Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6067759
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 31
Found at i:5345177 original size:94 final size:93
Alignment explanation
Indices: 5345037--5345328 Score: 297
Period size: 94 Copynumber: 3.1 Consensus size: 93
5345027 AAATCGCAAC
* * * * * * * *
5345037 GCGAAAGTCAATTCCCGTTGCGATAGTCTAATACGCTTTGCAATTTTCTCGTTGCGATAGTCAAA
1 GCGATAGTCAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCACGTTGCGATAGTCAAA
* ** *
5345102 TTCCCGTTGTAATAATCAAATTCACGTT
66 TTCGCGTTGCGATAGTCAAATTCACGTT
** *
5345130 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTGGCGTTGCGATAGTCAT
1 GCGATAGTC-AATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCACGTTGCGATAGTCAA
*
5345195 ATTCGCGTTGCGATAGTCAAATTTACGTT
65 ATTCGCGTTGCGATAGTCAAATTCACGTT
* * *
5345224 GCGAT--T---TTTGAGTTACGATAGTCAAATTCACGTTGCGATAGTCAAATTCACGTTGCGATA
1 GCGATAGTCAATTCGCGTTGCGATAGTCAAATTCACGTTGCGAT--T----TTCACGTTGCGATA
*
5345284 GTCAAATTCGCGTTGCGATAGTCAAATTCGCGTT
60 GTCAAATTCGCGTTGCGATAGTCAAATTCACGTT
*
5345318 GCGATATTCAA
1 GCGATAGTCAA
5345329 ATGAATGTGT
Statistics
Matches: 164, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
88 30 0.18
90 1 0.01
92 1 0.01
93 8 0.05
94 123 0.75
96 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (93 bp):
GCGATAGTCAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCACGTTGCGATAGTCAAA
TTCGCGTTGCGATAGTCAAATTCACGTT
Found at i:5345208 original size:54 final size:54
Alignment explanation
Indices: 5345126--5345330 Score: 284
Period size: 54 Copynumber: 3.7 Consensus size: 54
5345116 ATCAAATTCA
*
5345126 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTGG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCG
* * *
5345180 CGTTGCGATAGTCATATTCGCGTTGCGATAGTCAAATTTACGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCG
* * *
5345234 AGTTACGATAGTCAAATTCACGTTGCGATAGTCAAATTCACGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGAT--T----TTCG
*
5345294 CGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
5345331 GAATGTGTAA
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
54 95 0.72
56 1 0.01
60 36 0.27
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTCG
Found at i:5345327 original size:74 final size:74
Alignment explanation
Indices: 5345117--5345327 Score: 246
Period size: 74 Copynumber: 2.9 Consensus size: 74
5345107 GTTGTAATAA
* * **
5345117 TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTGCGATTTTGGCG
1 TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCACG
5345182 TTGCGATAG
66 TTGCGATAG
* * ** ** ** * * * *
5345191 TCATATTCGCGTTGCGATAGTCAAATTTACGTTGCGATTTTTGAGTTACG-ATAGTC-AAATTCA
1 TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATT-CGCGTTG-CGATATTCA
5345254 CGTTGCGATAG
64 CGTTGCGATAG
5345265 TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCA
1 TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCA
5345328 AATGAATGTG
Statistics
Matches: 105, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
73 3 0.03
74 100 0.95
75 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (74 bp):
TCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCACG
TTGCGATAG
Found at i:5348375 original size:17 final size:15
Alignment explanation
Indices: 5348340--5348370 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5348330 CGGATGGGGA
5348340 AGGATGTCGTTGGAT
1 AGGATGTCGTTGGAT
5348355 AGGATGTCGTTGGAT
1 AGGATGTCGTTGGAT
5348370 A
1 A
5348371 TAGGAACGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.39, T:0.32
Consensus pattern (15 bp):
AGGATGTCGTTGGAT
Found at i:5348501 original size:20 final size:19
Alignment explanation
Indices: 5348478--5348523 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5348468 GGAAACTAAT
*
5348478 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
* *
5348498 TTGCGATTTAGAGATTGCA
1 TTGCGATCTAGAGATCGCA
5348517 TTGCGAT
1 TTGCGAT
5348524 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:5348511 original size:19 final size:19
Alignment explanation
Indices: 5348487--5348525 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5348477 TTTGCGATAC
*
5348487 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTGCGATT
*
5348506 TAGAGATTGCATTGCGATT
1 TAGAGATCGCATTGCGATT
5348525 T
1 T
5348526 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:5356792 original size:16 final size:17
Alignment explanation
Indices: 5356760--5356793 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
5356750 TGACTTTGAC
5356760 CAAAAAGTTAAATTTTT
1 CAAAAAGTTAAATTTTT
5356777 CAAAAAG-TAATATTTTT
1 CAAAAAGTTAA-ATTTTT
5356794 ATGTTTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
CAAAAAGTTAAATTTTT
Found at i:5360884 original size:15 final size:15
Alignment explanation
Indices: 5360864--5360895 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5360854 ATTAGCATTG
5360864 GCTAAAATCACTTGT
1 GCTAAAATCACTTGT
*
5360879 GCTAAAATCGCTTGT
1 GCTAAAATCACTTGT
5360894 GC
1 GC
5360896 AATCTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (15 bp):
GCTAAAATCACTTGT
Found at i:5372474 original size:29 final size:28
Alignment explanation
Indices: 5372432--5372494 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
5372422 TTATTTGTTT
* *
5372432 TTTTTTTAAATTTAATGACTTAGTTAAC
1 TTTTTATAAATTTAAAGACTTAGTTAAC
* *
5372460 TTTTTATAAAGTTTAAAGATTTATTTAAC
1 TTTTTATAAA-TTTAAAGACTTAGTTAAC
*
5372489 CTTTTA
1 TTTTTA
5372495 AGAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.31
29 20 0.69
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (28 bp):
TTTTTATAAATTTAAAGACTTAGTTAAC
Found at i:5372555 original size:21 final size:20
Alignment explanation
Indices: 5372522--5372560 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5372512 GTTAAACATG
5372522 AAAATATAAAAAAAATTAATT
1 AAAATAT-AAAAAAATTAATT
**
5372543 AAAATATTCAAAAATTAA
1 AAAATATAAAAAAATTAA
5372561 ACATTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATATAAAAAAATTAATT
Found at i:5373647 original size:204 final size:206
Alignment explanation
Indices: 5373268--5373667 Score: 650
Period size: 204 Copynumber: 1.9 Consensus size: 206
5373258 TATTTTTATA
5373268 TTTTTAATCTTTTTAAAATAAACTTTTAAGTATTTTATACTTTTATTTTTTAAAAAACTTTTATC
1 TTTTTAATCTTTTTAAAATAAACTTTTAAGTATTTTATACTTTTATTTTTT-AAAAACTTTTATC
*
5373333 ATATTAAATTTTAAATAATTTCTTAATTTTTTTATTGAAATGTTAACTAGATTTTCAAACTTTAC
65 ATATTAAATTTTAAATAAATTCTTAA-TTTTTTATTGAAATGTTAACTAGATTTTCAAACTTTAC
* *
5373398 AAAAAAATCAATTAAACATTCGAAATTTCTAACATCCCAATTAAATCAATAGTGTATACCAACTT
129 AAAAAAATCAATTAAACATTCGAAATTTCTAAAAACCCAATTAAATCAATAGTGTATACCAACTT
5373463 TATAATTTGTAAT
194 TATAATTTGTAAT
* *
5373476 TTTTTAATCTTTTTAAAATAAAC-TTTAAGTATTTTTTTACTTTT-TATTTTT-AAAATTTTTAT
1 TTTTTAATCTTTTTAAAATAAACTTTTAAGTA-TTTTATACTTTTAT-TTTTTAAAAACTTTTAT
5373538 CATATTAAA-TTTAAATAAATTCTTAA-TTTTTATTGAAATGTTGAA-TAGATTTTCAAACTTTA
64 CATATTAAATTTTAAATAAATTCTTAATTTTTTATTGAAATGTT-AACTAGATTTTCAAACTTTA
*
5373600 CAAAAAAAATCAATTAAACATTGGAAATTTCTAAAAACCCAATTAAATCAATAGTGTATACCAAC
128 C-AAAAAAATCAATTAAACATTCGAAATTTCTAAAAACCCAATTAAATCAATAGTGTATACCAAC
5373665 TTT
192 TTT
5373668 TCAAATGTTG
Statistics
Matches: 182, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
203 34 0.19
204 65 0.36
205 16 0.09
206 19 0.10
207 9 0.05
208 39 0.21
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (206 bp):
TTTTTAATCTTTTTAAAATAAACTTTTAAGTATTTTATACTTTTATTTTTTAAAAACTTTTATCA
TATTAAATTTTAAATAAATTCTTAATTTTTTATTGAAATGTTAACTAGATTTTCAAACTTTACAA
AAAAATCAATTAAACATTCGAAATTTCTAAAAACCCAATTAAATCAATAGTGTATACCAACTTTA
TAATTTGTAAT
Found at i:5377925 original size:46 final size:46
Alignment explanation
Indices: 5377814--5377936 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
5377804 TTGGACCTTT
* *
5377814 AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAC
* * *
5377859 AGTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTC
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCAC
*
5377905 AGTGCAT-GAATGCATGAAATGCATTCGATGTT
1 AGTGCATCG-ATGCATCAAATGCATTCGATGTT
5377937 CAATTTATTC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 29 0.43
46 36 0.53
47 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (46 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCAC
Found at i:5386486 original size:18 final size:17
Alignment explanation
Indices: 5386432--5386480 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
