TTACCTGATTTAAGAATTATTTAATTTCTTAGAAACCTTTTTCACGTTTTAA
1 TATTAAGTAATTCTT-TCTGATTTAAGAATTACTTAATTTCTTAGAAACC-TTTTCATGTTTTAA
11040274 GTAACATTTCATG
64 GTAACATTTCATG
* * * * * * * * *
11040287 TATTAAGTGATTCGTTTATGATTTACGAATTGCTTAATTTTTTAAAAATCTTTTCATGTTTTCAC
1 TATTAAGTAATTC-TTTCTGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAG
*
11040352 CAACATTTCATG
65 TAACATTTCATG
* * *
11040364 TATTAAGTAATTATTCCTTGATTTAAGTAATTTCTTAA
1 TATTAAGTAATTCTTTC-TGATTTAAG-AATTACTTAA
11040402 AAAAATCATA
Statistics
Matches: 217, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
76 38 0.18
77 135 0.62
78 42 0.19
79 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (76 bp):
TATTAAGTAATTCTTTCTGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAGT
AACATTTCATG
Found at i:11040370 original size:154 final size:154
Alignment explanation
Indices: 11040077--11040401 Score: 381
Period size: 154 Copynumber: 2.1 Consensus size: 154
11040067 ACTTTCTAAT
* * *
11040077 TTTATGAATTACTTAATTTCTTGGAAACCTTTTCATGTTTTAAGTAACATTTAATGGATTAAGTA
1 TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCACGTTTTAAGTAACATTTAATGGATTAAGTA
* * * *
11040142 ATTCTTTCATGATTTAGGAATAACTTAATTTCTTAGAAACCACTTCATGTTATACATAATCGTTT
66 ATTCTTTCATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTATACACAATCATTT
*
11040207 ATGTTTTAAGTAATT-TTACC-TGA
131 ATGTATTAAGTAATTATT-CCTTGA
* * *
11040230 TTTAAGAATTATTTAATTTCTTAGAAACCTTTTTCACGTTTTAAGTAACATTTCATGTATTAAGT
1 TTTAAGAATTACTTAATTTCTTAGAAACC-TTTTCACGTTTTAAGTAACATTTAATGGATTAAGT
* ** * * ** *
11040295 GATTCGTTT-ATGATTTACGAATTGCTTAATTTTTTAAAAATCTTTTCATGTT-TTCACCAA-CA
65 AATTC-TTTCATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTATACA-CAATCA
11040357 TTTCATGTATTAAGTAATTATTCCTTGA
128 TTT-ATGTATTAAGTAATTATTCCTTGA
*
11040385 TTTAAGTAATTTCTTAA
1 TTTAAG-AATTACTTAA
11040402 AAAAATCATA
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
153 33 0.23
154 89 0.62
155 14 0.10
156 8 0.06
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (154 bp):
TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCACGTTTTAAGTAACATTTAATGGATTAAGTA
ATTCTTTCATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTATACACAATCATTT
ATGTATTAAGTAATTATTCCTTGA
Found at i:11043693 original size:14 final size:14
Alignment explanation
Indices: 11043671--11043724 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
11043661 TTAATTATCA
11043671 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
11043685 TTATGGTTTAGGGT
1 TTATAGTTTAGGGT
*
11043699 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
11043713 TTA-AGGTTTAGG
1 TTATA-GTTTAGG
11043725 AGTTACTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 1 0.03
14 34 0.97
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:11043710 original size:28 final size:28
Alignment explanation
Indices: 11043671--11043747 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
11043661 TTAATTATCA
11043671 TTATAGTTTAGGGTTTATGGTTTAGG-G
1 TTATAGTTTAGGGTTTATGGTTTAGGAG
*
11043698 TATATAGTTTAGGGTTTAAGGTTTAGGAG
1 T-TATAGTTTAGGGTTTATGGTTTAGGAG
* *
11043727 TTACTATTTTAAGGTTTATGG
1 TTA-TAGTTTAGGGTTTATGG
11043748 ATTATGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 26 0.60
29 16 0.37
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (28 bp):
TTATAGTTTAGGGTTTATGGTTTAGGAG
Found at i:11043764 original size:15 final size:14
Alignment explanation
Indices: 11043739--11043773 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11043729 ACTATTTTAA
*
11043739 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
11043753 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
11043768 GGTTTA
1 GGTTTA
11043774 AGGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:11054461 original size:24 final size:24
Alignment explanation
Indices: 11054398--11054449 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11054388 TTTATAGAAG
* * *
11054398 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11054422 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11054446 ATTT
1 ATTT
11054450 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11059870 original size:497 final size:497
Alignment explanation
Indices: 11058929--11059884 Score: 1822
Period size: 497 Copynumber: 1.9 Consensus size: 497
11058919 ATCAGGATCC
*
11058929 ATTTACAATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
1 ATTTACAATATGAAAACACATTTTCAAATGTTTGGAATCATCACACTATCGCAATATAAGAATAT
*
11058994 GGCATGTATAGCTAGACTCACACGCACTACGTTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
66 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
*
11059059 ACCAATCAAATGTAACACCCCTAGCCCGTATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
131 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
11059124 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
196 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
*
11059189 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCATATATAGATT
261 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
11059254 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
326 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
11059319 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
391 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
11059384 AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
456 AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
*
11059426 ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCACACTATCGCAATATAAGAATAT
1 ATTTACAATATGAAAACACATTTTCAAATGTTTGGAATCATCACACTATCGCAATATAAGAATAT
11059491 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
66 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
11059556 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
131 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
*
11059621 CCAAAACACAACTCAGAACAGTCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
196 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
*
11059686 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTTGCACATATAGATT
261 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
* * *
11059751 ACTTAACCAACTAAAAACCAGTCTTGCTTTACTACTTTTAATACATAAGCAATTTATTCTTTAAA
326 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
11059816 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
391 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
11059881 AATA
456 AATA
11059885 CATATACTAT
Statistics
Matches: 449, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
497 449 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (497 bp):
ATTTACAATATGAAAACACATTTTCAAATGTTTGGAATCATCACACTATCGCAATATAAGAATAT
GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
Found at i:11066022 original size:24 final size:24
Alignment explanation
Indices: 11065988--11066036 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11065978 TTTCTAGAAG
* *
11065988 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
11066012 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
11066036 A
1 A
11066037 GTTGACTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:11069046 original size:19 final size:17
Alignment explanation
Indices: 11069012--11069062 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
11069002 AAAATAAAAA
11069012 AATAACATTTTGAAATTG
1 AATAACATTTTGAAA-TG
11069030 AATAACGA-TTTGTAAATG
1 AATAAC-ATTTTG-AAATG
**
11069048 AATAATGTTTTGAAA
1 AATAACATTTTGAAA
11069063 ACGAACGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 3 0.11
18 21 0.75
19 4 0.14
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (17 bp):
AATAACATTTTGAAATG
Found at i:11070330 original size:36 final size:36
Alignment explanation
Indices: 11070264--11070335 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
11070254 GCCACTCAAC
* * *
11070264 TTTAAAATTACAACAACTAACCGATCTCTTTGCTTG
1 TTTAAAATTACAACAACTAACAGATATCTTTACTTG
* * *
11070300 TTTAAAATTACGACAAGTGACAGATATCTTTACTTG
1 TTTAAAATTACAACAACTAACAGATATCTTTACTTG
11070336 ACATATCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (36 bp):
TTTAAAATTACAACAACTAACAGATATCTTTACTTG
Found at i:11074135 original size:98 final size:98
Alignment explanation
Indices: 11073966--11074162 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
11073956 GTACAATAAA
*
11073966 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
11074031 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
*
11074064 ACTTTAAAAGAACATCCACTTATCCAAGATTTAATAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
11074129 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
11074162 A
1 A
11074163 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:11074890 original size:17 final size:17
Alignment explanation
Indices: 11074857--11074892 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11074847 AAAATATAGG
* *
11074857 AAAATATTAGTTTAAAA
1 AAAATATTAGCTGAAAA
11074874 AAAATATTAGCTGAAAA
1 AAAATATTAGCTGAAAA
11074891 AA
1 AA
11074893 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAATATTAGCTGAAAA
Found at i:11075519 original size:19 final size:19
Alignment explanation
Indices: 11075495--11075569 Score: 87
Period size: 19 Copynumber: 3.8 Consensus size: 19
11075485 AATCATATAT
11075495 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
11075514 TCTAAGATTATATATATCATA
1 TCTAAGA-T-TGCATATCATA
**
11075535 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11075554 TTTAAGATTGCATATC
1 TCTAAGATTGCATATC
11075570 CTTAAAAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 29 0.64
20 2 0.04
21 14 0.31
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11075549 original size:21 final size:21
Alignment explanation
Indices: 11075472--11075568 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 21
11075462 AAATTAAATC
*
11075472 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTACATATATC--ATA
*
11075494 TTCTAAGATTGC--ATATCATA
1 -TCTAAGATTACATATATCATA
*
11075514 TCTAAGATTATATATATCATA
1 TCTAAGATTACATATATCATA
** *
11075535 TCTTGGATTGC--ATATCATA
1 TCTAAGATTACATATATCATA
* *
11075554 TTTAAGATTGCATAT
1 TCTAAGATTACATAT
11075569 CCTTAAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 25 0.42
20 3 0.05
21 17 0.29
22 4 0.07
23 10 0.17
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
TCTAAGATTACATATATCATA
Found at i:11075850 original size:45 final size:44
Alignment explanation
Indices: 11075745--11076090 Score: 291
Period size: 44 Copynumber: 7.9 Consensus size: 44
11075735 TGCCATCTTC
**
11075745 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTATTT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAATTT
11075789 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA-TTT
* *
11075834 AGTCTTCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTT
* * * ** *
11075878 CAGTTTGCCCCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCCAATTT
* *
11075923 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG---A-TG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTT
* * * ****
11075963 CGATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTGAGGTTTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCAATTT
* * * *
11076007 AATCCGCTCCACTGCAACTTCAGGGAGAT-AGAACTAT-CGACTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ACT-TGCCAATTT
* * * *
11076051 AATCTGCTCCATTGCTATTTCAGGGAGATAAGACTTGCCA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCA
11076091 TCTTCGATTT
Statistics
Matches: 248, Mismatches: 37, Indels: 34
0.78 0.12 0.11
Matches are distributed among these distances:
39 1 0.00
40 25 0.10
41 7 0.03
43 8 0.03
44 121 0.49
45 86 0.35
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTT
Found at i:11075925 original size:89 final size:89
Alignment explanation
Indices: 11075735--11075957 Score: 283
Period size: 89 Copynumber: 2.5 Consensus size: 89
11075725 TAGGAATTAG
* ** *
11075735 TGCC-ATCTTCAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTC
1 TGCCAATCTT-AGTCTGCTC-CACTGCAACTTCAGGAAGATAAGACTTGCCAATTTAGTCTGCCC
11075798 CACTGCAACTTCAGGGAGATAAGACT
64 CACTGCAACTTCAGGGAGATAAGACT
* * *
11075824 TGCCAATTTTAGTCTTCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTTCAGTTTGCCCC
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTT-AGTCTGCCCC
*
11075889 ACTGTAACTTCA-GGAGGATAAGACT
65 ACTGCAACTTCAGGGA-GATAAGACT
** *
11075914 TGCTTA-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACT
11075958 AGATGCGATC
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
89 80 0.68
90 37 0.32
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (89 bp):
TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTTAGTCTGCCCCA
CTGCAACTTCAGGGAGATAAGACT
Found at i:11075996 original size:134 final size:132
Alignment explanation
Indices: 11075742--11075995 Score: 363
Period size: 134 Copynumber: 1.9 Consensus size: 132
11075732 TAGTGCCATC
* *
11075742 TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
* *** *
11075807 TTCAGGGAGATAAGACTTGCCAATTTTAGTCTTCTCCACTGCAACTTCAGGAAGATAAGACTTGC
66 TTCAGGGAGATAAGACTAG-C-ATGCGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGC
11075872 CAAT
129 CAAT
* *
11075876 TTCAGTTTGCCCCACTGTAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
*
11075941 TTCAGGGAGATAAGACTAG-ATGCGA-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGA
66 TTCAGGGAGATAAGACTAGCATGCGAGTCTGCTCCACTGCAACTTCAGGA-AGATAAGA
11075996 TCTGAGGTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
128 2 0.02
129 20 0.18
130 5 0.05
131 3 0.03
134 79 0.72
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTAGCATGCGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCA
AT
Found at i:11106219 original size:41 final size:41
Alignment explanation
Indices: 11106162--11106427 Score: 421
Period size: 41 Copynumber: 6.5 Consensus size: 41
11106152 GACTTTATGT
11106162 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11106203 CTAGCAGGCTAAGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
11106244 CTAGCAGGCT-AGTGTCGGTGATCTGAATCAGGCTATCAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
11106284 CTAGCAAGCT-AGTGTCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11106324 CTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11106365 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
*
11106406 CTAGCAGGCTAAGTGTCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
11106428 ATATGTTAAA
Statistics
Matches: 209, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 74 0.35
41 135 0.65
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:11112889 original size:17 final size:17
Alignment explanation
Indices: 11112856--11112889 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11112846 TTGTGTTTTG
*
11112856 TGCAAAAAGGACTAAAT
1 TGCAAAAAGGACAAAAT
*
11112873 TGCAAAAAGTACAAAAT
1 TGCAAAAAGGACAAAAT
11112890 GTTAGGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGACAAAAT
Found at i:11114229 original size:40 final size:41
Alignment explanation
Indices: 11114168--11114351 Score: 284
Period size: 40 Copynumber: 4.5 Consensus size: 41
11114158 GACTTTATGT
* *
11114168 CTAGCAGGCTCAGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11114209 CTAGTAGGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11114249 CTAGCAAGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11114289 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
*
11114330 CTAGTAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
11114352 ATATGTTAAA
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
40 78 0.58
41 56 0.42
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:11119511 original size:22 final size:22
Alignment explanation
Indices: 11119486--11119528 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11119476 TATGAGTATA
11119486 AATTCATAATATAA-TTAATTTT
1 AATT-ATAATATAATTTAATTTT
* *
11119508 AATTTTAATCTAATTTAATTT