5386422 TTGGACCCTT
* *
5386432 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
5386450 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
5386468 AGTGCATTCGATG
1 AGTGCA-TCGATG
5386481 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:5386650 original size:65 final size:64
Alignment explanation
Indices: 5386452--5386659 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 64
5386442 TGCACTAAGA
* * * * * *
5386452 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAACCAAAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATATCCATAGTGCATCGATGCATGGTTG
*
5386516 GTGCATCGATGCATGAAATGCATTCGATGTTTTC-ATAAAATCC-TCAGTGCATCGATGCATGGT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-ATATCCAT-AGTGCATCGATGCATGGT
5386579 AT-
63 -TG
* * * *
5386581 GTGCATTGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATGGTGCATCGATGTATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATA-TCCATAGTGCATCGATGCATGG-TT
5386645 G
64 G
*
5386646 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
5386660 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
63 4 0.03
64 49 0.40
65 67 0.55
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATATCCATAGTGCATCGATGCATGGTTG
Found at i:5391114 original size:21 final size:23
Alignment explanation
Indices: 5391085--5391126 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
5391075 TGATAAATGA
5391085 ATTTGAATATA-TAATGTGTTAT
1 ATTTGAATATATTAATGTGTTAT
*
5391107 ATTT-AATATATTTATGTGTT
1 ATTTGAATATATTAATGTGTT
5391127 TCTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (23 bp):
ATTTGAATATATTAATGTGTTAT
Found at i:5396088 original size:21 final size:18
Alignment explanation
Indices: 5396053--5396095 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 18
5396043 TTATTTTACA
*
5396053 ACATATATCACAATAGTT
1 ACATATATCACAATAATT
5396071 ACATATATCACCAAAATAATT
1 ACATATATCA-C--AATAATT
5396092 ACAT
1 ACAT
5396096 TTCTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
21 10 0.48
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (18 bp):
ACATATATCACAATAATT
Found at i:5406057 original size:9 final size:9
Alignment explanation
Indices: 5406043--5406122 Score: 61
Period size: 10 Copynumber: 8.3 Consensus size: 9
5406033 CAGCTGGAAA
5406043 ACCGGTTTG
1 ACCGGTTTG
5406052 ACCGGTTTTG
1 ACCGG-TTTG
*
5406062 AATCGGTTTCG
1 -ACCGGTTT-G
*
5406073 ACCGGTTCG
1 ACCGGTTTG
*
5406082 AACCGGTCTG
1 -ACCGGTTTG
* *
5406092 ACCCGTCTG
1 ACCGGTTTG
5406101 AACCGGTTTG
1 -ACCGGTTTG
*
5406111 ACCGGTCTG
1 ACCGGTTTG
5406120 ACC
1 ACC
5406123 CAAACCGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 25 0.44
10 27 0.47
11 5 0.09
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:5406103 original size:19 final size:19
Alignment explanation
Indices: 5406081--5406120 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5406071 CGACCGGTTC
5406081 GAACCGGTCTGACCCGTCT
1 GAACCGGTCTGACCCGTCT
* *
5406100 GAACCGGTTTGACCGGTCT
1 GAACCGGTCTGACCCGTCT
5406119 GA
1 GA
5406121 CCCAAACCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (19 bp):
GAACCGGTCTGACCCGTCT
Found at i:5406133 original size:28 final size:28
Alignment explanation
Indices: 5406071--5406133 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
5406061 GAATCGGTTT
**
5406071 CGACCGGTTCGAACCGGTCTGACCCGTC
1 CGACCGGTTCGAACCGGTCTGACCCAAC
* *
5406099 TGAACCGGTTTG-ACCGGTCTGACCCAAAC
1 CG-ACCGGTTCGAACCGGTCTGACCC-AAC
5406128 CGACCG
1 CGACCG
5406134 ACCCGACCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (28 bp):
CGACCGGTTCGAACCGGTCTGACCCAAC
Found at i:5406153 original size:17 final size:17
Alignment explanation
Indices: 5406131--5406163 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5406121 CCCAAACCGA
5406131 CCGACCCGACCGTTGAC
1 CCGACCCGACCGTTGAC
5406148 CCGACCCGACCGTTGA
1 CCGACCCGACCGTTGA
5406164 TCGTTGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (17 bp):
CCGACCCGACCGTTGAC
Found at i:5415429 original size:24 final size:23
Alignment explanation
Indices: 5415393--5415456 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
5415383 CGGATCCTGC
* * *
5415393 AAAACAGAGAAGAAGGGAGAACAG
1 AAAACAGAAAAGAA-GAAAAACAG