1 AATTATAATATAATTTAATTT
11119529 GGGTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATAATATAATTTAATTTT
Found at i:11120073 original size:18 final size:20
Alignment explanation
Indices: 11120050--11120089 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
11120040 ATTTGTGATG
*
11120050 TTAATAT-GTTTAA-TTTAA
1 TTAATATGGTCTAATTTTAA
11120068 TTAATATGGTCTAATTTTAA
1 TTAATATGGTCTAATTTTAA
11120088 TT
1 TT
11120090 CGTGTTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
TTAATATGGTCTAATTTTAA
Found at i:11136759 original size:33 final size:33
Alignment explanation
Indices: 11136689--11136933 Score: 235
Period size: 33 Copynumber: 7.5 Consensus size: 33
11136679 ATATAAAGGG
*
11136689 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
*
11136716 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
* * * *
11136749 GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGC
11136791 GGTTGCTAAGTGCTGATTCCCCG-A--A--GG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
11136818 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
*
11136851 GGTTGTTAAGTGCTGATTCCCCGAATCATTGGC
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
* *
11136884 GGTTGTTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
*
11136917 TGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
11136934 CCCACCGTAT
Statistics
Matches: 186, Mismatches: 11, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
27 45 0.24
28 3 0.02
30 1 0.01
31 2 0.01
32 4 0.02
33 98 0.53
34 4 0.02
35 1 0.01
37 1 0.01
38 2 0.01
39 1 0.01
41 3 0.02
42 21 0.11
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
Found at i:11136861 original size:102 final size:102
Alignment explanation
Indices: 11136684--11136870 Score: 347
Period size: 102 Copynumber: 1.8 Consensus size: 102
11136674 ATTGAATATA
*
11136684 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
11136749 GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTG
*
11136786 AAGGGGGTTGCTAAGTGCTGATTCCCCGAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
*
11136851 GGTTGTTAAGTGCTGATTCC
66 GGTTGATAAGTGCTGATTCC
11136871 CCGAATCATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 82 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:11137064 original size:76 final size:75
Alignment explanation
Indices: 11136884--11137091 Score: 281
Period size: 76 Copynumber: 2.8 Consensus size: 75
11136874 AATCATTGGC
* * * *
11136884 GGTTGTTAAGTGCTGATTCCCCGAATCATTGGTTGTTGCTAAGTGCTGATCCCACCGTATTTTAA
1 GGTTGATAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAA
11136949 ATGTGAAAGG
66 ATGTGAAAGG
* * * * *
11136959 GGTTGCTAAGTGCTAATTCCTCGATTCACTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTTG
1 GGTTGATAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTA-TTTTA
11137024 AATGTGAAAGG
65 AATGTGAAAGG
* * * * *
11137035 GGTTGATAAGTCCTGATTCCCCAAATCACTGGTGGTTACTAAGTTCTGAATCCACCG
1 GGTTGATAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCG
11137092 ATAACGGACA
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
75 52 0.45
76 63 0.55
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (75 bp):
GGTTGATAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAA
ATGTGAAAGG
Found at i:11140858 original size:14 final size:14
Alignment explanation
Indices: 11140839--11140867 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11140829 ACGTCTCTCC
11140839 ATACTTTCTCCTGG
1 ATACTTTCTCCTGG
11140853 ATACTTTCTCCTGG
1 ATACTTTCTCCTGG
11140867 A
1 A
11140868 AGTAGCACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (14 bp):
ATACTTTCTCCTGG
Found at i:11145599 original size:5 final size:5
Alignment explanation
Indices: 11145589--11145620 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11145579 TGTAACACTA
11145589 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
11145621 AGTAGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:11153441 original size:18 final size:19
Alignment explanation
Indices: 11153404--11153446 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
11153394 TTATATTATT
*
11153404 TTAAAAAATATATAATACA
1 TTAAAAAATATATAAAACA
11153423 -TAAAAAATACTA-AAAACA
1 TTAAAAAATA-TATAAAACA
11153441 TTAAAA
1 TTAAAA
11153447 TAAAATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (19 bp):
TTAAAAAATATATAAAACA
Found at i:11165794 original size:4 final size:4
Alignment explanation
Indices: 11165785--11165809 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11165775 GTTTGATTAT
11165785 ACTA ACTA ACTA ACTA ACTA ACTA A
1 ACTA ACTA ACTA ACTA ACTA ACTA A
11165810 AATTTGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACTA
Found at i:11167824 original size:74 final size:72
Alignment explanation
Indices: 11167725--11168051 Score: 248
Period size: 73 Copynumber: 4.5 Consensus size: 72
11167715 TATGAGTAAG
* ** **
11167725 GCCAAATCCCTCAAGAGATTAAATCAAAACAAGCATTTTATGTTCCAAAAATTTGCTCTCACTTA
1 GCCAAATCCCTCAAGGGATGCAATCAAGTCAA-CATTTTAT-TTCCAAAAATTTGCTCTCACTTA
* *
11167790 ATTAATAAA
64 ATTAGTAGA
* * * * * * *
11167799 GCCAAATCCCTCAGGGGATGCAATCAAGTCAACAATTTGATTTCCACAGACTTGTTCTCACTCAA
1 GCCAAATCCCTCAAGGGATGCAATCAAGTCAAC-ATTTTATTTCCAAAAATTTGCTCTCACTTAA
*
11167864 TTGGTAGA
65 TTAGTAGA
* * * * *
11167872 GCCAAATCTCTTAAAGGATGCAATCAAGTCAAACATTTTGATTT-CACATAATTT-CTCCCACTT
1 GCCAAATCCCTCAAGGGATGCAATCAAGTC-AACATTTT-ATTTCCA-AAAATTTGCTCTCACTT
11167935 AATTAGTAGA
63 AATTAGTAGA
* * * * * * * *
11167945 GCCAAATCCCTTAAAGGATGTAATCAAATTAAACACTTTGACTTT-CACAAACTTGCTCTCACTT
1 GCCAAATCCCTCAAGGGATGCAATC-AAGTCAACA-TTTTA-TTTCCAAAAATTTGCTCTCACTT
*
11168009 AA-TCGATAGA
63 AATTAG-TAGA
* * *
11168019 GCTAAATCCCTTAAGGGATACAATCAAGTCAAC
1 GCCAAATCCCTCAAGGGATGCAATCAAGTCAAC
11168052 CAATTCAGCC
Statistics
Matches: 200, Mismatches: 44, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
73 112 0.56
74 88 0.44
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (72 bp):
GCCAAATCCCTCAAGGGATGCAATCAAGTCAACATTTTATTTCCAAAAATTTGCTCTCACTTAAT
TAGTAGA
Found at i:11167877 original size:73 final size:72
Alignment explanation
Indices: 11167781--11168056 Score: 277
Period size: 73 Copynumber: 3.8 Consensus size: 72
11167771 AAAAATTTGC
** * * **
11167781 TCTCACTTAATTAATAAAGCCAAATCCCTCAGGGGATGCAATCAAGTCAACAATTTGATTTCCAC
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAACAATTTGATTT-CAC
*
11167846 AGACTTGT
65 AAACTTGT
* * *
11167854 TCTCACTCAATTGGTAGAGCCAAATCTCTTAAAGGATGCAATCAAGTCAAACATTTTGATTTCAC
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTC-AACAATTTGATTTCAC
11167919 ATAA-TT-T
65 A-AACTTGT
* * * * * *
11167926 CTCCCACTTAATTAGTAGAGCCAAATCCCTTAAAGGATGTAATCAAATTAAACACTTTGACTTTC
1 -TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATC-AAGTCAACAATTTGA-TTTC
*
11167991 ACAAACTTGC
63 ACAAACTTGT
* * * * *
11168001 TCTCACTTAATCGATAGAGCTAAATCCCTTAAGGGATACAATCAAGTCAACCAATT
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAA-CAATT
11168057 CAGCCTGACA
Statistics
Matches: 165, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
72 1 0.01
73 100 0.61
74 64 0.39
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (72 bp):
TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAACAATTTGATTTCACA
AACTTGT
Found at i:11167925 original size:147 final size:147
Alignment explanation
Indices: 11167774--11168050 Score: 351
Period size: 147 Copynumber: 1.9 Consensus size: 147
11167764 ATGTTCCAAA
* ** *
11167774 AATTTGCTCTCACTTAATTAATAAAGCCAAATCCCTCAGGGGATGCAATC-AAGTCAACAATTTG
1 AATTT-CTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTG
* * * * * *
11167838 A-TTTCCACAGACTTGTTCTCACTCAATTGGTAGAGCCAAATCTCTTAAAGGATGCAATCAAGTC
65 ACTTT-CACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTC
11167902 AAACATTTTGATTTCACAT
129 AAACATTTTGATTTCACAT
* * * * * *
11167921 AATTTCTCCCACTTAATTAGTAGAGCCAAATCCCTTAAAGGATGTAATCAAATTAAACACTTTGA
1 AATTTCTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTGA
* * *
11167986 CTTTCACAAACTTGCTCTCACTTAATCGATAGAGCTAAATCCCTTAAGGGATACAATCAAGTCAA
66 CTTTCACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTCAA
11168051 CCAATTCAGC
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
146 37 0.34
147 69 0.63
148 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (147 bp):
AATTTCTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTGA
CTTTCACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTCAA
ACATTTTGATTTCACAT
Found at i:11172838 original size:20 final size:20
Alignment explanation
Indices: 11172782--11172838 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
11172772 AAATTATAAA
*
11172782 AAAAATAATT-TTTAAAATT
1 AAAAATATTTATTTAAAATT
**
11172801 AAAAATATTTATAAAAAATT
1 AAAAATATTTATTTAAAATT
*
11172821 CAAAAT-TTATATTTAAAA
1 AAAAATATT-TATTTAAAA
11172839 ATTATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATATTTATTTAAAATT
Found at i:11173345 original size:24 final size:24
Alignment explanation
Indices: 11173318--11173369 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11173308 TTAGTAAGCC
* *
11173318 AAATAAACTATATTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11173342 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11173366 AAAT
1 AAAT
11173370 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11175314 original size:24 final size:24
Alignment explanation
Indices: 11175287--11175338 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11175277 TTAGTAAGCC
*
11175287 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11175311 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11175335 AAAT
1 AAAT
11175339 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11191597 original size:8 final size:8
Alignment explanation
Indices: 11191584--11191613 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
11191574 GAAAAAAAAA
11191584 AGAGAGAC
1 AGAGAGAC
11191592 AGAGAGAC
1 AGAGAGAC
11191600 AGAGAGAC
1 AGAGAGAC
11191608 AGAGAG
1 AGAGAG
11191614 GAATGACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.40, T:0.00
Consensus pattern (8 bp):
AGAGAGAC
Found at i:11195655 original size:26 final size:26
Alignment explanation
Indices: 11195626--11195681 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
11195616 TTGACAAAAA
**
11195626 TATTCTAAAAATTAAATTTTTATTTT
1 TATTCTAAAAATTAAATTTAAATTTT
* * *
11195652 TATTTTTAAATTTAAATTTAAATTTT
1 TATTCTAAAAATTAAATTTAAATTTT
11195678 TATT
1 TATT
11195682 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
TATTCTAAAAATTAAATTTAAATTTT
Found at i:11206297 original size:13 final size:13
Alignment explanation
Indices: 11206279--11206303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11206269 AAAACCCACA
11206279 TTTTAAATAAGAT
1 TTTTAAATAAGAT
11206292 TTTTAAATAAGA
1 TTTTAAATAAGA
11206304 CTTACTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTAAATAAGAT
Found at i:11220790 original size:159 final size:160
Alignment explanation
Indices: 11220493--11220820 Score: 640
Period size: 159 Copynumber: 2.1 Consensus size: 160
11220483 AACTCATAAT
*
11220493 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
1 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTCACA
11220558 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
66 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
11220623 GGAAACTAGACTAAATAATATTTAATTCCA
131 GGAAACTAGACTAAATAATATTTAATTCCA
11220653 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTCACA
1 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTCACA
11220718 TTGTCTCAC-AAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
66 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
11220782 GGAAACTAGACTAAATAATATTTAATTCCA
131 GGAAACTAGACTAAATAATATTTAATTCCA
11220812 TATTTTTCT
1 TATTTTTCT
11220821 CATCCTCTAA
Statistics
Matches: 167, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
159 94 0.56
160 73 0.44
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (160 bp):
TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTCACA
TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
GGAAACTAGACTAAATAATATTTAATTCCA
Found at i:11221700 original size:29 final size:30
Alignment explanation
Indices: 11221643--11221710 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
11221633 CACCCTTAAA
** * *
11221643 ATATTTACACCTTTGGTCCTTCAACTTTTC
1 ATATTTACACCTTTAATCCCTCAAATTTTC
*
11221673 ATATTTACA-CTTTAATCCCTCAAATTTTG
1 ATATTTACACCTTTAATCCCTCAAATTTTC
11221702 AGTATTTAC
1 A-TATTTAC
11221711 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATTTACACCTTTAATCCCTCAAATTTTC
Found at i:11221977 original size:19 final size:21
Alignment explanation
Indices: 11221935--11221983 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
11221925 ATTCGGGCTA
11221935 TTACAAAAT-GAATTAAAGTTG
1 TTAC-AAATGGAATTAAAGTTG
11221956 TTACAAATGGAA-TAAA-TTG
1 TTACAAATGGAATTAAAGTTG
*
11221975 TTAAAAATG
1 TTACAAATG
11221984 TCAATGTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 8 0.31
21 7 0.27
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (21 bp):
TTACAAATGGAATTAAAGTTG
Found at i:11224762 original size:44 final size:44
Alignment explanation
Indices: 11224713--11224801 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
11224703 TAATACCAAC
11224713 TTTTAATCATTTATAGATCACTATTTTGAGTTATTGAAGTTGGT
1 TTTTAATCATTTATAGATCACTATTTTGAGTTATTGAAGTTGGT
11224757 TTTTAATCATTTATAGATCACTATTTTGAGTTATTGAAGTTGGT
1 TTTTAATCATTTATAGATCACTATTTTGAGTTATTGAAGTTGGT
11224801 T
1 T
11224802 GTTGCGTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.51
Consensus pattern (44 bp):
TTTTAATCATTTATAGATCACTATTTTGAGTTATTGAAGTTGGT
Found at i:11227362 original size:2 final size:2
Alignment explanation
Indices: 11227355--11227388 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11227345 AAGTTACAGC
11227355 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11227389 TTAGAGATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11232229 original size:90 final size:90
Alignment explanation
Indices: 11232059--11232303 Score: 215
Period size: 90 Copynumber: 2.7 Consensus size: 90
11232049 TTAAATTTTG
* * * * * * * * * * *
11232059 GTGAATTAATCAAGTCTGTCTCACTAGGATCACCTAAAGCTTAAGATATGAA-TCCATTAAGAAC
1 GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACT-CATTAAGAGC
* * *
11232123 ATTTAGTGGCTCATCCTATAAATTCA
65 ATCTAGTAGCTCATCCTAGAAATTCA
* * * * * *
11232149 GT-AGGTTCATCAAGTTCGTCTCAATTGGACCACCCAAACCCTGGGCTATAAACTCATTAAGAGC
1 GTGA-ATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGC
*
11232213 ATCTAGTAGTTCATCCTAGAAATTCA
65 ATCTAGTAGCTCATCCTAGAAATTCA
* * * * * *
11232239 GTGAATTAATCAAATCCGTCTTAGTAGTACCACCCAAACTCTAGGCTATGAACTCATTAAAAGCA
1 GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGCA
11232304 AGGAGATTAT
Statistics
Matches: 121, Mismatches: 31, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
89 1 0.01
90 118 0.98
91 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (90 bp):
GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGCA
TCTAGTAGCTCATCCTAGAAATTCA
Found at i:11236342 original size:26 final size:26
Alignment explanation
Indices: 11236313--11236384 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
11236303 AATTTTCTCG
11236313 AAATTTTACTGGAGGTAAAATCGTCA
1 AAATTTTACTGGAGGTAAAATCGTCA
*
11236339 AAATTTTACTAGG-GGTAAAATTGTCA
1 AAATTTTACT-GGAGGTAAAATCGTCA
* *
11236365 ATATTTTATTGGA-GTAAAAT
1 AAATTTTACTGGAGGTAAAAT
11236385 TGGGATGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.22
26 30 0.73
27 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (26 bp):
AAATTTTACTGGAGGTAAAATCGTCA
Found at i:11239320 original size:14 final size:14
Alignment explanation
Indices: 11239303--11239355 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
11239293 CAACGGTCAT
11239303 ACGACCATATTGCA
1 ACGACCATATTGCA
** * *
11239317 ACGATTAGATTCCA
1 ACGACCATATTGCA
*
11239331 ACGACCATATTGTA
1 ACGACCATATTGCA
*
11239345 ACGATCATATT
1 ACGACCATATT
11239356 TTTGTATTAC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (14 bp):
ACGACCATATTGCA
Found at i:11242593 original size:42 final size:42
Alignment explanation
Indices: 11242542--11242827 Score: 434
Period size: 42 Copynumber: 6.8 Consensus size: 42
11242532 GTTTACAAAC
* *
11242542 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
11242584 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-A
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
11242625 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
11242667 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
* * * *
11242709 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
11242751 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-ATG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
11242793 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
11242828 TTTTTTTCTA
Statistics
Matches: 224, Mismatches: 16, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
41 44 0.20
42 177 0.79
43 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:11242844 original size:42 final size:42
Alignment explanation
Indices: 11242542--11242928 Score: 417
Period size: 42 Copynumber: 9.2 Consensus size: 42
11242532 GTTTACAAAC
* * *
11242542 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGC-TTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTA-TA
* *
11242584 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTATA
* *
11242625 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTA-TA
*
11242667 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTAT-A
* * * *
11242709 AAAAATGCCACTAAAGACCATGTTCTTTAGCGGCGC-TTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTA-TA
* *
11242751 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTATA
* * * * *
11242793 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTATA
** * * * * *
11242835 CTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTATA
* * *
11242876 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTTTTATA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGC-TTTATA
11242919 CAAAAACGCC
1 -AAAAACGCC
11242929 ACTATTTTTG
Statistics
Matches: 298, Mismatches: 38, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
41 76 0.26
42 208 0.70
43 6 0.02
44 8 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTATA
Found at i:11243005 original size:14 final size:14
Alignment explanation
Indices: 11242982--11243015 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11242972 GCCCTCCTGT
*
11242982 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
11242996 AGCAACATTTCAAA
1 AGCAACATTTCAAA
11243010 AGCAAC
1 AGCAAC
11243016 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:11243307 original size:21 final size:21
Alignment explanation
Indices: 11243239--11243309 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
11243229 TTTTGCTCTG
* *
11243239 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
11243260 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
11243281 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
11243302 CTCTGCTT
1 CTCTGCTT
11243310 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:11248806 original size:11 final size:9
Alignment explanation
Indices: 11248758--11248922 Score: 69
Period size: 7 Copynumber: 19.0 Consensus size: 9
11248748 AATTGCAATG
11248758 GTAAGTTAT
1 GTAAGTTAT
11248767 GTAAGTTAT
1 GTAAGTTAT
11248776 GTAAGTTAAAT
1 GTAAGTT--AT
11248787 GT-A-TTAT
1 GTAAGTTAT
11248794 GTAAGTTAAAT
1 GTAAGTT--AT
11248805 GTAAG-T-T
1 GTAAGTTAT
11248812 GTAAGTTAT
1 GTAAGTTAT
*
11248821 -TATGTATTAT
1 GTAAG--TTAT
11248831 GTAAG-T-T
1 GTAAGTTAT
11248838 GTAAGTTAAAT
1 GTAAGTT--AT
*
11248849 GT-A-TTGT
1 GTAAGTTAT
11248856 GTAAG-T-T
1 GTAAGTTAT
11248863 GTAAGTTAAAT
1 GTAAGTT--AT
11248874 GT-A-TTAT
1 GTAAGTTAT
11248881 GTAAG-T-T
1 GTAAGTTAT
11248888 GTAAGTTAT
1 GTAAGTTAT
*
11248897 -TATGTATTAT
1 GTAAG--TTAT
11248907 GTAAG-T-T
1 GTAAGTTAT
11248914 GTAAGTTAT
1 GTAAGTTAT
11248923 TATGTATTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 60
0.65 0.03 0.32
Matches are distributed among these distances:
7 41 0.34
8 18 0.15
9 27 0.22
10 12 0.10
11 23 0.19
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:11248833 original size:19 final size:19
Alignment explanation
Indices: 11248772--11249189 Score: 82
Period size: 18 Copynumber: 21.6 Consensus size: 19
11248762 GTTATGTAAG
*
11248772 TTATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
*
11248790 TTATGTAAGTTA-AATGTAA
1 TTATGTAAGTTATTATGT-A
*
11248809 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
11248827 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
*
11248852 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
11248877 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
11248893 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
11248911 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
11248929 TTGTGTAAGTTGCAAGTTAAATGTA
1 TTATGTAAGTT---A-TT--ATGTA
* *
11248954 TTATGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
11248970 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
11248988 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
* * *
11249006 TTGTGTAAGTT-GTAAG--
1 TTATGTAAGTTATTATGTA
*
11249022 TTAT-TATG-TATTATGTAA
1 TTATGTAAGTTATTATGT-A
*
11249040 GT-TGTAAGTTATTATGTA
1 TTATGTAAGTTATTATGTA
*
11249058 TTGTGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* * *
11249083 TTATGTCAGTCA-AATGTA
1 TTATGTAAGTTATTATGTA
11249101 TTATGTAAGTTGTAAGTTAAATGTA
1 TTATGTAAG-T-T-A-TT--ATGTA
* *
11249126 TTATGTAAGTT-GTAAGTTA
1 TTATGTAAGTTATTATG-TA
*
11249145 TTATGT-A-TTATGTAAGTA
1 TTATGTAAGTTAT-TATGTA
*
11249163 --ATGTAAGTTA-AATGTA
1 TTATGTAAGTTATTATGTA
11249179 TTATGTAAGTT
1 TTATGTAAGTT
11249190 GTAAGTTATT
Statistics
Matches: 301, Mismatches: 43, Indels: 112
0.66 0.09 0.25
Matches are distributed among these distances:
14 3 0.01
15 18 0.06
16 19 0.06
17 6 0.02
18 83 0.28
19 71 0.24
20 5 0.02
21 3 0.01
22 4 0.01
23 8 0.03
24 3 0.01
25 78 0.26
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (19 bp):
TTATGTAAGTTATTATGTA
Found at i:11248837 original size:26 final size:26
Alignment explanation
Indices: 11248803--11249208 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
11248793 TGTAAGTTAA
11248803 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
11248829 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
11248854 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11248879 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11248905 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* * *
11248931 GTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11248956 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11248982 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
11249008 GTGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11249034 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
11249060 GTGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
* *
11249085 ATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
11249103 ATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11249128 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
*
11249154 ATGTAAGTAATGTAAGTTA-AATGTATT
1 ATGTAAGT--TGTAAGTTATTATGTATT
11249181 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTATTATGTATT
11249207 AT
1 AT
11249209 TTAATAAAAT
Statistics
Matches: 345, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
19 1 0.00
21 3 0.01
22 3 0.01
24 1 0.00
25 113 0.33
26 188 0.54
27 15 0.04
28 9 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (26 bp):
ATGTAAGTTGTAAGTTATTATGTATT
Found at i:11249178 original size:53 final size:51
Alignment explanation
Indices: 11248803--11249208 Score: 571
Period size: 51 Copynumber: 8.0 Consensus size: 51