5415417 AAAACAGAAAAGAAGAAAAACAG
1 AAAACAGAAAAGAAGAAAAACAG
5415440 AAAA-A-AAAAGAAAGAAA
1 AAAACAGAAAAG-AAGAAA
5415457 GGAAAGCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 5 0.14
22 7 0.19
23 11 0.31
24 13 0.36
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAACAGAAAAGAAGAAAAACAG
Found at i:5416319 original size:18 final size:18
Alignment explanation
Indices: 5416296--5416353 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
5416286 TTGTTTAAAT
5416296 ATATTTTAATTTTATATA
1 ATATTTTAATTTTATATA
*
5416314 ATATTTTAATTAGTAT-TA
1 ATATTTTAATT-TTATATA
*
5416332 TTATTTT-ATTTTA-ATA
1 ATATTTTAATTTTATATA
5416348 TATATT
1 -ATATT
5416354 ATTTGATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.12
17 7 0.21
18 19 0.58
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTAATTTTATATA
Found at i:5417113 original size:18 final size:17
Alignment explanation
Indices: 5417090--5417140 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
5417080 TTCTTTTCAA
5417090 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
5417107 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
5417125 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
5417141 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:5417162 original size:13 final size:15
Alignment explanation
Indices: 5417131--5417167 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5417121 TTATATGTTT
5417131 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
5417146 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
5417159 TA-TTTATTT
1 TATTTTATTT
5417168 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:5419257 original size:15 final size:15
Alignment explanation
Indices: 5419212--5419258 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
5419202 GAATTGCACA
*
5419212 TTTT-ACATTCTTAT
1 TTTTCACATTTTTAT
5419226 TTTTC-CATTTATGTAT
1 TTTTCACATTT-T-TAT
5419242 TTTTCACATTTTTAT
1 TTTTCACATTTTTAT
5419257 TT
1 TT
5419259 AAGTACTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 9 0.32
17 5 0.18
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTTCACATTTTTAT
Found at i:5421785 original size:14 final size:15
Alignment explanation
Indices: 5421766--5421795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5421756 CAGCAAAGAA
5421766 AGAAGAA-AAAAAAG
1 AGAAGAAGAAAAAAG
5421780 AGAAGAAGAAAAAAG
1 AGAAGAAGAAAAAAG
5421795 A
1 A
5421796 AAATTGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAAAAAAG
Found at i:5421787 original size:17 final size:16
Alignment explanation
Indices: 5421760--5421793 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
5421750 CTCATTCAGC
5421760 AAAGAAAGAAGAAAAA
1 AAAGAAAGAAGAAAAA
5421776 AAAGAGAAGAAGAAAAA
1 AAAGA-AAGAAGAAAAA
5421793 A
1 A
5421794 GAAAATTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGAAAAA
Found at i:5424214 original size:92 final size:92
Alignment explanation
Indices: 5424051--5424507 Score: 621
Period size: 92 Copynumber: 5.1 Consensus size: 92
5424041 TAAGGAGACC
* * * *
5424051 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTATAAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACTAA
* *
5424116 TTATTGAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGATGAATGTGCT
* * *
5424143 CATAGCATCTTCTGGAAATGTTCTTTGAGTTATATGATCTGGTTTGGTATGAACCACCGAACTAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACTAA
5424208 TCATTGAATTTGGAAGATGAATGTGCT
66 TCATTGAATTTGGAAGATGAATGTGCT
* * * *
5424235 CATAGCATATTTTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAACCACCGAACTAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACTAA
5424300 TCATTGAATTTGGAAGATGAATGTGCT
66 TCATTGAATTTGGAAGATGAATGTGCT
* * *
5424327 CATAGCATATTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACATAA-TC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACT-
* *
5424391 AATCATTGAATTTTGAAGATGAATTTGC-
64 AATCATTGAATTTGGAAGATGAATGTGCT
* *
5424419 CAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTT-G---G-----CAGAACCA
1 C-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACTA
*
5424475 ATCATTGAATTTGGAAGATGAATTTGCT
65 ATCATTGAATTTGGAAGATGAATGTGCT
5424503 CATAG
1 CATAG
5424508 GAGAAATAAG