11248793 TGTAAGTTAA
* *
11248803 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
11248854 GTGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * * *
11248905 ATGTAAGTTGTAAGTTATTATGTATTGTGTAAGTTGCAAGTTA-AATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
*
11248956 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* *
11249008 GTGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATT
* * *
11249060 GTGTAAGTTGTAAGTTAAATGTATTATGTCA---GTCA---A--ATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
11249103 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
11249154 ATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
11249207 AT
1 AT
11249209 TTAATAAAAT
Statistics
Matches: 324, Mismatches: 18, Indels: 24
0.89 0.05 0.07
Matches are distributed among these distances:
43 36 0.11
45 1 0.00
46 3 0.01
48 3 0.01
49 1 0.00
50 24 0.07
51 114 0.35
52 97 0.30
53 45 0.14
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (51 bp):
ATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATT
Found at i:11249201 original size:19 final size:19
Alignment explanation
Indices: 11248978--11249204 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
11248968 AGTTATTATG
11248978 TATTATGTAAGTTGTAAGT
1 TATTATGTAAGTTGTAAGT
11248997 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * * *
11249012 AAGT-TGTAAGTTATTA-T
1 TATTATGTAAGTTGTAAGT
11249029 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
11249049 TATTATGT-A-TTGT--GT
1 TATTATGTAAGTTGTAAGT
* * *
11249064 AAGT-TGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
* * *
11249080 GTATTATGTCAG-T-CAAAT
1 -TATTATGTAAGTTGTAAGT
11249098 GTATTATGTAAGTTGTAAGTTAAAT
1 -TATTATGTAAGTTGTAAG-----T
11249123 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
*
11249143 TATTATGT-ATTATGTAAG-
1 TATTATGTAAGT-TGTAAGT
*
11249161 TA--ATGTAAG-T-TAAAT
1 TATTATGTAAGTTGTAAGT
11249176 GTATTATGTAAGTTGTAAGT
1 -TATTATGTAAGTTGTAAGT
11249196 TATTATGTA
1 TATTATGTA
11249205 TTATTTAATA
Statistics
Matches: 159, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
14 10 0.06
15 12 0.08
16 10 0.06
17 12 0.08
18 36 0.23
19 51 0.32
20 8 0.05
25 20 0.13
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (19 bp):
TATTATGTAAGTTGTAAGT
Found at i:11249328 original size:73 final size:73
Alignment explanation
Indices: 11249245--11249401 Score: 305
Period size: 73 Copynumber: 2.1 Consensus size: 73
11249235 ACATTACTAA
11249245 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
11249310 TATTTTTT
66 TATTTTTT
11249318 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
11249383 TATTTTTT
66 TATTTTTT
11249391 TATATATTATT
1 TATA-ATTATT
11249402 TTATCTTTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 77 0.93
74 6 0.07
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.52
Consensus pattern (73 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTT
Found at i:11249388 original size:35 final size:35
Alignment explanation
Indices: 11249276--11249388 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
11249266 ATAAAATAAC
11249276 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
* * **** *
11249311 ATTTT-TTTATAATTATTAATAATATTTAATAAAATA-AC
1 ATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACAT
11249349 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
1 ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
11249384 ATTTT
1 ATTTT
11249389 TTTATATATT
Statistics
Matches: 57, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 11 0.19
35 17 0.30
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (35 bp):
ATTTTATTTTAATAGTCAATTTTAATATTCCACAT
Found at i:11249776 original size:34 final size:34
Alignment explanation
Indices: 11249738--11249815 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
11249728 TTCTTCCAGC
* *
11249738 ATGCAAAATCTAAATGCAAAATCATTTTTTACGG
1 ATGCAAAATCTAAATGCAAAATCAATTTTTACAG
11249772 ATGCAAAATCTAAATGCAAAATCAATTTTTACAG
1 ATGCAAAATCTAAATGCAAAATCAATTTTTACAG
*
11249806 ATGGAAAATC
1 ATGCAAAATC
11249816 ATTTTTTACG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (34 bp):
ATGCAAAATCTAAATGCAAAATCAATTTTTACAG
Found at i:11250760 original size:261 final size:261
Alignment explanation
Indices: 11250368--11251081 Score: 1150
Period size: 261 Copynumber: 2.7 Consensus size: 261
11250358 GGCGCTTCAG
* **
11250368 CTAATAAAAATAGGAAACGGCGCCGTTTCCTCAGCTATTAATA-AATATTTGTGGCGTTTTTATA
1 CTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAA-ACAATATTTGTGGCGTTTTTATA
11250432 ATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTGTGGC
65 ATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTGTGGC
*
11250497 GTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATGCGCCACTAATAT
130 GTTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATGCGCCACTAATAA
* *
11250562 CAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGTGGCGCTTTAGCTAAAGCGC
195 CAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTGTTGCGGCGCTTTAGCTAAAGCGC
11250627 CA
260 CA
* *
11250629 CTACTAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGTGGCGTTTTTAAAA
1 CTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGTGGCGTTTTTATAA
*
11250694 TGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTCTGGCG
66 TGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTGTGGCG
* *
11250759 TTTCTTCATAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAACTGCGCCACTAATAAC
131 TTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATGCGCCACTAATAAC
11250824 AAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTGTTGCGGCGCTTTAGCTAAAGCGCC
196 AAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTGTTGCGGCGCTTTAGCTAAAGCGCC
11250889 A
261 A
* * ** *
11250890 CTAATAAAAAAAGGAAACGACACCGTTTCCTCAGCTCGTGATTTGCGA-ATTTGTGGCGTTTTTA
1 CTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGT-A--AACAATATTTGTGGCGTTTTTA
* * * *
11250954 TAATGTGCCACT-AAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCAATTTGTG
63 TAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTGTG
*
11251018 GCGTTTCTTCGTAAAACGCCGGTAATATATCA-CTTTTAGCGGC-ATTTTTTAAATGCGCCACTA
128 GCGTTTCTTCGTAAAACGCCGGTAATATATCACCTTTT-GCGGCGA-TTTTCAAATGCGCCACTA
11251081 A
191 A
11251082 AAGAAAACAA
Statistics
Matches: 421, Mismatches: 26, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
260 1 0.00
261 290 0.69
262 102 0.24
263 26 0.06
264 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (261 bp):
CTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAAACAATATTTGTGGCGTTTTTATAA
TGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGAAATTTGTGGCG
TTTCTTCGTAAAACGCCGGTAATATATCACCTTTTGCGGCGATTTTCAAATGCGCCACTAATAAC
AAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTGTTGCGGCGCTTTAGCTAAAGCGCC
A
Found at i:11251149 original size:115 final size:115
Alignment explanation
Indices: 11250948--11251182 Score: 366
Period size: 115 Copynumber: 2.0 Consensus size: 115
11250938 ATTTGTGGCG
*
11250948 TTTTTATAATGTGCCACTAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCAAT
1 TTTTTATAATGCGCCACTAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCAAT
** * *
11251013 TTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCAT
66 TTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGACAT
*
11251063 TTTTTA-AATGCGCCACTAAAAGAAAACAACAAAACGGCATCGTCTTTGTCACAGTTAAAGG-AA
1 TTTTTATAATGCGCCACT-AAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCAA
* *
11251126 TTTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATGACCTTTAGCGACGT
65 -TTTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGACAT
11251178 TTTTT
1 TTTTT
11251183 CTGAAGCGCC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
114 12 0.11
115 98 0.89
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (115 bp):
TTTTTATAATGCGCCACTAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGCAAT
TTGTGGCGTTTCTTCACAAAACGCCGGTAATATATCACCTTTAGCGACAT