Statistics
Matches: 337, Mismatches: 23, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
83 35 0.10
84 1 0.00
89 1 0.00
92 225 0.67
93 75 0.22
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACTAA
TCATTGAATTTGGAAGATGAATGTGCT
Found at i:5427599 original size:76 final size:76
Alignment explanation
Indices: 5427471--5428032 Score: 1013
Period size: 76 Copynumber: 7.4 Consensus size: 76
5427461 CTATTTCTCA
*
5427471 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTT-A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTCA
5427535 AAGCCTTCGGGT
65 AAGCCTTCGGGT
*
5427547 CATCTGTAA-TCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTCTT-
1 CATCTGTAAGT-CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTC
5427610 AAAGCCTTCGGGT
64 AAAGCCTTCGGGT
* *
5427623 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5427688 AGCCTTAGGGT
66 AGCCTTCGGGT
*
5427699 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
5427764 AGCCTTAGGGT
66 AGCCTTCGGGT
5427775 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5427840 AGCCTTCGGGT
66 AGCCTTCGGGT
5427851 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5427916 AGCCTTCGGGT
66 AGCCTTCGGGT
5427927 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
5427992 AGCCTTCGGGT
66 AGCCTTCGGGT
5428003 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
5428033 TCAATATTTC
Statistics
Matches: 472, Mismatches: 11, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
75 3 0.01
76 469 0.99
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:5428209 original size:16 final size:17
Alignment explanation
Indices: 5428174--5428215 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
5428164 TAATTATTAT
*
5428174 TATTATTAAATAAAATA
1 TATTATTATATAAAATA
*
5428191 TATTATTATAT-ATATA
1 TATTATTATATAAAATA
5428207 TATTATTAT
1 TATTATTAT
5428216 CATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTATTATATAAAATA
Found at i:5428215 original size:39 final size:35
Alignment explanation
Indices: 5428154--5428227 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 35
5428144 AATTTTTCAT
*
5428154 TATATTATTTTAATTATTATTATTATTAAATAAAA
1 TATATTATTTTAATTATTATTATCATTAAATAAAA
5428189 TATATTATTATATATATATATTATTATCATTAAATAAAA
1 TATATTATT-T-TA-AT-TATTATTATCATTAAATAAAA
5428228 AAATAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.26
36 1 0.03
37 2 0.06
38 2 0.06
39 20 0.59
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (35 bp):
TATATTATTTTAATTATTATTATCATTAAATAAAA
Found at i:5428632 original size:24 final size:23
Alignment explanation
Indices: 5428596--5428659 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
5428586 CGGATCCTGC
* * *
5428596 AAAACAGAGAAGAAGGGAGAACAG
1 AAAACAGAAAAGAA-GAAAAACAG
5428620 AAAACAGAAAAGAAGAAAAACAG
1 AAAACAGAAAAGAAGAAAAACAG
5428643 AAAA-A-AAAAGAAAGAAA
1 AAAACAGAAAAG-AAGAAA
5428660 GGAAAGCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 5 0.14
22 7 0.19
23 11 0.31
24 13 0.36
ACGTcount: A:0.72, C:0.06, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAACAGAAAAGAAGAAAAACAG
Found at i:5429519 original size:18 final size:18
Alignment explanation
Indices: 5429496--5429553 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
5429486 TTGTTTAAAT
5429496 ATATTTTAATTTTATATA
1 ATATTTTAATTTTATATA
*
5429514 ATATTTTAATTAGTAT-TA
1 ATATTTTAATT-TTATATA
*
5429532 TTATTTT-ATTTTA-ATA
1 ATATTTTAATTTTATATA
5429548 TATATT
1 -ATATT
5429554 ATTTGATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.12
17 7 0.21
18 19 0.58
19 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATATTTTAATTTTATATA
Found at i:5439839 original size:3 final size:3
Alignment explanation
Indices: 5439833--5439886 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
5439823 TAATATTTAT
5439833 TAA TAA TAA -AA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5439878 TAAA TAA TA
1 T-AA TAA TA
5439887 TTTAAATGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5439855 original size:17 final size:17
Alignment explanation
Indices: 5439820--5439886 Score: 91
Period size: 17 Copynumber: 3.9 Consensus size: 17
5439810 TTTGGGCCTG
* *
5439820 TAATAATAT-TTATTAA
1 TAATAATATAATAATAA
*
5439836 TAATAAAATAATAATAA
1 TAATAATATAATAATAA
5439853 TAATAATATAATAATAA
1 TAATAATATAATAATAA
5439870 TAATAATATAAATAATA
1 TAATAATAT-AATAATA
5439887 TTTAAATGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.18
17 30 0.67
18 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATAATATAATAATAA
Found at i:5439880 original size:14 final size:14
Alignment explanation
Indices: 5439820--5439874 Score: 69
Period size: 14 Copynumber: 4.0 Consensus size: 14
5439810 TTTGGGCCTG
* *
5439820 TAATAATATTTAT-
1 TAATAATAATAATA
5439833 TAATAATAA-AATAA
1 TAATAATAATAAT-A
5439847 TAATAATAATAATA
1 TAATAATAATAATA
5439861 TAATAATAATAATA
1 TAATAATAATAATA
5439875 ATATAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
12 2 0.05
13 8 0.22
14 24 0.65
15 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:5440847 original size:113 final size:113
Alignment explanation
Indices: 5440109--5441348 Score: 1478
Period size: 113 Copynumber: 11.0 Consensus size: 113
5440099 TAAAGTCATT
* * * * * *
5440109 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC-TCCTCC-TCTTTAGATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * * * * **
5440172 TTATGAACTCTTTCTAGCAATACTGATCCATCGAATGATGAAATCGAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* * *
5440220 CAAAAATTTGAACAAATTCTTCTCATTATGAA-TTCCTTCTTTCTTCTTCAGATGATGATTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTT-CTTCTTCCTTCTTCAGATGA-G-TTCTTC
* * ** * * * *
5440284 TCATTATGAACTCTACCTAGAAATTTTAATCCATCAAATAATGAATTCAAA
63 TCATTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* * * *
5440335 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-ATGAGTCCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
5440399 TTATGAACCTTCT--CTGGAAAAGCTGATCCATCAAATGATGGATTTAAG
66 TTATGAA-C-TCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* * * * *
5440447 CAAAAGGTTGACCAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGATGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
* ** * * *
5440512 TCATTATGAACTCTACCTGGAAATTTTAATCCATCAAATGATGAATTCAAA
63 TCATTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* * *
5440563 CAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * * *
5440628 TTATGAACCTCT--CTAAAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAA-CTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* *
5440675 CAAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * * *
5440736 TTATTATGAACTTTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAG
63 TCATTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
*
5440787 CAAAAAGTTGAACAAGTTCTTCTCATTATGAAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
5440852 TTATGAACTCGAACTGGAAATGCTGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
*
5440900 CAAAAAGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * ** *
5440965 TTACGAACTCGAACTGGAAATGTTGATCCATTGAATGATGGATTTAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
5441013 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
5441078 TTATGAACTCGAACTGGAAATGCTGATCCATTGAATCATGGATTTAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
*
5441126 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCATCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * ** * *
5441191 TTATGAACTCGAACTGGAAATGATGATCCATTGAATCATGAATTCAAG
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
* *
5441239 CAAAAAGTTTAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
5441304 TTATGAACTCGAACTGGTAATGCTGGTCCATCAAATGATGGATTT
66 TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTT
5441349 GAATCTTTGC
Statistics
Matches: 996, Mismatches: 109, Indels: 46
0.87 0.09 0.04
Matches are distributed among these distances:
108 11 0.01
109 5 0.01
110 6 0.01
111 46 0.05
112 202 0.20
113 508 0.51
114 18 0.02
115 94 0.09
116 106 0.11
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (113 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTAACTGGAAATGCTGATCCATCAAATGATGAATTTAAG
Found at i:5442253 original size:114 final size:114
Alignment explanation
Indices: 5442037--5442253 Score: 287
Period size: 114 Copynumber: 1.9 Consensus size: 114
5442027 GATCATGCAG
* * * *