Found at i:11251666 original size:14 final size:13
Alignment explanation
Indices: 11251620--11251700 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 13
11251610 ATATATACCA
11251620 TAAACCTTAAA-TC
1 TAAACC-TAAACTC
*
11251633 TTAAATCCTAAACCC
1 -TAAA-CCTAAACTC
*
11251648 CAAACCTAAAACTC
1 TAAACCT-AAACTC
*
11251662 TAAACTCTAAACTG
1 TAAAC-CTAAACTC
11251676 TAAACCCTAAAC-C
1 TAAA-CCTAAACTC
11251689 ATAAACCTAAAC
1 -TAAACCTAAAC
11251701 CATATTTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 10 0.18
14 39 0.71
15 6 0.11
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCTAAACTC
Found at i:11251673 original size:21 final size:20
Alignment explanation
Indices: 11251620--11251699 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
11251610 ATATATACCA
* * *
11251620 TAAACCTTAAATCTTAAATCC
1 TAAACC-TAAACCTAAAACCC
* *
11251641 TAAACCCCAAACCTAAAACTC
1 TAAA-CCTAAACCTAAAACCC
*
11251662 TAAACTCTAAA-CTGTAAACCC
1 TAAAC-CTAAACCT-AAAACCC
11251683 TAAACCATAAACCTAAA
1 TAAACC-TAAACCTAAA
11251700 CCATATTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
20 4 0.09
21 37 0.82
22 4 0.09
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCTAAACCTAAAACCC
Found at i:11252711 original size:188 final size:187
Alignment explanation
Indices: 11252346--11252712 Score: 399
Period size: 188 Copynumber: 2.0 Consensus size: 187
11252336 AAACCCTGAG
* * * *
11252346 CATTAGCGGCGCTTCCCAAAAAACGCCGCTAAATCCCCAAAAAGCTCCAAAAACGGCACCGTTCG
1 CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
* *
11252411 GCTTAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGGCGCTTCATTT
66 GCATAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGGCGCTTCA-GT
****
11252476 GAAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGGTGTCGTTTGGCAACCCCAAC
130 GAAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGACACCGTTTGGCAACCCCAAC
* * * ** **
11252534 CATTAGCGGCGCTTCACTAAAAACGCCGCTAAGGCCTC-AAAAGATATGAAAACGGTGCCGTT-G
1 CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
*
11252597 GACATATGTTTT-TTGCGGCGCTTCTCCATAAACGCCGCTAAAGCCCTGAA-CATTAGCGGCGCT
66 G-CATA-GTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAG----GAAGCATTAGCGGCGCT
** *
11252660 ATC-GT-AAAAGCGCCGCTAATTCCAC-GAAAGCTT-GGAAAACGACACCGTTTGGC
125 -TCAGTGAAAA-CGCCGCTAAAGCCACTGAAAG-TTAAGAAAACGACACCGTTTGGC
11252713 TTAGGTTTTT
Statistics
Matches: 149, Mismatches: 21, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
186 2 0.01
187 51 0.34
188 62 0.42
189 16 0.11
190 13 0.09
191 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (187 bp):
CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
GCATAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGGCGCTTCAGTG
AAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGACACCGTTTGGCAACCCCAAC
Found at i:11252789 original size:72 final size:70
Alignment explanation
Indices: 11252696--11252893 Score: 206
Period size: 72 Copynumber: 2.8 Consensus size: 70
11252686 AAAGCTTGGA
* *
11252696 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAT-CCCAAA
1 AAACGGCACCGTTTGTCTTAGG-TTTTTAGCGGCGCTTTT-CAAAAACGCCGCTAAATCCCCAAA
*
11252760 AACTACCG
64 AACT-CAG
*** * *
11252768 AAACGGCACCGTTTGTCTTAGGAAAATTAGTGGCGCTTGATT-AAAAACGTCGCTAAATCCCCAA
1 AAACGGCACCGTTTGTCTTAGG-TTTTTAGCGGCGCTT--TTCAAAAACGCCGCTAAATCCCCAA
11252832 AAACTCAG
63 AAACTCAG
* *
11252840 AAACGGCATCGTTTGTCTTTGGTTTTT-GCGGCGC-TTTCAGTAAAACGCCGCTAA
1 AAACGGCACCGTTTGTCTTAGGTTTTTAGCGGCGCTTTTCA--AAAACGCCGCTAA
11252894 TGCTTATTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
67 2 0.02
68 1 0.01
69 1 0.01
70 18 0.17
71 2 0.02
72 68 0.65
73 10 0.10
74 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (70 bp):
AAACGGCACCGTTTGTCTTAGGTTTTTAGCGGCGCTTTTCAAAAACGCCGCTAAATCCCCAAAAA
CTCAG
Found at i:11253804 original size:19 final size:19
Alignment explanation
Indices: 11253775--11253831 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
11253765 CTTTCAAGAT
* *
11253775 AATAATGAAAATGTAAATA
1 AATAATAAAAATGTAAAAA
*
11253794 AATAA-ATAAAATTTAAAAA
1 AATAATA-AAAATGTAAAAA
*
11253813 AATTATAAAAATGTAAAAA
1 AATAATAAAAATGTAAAAA
11253832 GATACATATG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAATAAAAATGTAAAAA
Found at i:11255017 original size:19 final size:19
Alignment explanation
Indices: 11254947--11255019 Score: 56
Period size: 19 Copynumber: 3.5 Consensus size: 19
11254937 ACCCAATTAC
*
11254947 CCAACCCAATTGCCATTTA
1 CCAACCCAATTACCATTTA
** *
11254966 CCAACCCAATAAACTAAAATCTA
1 CCAACCCAAT----TACCATTTA
11254989 CCCAAACCCAATTACCATTTA
1 -CC-AACCCAATTACCATTTA
11255010 CCAACCCAAT
1 CCAACCCAAT
11255020 AAAACAAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 18 0.44
20 2 0.05
21 6 0.15
23 5 0.12
24 2 0.05
25 8 0.20
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (19 bp):
CCAACCCAATTACCATTTA
Found at i:11255431 original size:22 final size:20
Alignment explanation
Indices: 11255396--11255439 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
11255386 TTAAAGATTG
11255396 AAACTTTTTATTTAGCTGTTC
1 AAACTTTTTATTTA-CTGTTC
*
11255417 AAACTTTTTATTTTACTTTTC
1 AAACTTTTTA-TTTACTGTTC
11255438 AA
1 AA
11255440 CTTGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (20 bp):
AAACTTTTTATTTACTGTTC
Found at i:11255588 original size:9 final size:8
Alignment explanation
Indices: 11255562--11255601 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
11255552 TATTTGCTGA
11255562 GGTTAATC
1 GGTTAATC
11255570 GGTTAATC
1 GGTTAATC
11255578 GGTTAAATC
1 GGTT-AATC
11255587 GGTTAATC
1 GGTTAATC
*
11255595 AGTTAAT
1 GGTTAAT
11255602 TTTTAACCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (8 bp):
GGTTAATC
Found at i:11255588 original size:17 final size:17
Alignment explanation
Indices: 11255562--11255600 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
11255552 TATTTGCTGA
11255562 GGTT-AATCGGTTAATC
1 GGTTAAATCGGTTAATC
11255578 GGTTAAATCGGTTAATC
1 GGTTAAATCGGTTAATC
*
11255595 AGTTAA
1 GGTTAA
11255601 TTTTTAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (17 bp):
GGTTAAATCGGTTAATC
Found at i:11256120 original size:22 final size:22
Alignment explanation
Indices: 11256080--11256121 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11256070 ACGCGAAAAT
*
11256080 AAAAAAATGAAACAAAAAAAGA
1 AAAAAAATGAAAAAAAAAAAGA
11256102 AAAAAAAT-AAAAAATAAAAA
1 AAAAAAATGAAAAAA-AAAAA
11256122 TTTCACCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAAAAGA
Found at i:11259876 original size:39 final size:38
Alignment explanation
Indices: 11259819--11259893 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
11259809 CTAAAGGTCG
*
11259819 AGCATTAGCGGCGCTTTTTGGAA-AACGCCGCTAAAAATA
1 AGCATTAGCGGCACTTTTT-GAAGAACGCCGC-AAAAATA
* * *
11259858 AGCATTAGTGGCATTTTTTGAAGAGCGCCGCAAAAA
1 AGCATTAGCGGCACTTTTTGAAGAACGCCGCAAAAA
11259894 GCCTAAGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 8 0.26
39 23 0.74
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (38 bp):
AGCATTAGCGGCACTTTTTGAAGAACGCCGCAAAAATA
Found at i:11259989 original size:41 final size:41
Alignment explanation
Indices: 11259930--11260173 Score: 267
Period size: 41 Copynumber: 5.8 Consensus size: 41
11259920 GAGTTTTTGG
* * * *
11259930 GGCCTTTAGCGGCATTTTTGAGGAAGCGCAGTTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
11259971 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
11260011 GAGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGGTCT
1 G-GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* *
11260053 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAGTGCTTT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
** * *
11260094 GGGTTTTAGCGGCGCTTTAGCAACGTTTTTCAAGCGCCGCTAATGCTC-
1 GGCCTTTAGCGGCGTTTTTG-AA-G------AAGCGCCGCTAATGCTCT
* * *
11260142 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
11260174 AAAAACATTT
Statistics
Matches: 174, Mismatches: 19, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
40 10 0.06
41 127 0.73
42 3 0.02
43 1 0.01
47 2 0.01
48 16 0.09
49 15 0.09
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:11260645 original size:28 final size:28
Alignment explanation
Indices: 11260616--11260700 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 28
11260606 TAGGGGCTAG
11260616 GGGTTAGGGTT-GGGATTTAAGGTTTAA
1 GGGTTAGGGTTAGGGATTTAAGGTTTAA
*
11260643 GGG-TAGGGATTAGGG-GTTAGAGG-TTAA
1 GGGTTAGGG-TTAGGGATTTA-AGGTTTAA
* *
11260670 GGGTTAAGAGTTATGGATTTAAGGTTTAA
1 GGGTT-AGGGTTAGGGATTTAAGGTTTAA
11260699 GG
1 GG
11260701 ATTTAGGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
26 5 0.11
27 15 0.32
28 15 0.32
29 12 0.26
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (28 bp):
GGGTTAGGGTTAGGGATTTAAGGTTTAA
Found at i:11260660 original size:34 final size:34
Alignment explanation
Indices: 11260587--11260657 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
11260577 TTATTGTTTA
* *
11260587 AGGGTTGAGATTTAAGGTTTAGGGGCTAGGGGTT
1 AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
*
11260621 AGGGTTGGGATTTAAGGTTTAAGGG-TAGGGATT
1 AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
11260654 AGGG
1 AGGG
11260658 GTTAGAGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.23, C:0.01, G:0.45, T:0.31
Consensus pattern (34 bp):
AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
Found at i:11262479 original size:11 final size:11
Alignment explanation
Indices: 11262463--11262488 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11262453 GTTTAAGGAA
11262463 TTTTATCCTAT
1 TTTTATCCTAT
11262474 TTTTATCCTAT
1 TTTTATCCTAT
11262485 TTTT
1 TTTT
11262489 GACTGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATCCTAT
Found at i:11263724 original size:17 final size:17
Alignment explanation
Indices: 11263702--11263744 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11263692 AATATATAAT
11263702 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11263719 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11263736 ATATATAAT
1 AT-TATAAT
11263745 ATTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTATAATGCAAAATTA
Found at i:11265812 original size:114 final size:114
Alignment explanation
Indices: 11265479--11266062 Score: 832
Period size: 114 Copynumber: 5.1 Consensus size: 114
11265469 GACCTTCGAC
* *
11265479 AAACGCCGCTAAAGCACACCATTAGCGGTGCATTATACAAAGCGCCGC-AAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * *
11265543 ACTCATCGTTCTAGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCA
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* * * *
11265592 AAACGCCACTAAAGCACACCATTAGCGGCGCATCATACAAAGTGCCGC-AAAAATCTTAATCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * *
11265656 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTATGGAT
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* * * * * *
11265705 AAATGCCGCTAAAGCACACCATTAGCGGCGCATTAGACAGAGCGCCACAAAAAATCATAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
*
11265770 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* ***
11265819 AAACACCGCTAAAGTGGACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
*
11265884 ACGCATCGTTCTGGGTTG-GTGTATTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTCTGGGTTGAG-GTATTTTAGAATTAGTGGCGCTTAAGGAA
* * *
11265933 AAACGCCGCTAAAGCACACTATTAGCGGCGCATCATACAAAGCGCAGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * * *
11265998 ATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTACGGAT
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
*
11266047 AAATGCCGCTAAAGCA
1 AAACGCCGCTAAAGCA
11266063 TATGCGCCGC
Statistics
Matches: 416, Mismatches: 52, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
113 142 0.34
114 273 0.66
115 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (114 bp):
AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
Found at i:11266139 original size:92 final size:92
Alignment explanation
Indices: 11265974--11266152 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 92
11265964 ATCATACAAA
* * *
11265974 GCGCAGCAAAAAATCTTAACCGAAATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGC
1 GCGCAGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
*
11266039 TTACGGATAAATGCCGCTAAAGCATAT
66 TTAAGGATAAATGCCGCTAAAGCATAT
* * *
11266066 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATTTTAGATTTAGTGGCGC
1 GCGCAGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
11266131 TTAAGGATAAATGCCGCTAAAG
66 TTAAGGATAAATGCCGCTAAAG
11266153 AACACAATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (92 bp):
GCGCAGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
TTAAGGATAAATGCCGCTAAAGCATAT
Found at i:11266215 original size:206 final size:205
Alignment explanation
Indices: 11265860--11266244 Score: 583
Period size: 206 Copynumber: 1.9 Consensus size: 205
11265850 ATCATACAAA
*
11265860 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTGGTGTATTTTAGAATTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTGGTATATTTTAGAATTAGTGGCGC
* * * *
11265925 TTAAGTAAAAACGCCGCTAAAGCACACTATTAGCGGCGCATCATACAAAGCGCAGCAAAAAATCT
66 TTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCAGCAAAAAAACT
* * *
11265990 TAACCGAAATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCG
131 TAACCAAAACGCATCGTTTT-GATTGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCG
11266055 CTAAAGCATAT
195 CTAAAGCATAT
* *
11266066 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAG-ATATTTTAGATTTAGTGGCG
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTG-GTATATTTTAGAATTAGTGGCG
* * * * *
11266130 CTTAAGGATAAATGCCGCTAAAGAACACAATTAGCGGCGCATTATTCAAAGCGCCGCAAAAAAAC
65 CTTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCAGCAAAAAAAC
* * *
11266195 TTAACCAAAACGCGTCGTTTTTATTGAGGTATTTTAGAATTAGTGGCGCT
130 TTAACCAAAACGCATCGTTTTGATTGAGGTATATTAGAATTAGTGGCGCT
11266245 ATAGTAAAAC
Statistics
Matches: 160, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
205 26 0.16
206 133 0.83
207 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (205 bp):
GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTCTGGGTTGGTATATTTTAGAATTAGTGGCGC
TTAAGGAAAAACGCCGCTAAAGAACACAATTAGCGGCGCATCATACAAAGCGCAGCAAAAAAACT
TAACCAAAACGCATCGTTTTGATTGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGC
TAAAGCATAT
Found at i:11266318 original size:113 final size:114
Alignment explanation
Indices: 11266066--11266328 Score: 372
Period size: 113 Copynumber: 2.3 Consensus size: 114
11266056 TAAAGCATAT
* *
11266066 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATTTTAGATTTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
* *
11266131 TTAAGGATAAATGCCGCTAAAGAACACAATTAGCGGCGCATTATTCAAA
66 TTAAGGATAAACGCCGCTAAAGAACACAATTAGCGGCGCATTATACAAA
* * * *
11266180 GCGCCGCAAAAAAACTTAACCAAAACGCGTCGTTTT-TATTGAGGTATTTTAGAATTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
* *
11266244 -TATAGTA-AAACGCCGCTAAAGTACATC-ATTAGCGGCGCATTATACAAA
66 TTA-AGGATAAACGCCGCTAAAGAACA-CAATTAGCGGCGCATTATACAAA
*
11266292 GCGCCGCGAATAAATCTTAACCAAAACGCATCGTTTT
1 GCGCCGC-AAAAAATCTTAACCAAAACGCATCGTTTT
11266329 AAACCGAAAC
Statistics
Matches: 133, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
112 45 0.34
113 54 0.41
114 34 0.26
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (114 bp):
GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGATTGAGATATTTTAGAATTAGTGGCGC
TTAAGGATAAACGCCGCTAAAGAACACAATTAGCGGCGCATTATACAAA
Found at i:11267018 original size:21 final size:21
Alignment explanation
Indices: 11266994--11267047 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
11266984 AAGGGTACTT
* *
11266994 GGTTTA-ATGGTTTGAGTTTAA
1 GGTTTAGA-GGTTGGAGATTAA
11267015 GGTTTAGAGGTTGGAGATTAA
1 GGTTTAGAGGTTGGAGATTAA
**
11267036 GGGATAGAGGTT
1 GGTTTAGAGGTT
11267048 TAGGGGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (21 bp):
GGTTTAGAGGTTGGAGATTAA
Done.