5442037 TTCATCTTTTAATTCAAATGATTGGTTCTGTGGTTCCTATCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCAAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * ** *
5442102 ACACTTCCAGAAGATGTTATTGGGTCTTCTTATTTCTACTATAAGCACA
66 ACACTTCCAGAAGATGCTATTGAGTCCACTCATTTCTACTATAAGCACA
* *
5442151 TTCATCTTTCAAATCCAATGATTGGTT-TTTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCAAATGATTGGTTCTGTGG-TTCATACCAAACCAGATCAGATAACTCAAAG
5442215 AACACTTCCAGAAGATGCTA-TGAG-CACACTCATCTTCTA
65 AACACTTCCAGAAGATGCTATTGAGTC-CACTCAT-TTCTA
5442254 AATTCAATGA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
112 1 0.01
113 11 0.12
114 77 0.87
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCAAATGATTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCCACTCATTTCTACTATAAGCACA
Found at i:5442303 original size:93 final size:93
Alignment explanation
Indices: 5442140--5442624 Score: 850
Period size: 93 Copynumber: 5.2 Consensus size: 93
5442130 CTTATTTCTA
* * * *
5442140 CTATAAGCACATTCATCTTTCAAATCCAATGATT-GGTTTTTGGTTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
5442204 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * *
5442232 CTATGAGCACACTCATC-TTCTAAATTCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTC-AAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCA
5442296 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
5442325 CTATGAGCACATTCATCTTTCAAGTCCAATGA-TGGGTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
5442389 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* *
5442417 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
5442482 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
*
5442510 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGGTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
5442575 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
5442603 CTATGAGCACATTCATCTTTCA
1 CTATGAGCACATTCATCTTTCA
5442625 CTTGAATCTG
Statistics
Matches: 378, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
91 3 0.01
92 119 0.31
93 253 0.67
94 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTTCAAGTCCAATGATTGGGTTTTGGGGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:5442457 original size:185 final size:185
Alignment explanation
Indices: 5442140--5442624 Score: 855
Period size: 185 Copynumber: 2.6 Consensus size: 185
5442130 CTTATTTCTA
* * * * *
5442140 CTATAAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTGGTTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGTTTTGGGGTTCATACCAAACCAGATCAGA
* * *
5442205 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACACTCATC-TTCTAAATTCAATGATTGGG
66 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC-AAATCCAATGATGGGG
*
5442269 TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
130 TTTTGGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
5442325 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGTTTTGGGGTTCATACCAAACCAGATCAGA
1 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGTTTTGGGGTTCATACCAAACCAGATCAGA
*
5442390 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAGTCCAATGATGGGGT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATCCAATGATGGGGT
5442455 TTTGGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
131 TTTGGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
5442510 CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGGTTTTGGGGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAGTCCAATGAT-GGGTTTTGGGGTTCATACCAAACCAGATCAG
5442575 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCA
65 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCA
5442625 CTTGAATCTG
Statistics
Matches: 288, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
185 204 0.71
186 84 0.29
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (185 bp):
CTATGAGCACATTCATCTTTCAAGTCCAATGATGGGTTTTGGGGTTCATACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCAAATCCAATGATGGGGT
TTTGGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:5443603 original size:9 final size:9
Alignment explanation
Indices: 5443589--5443620 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
5443579 TCTTGACCCC
5443589 TTTTTTTCT
1 TTTTTTTCT
5443598 TTTTTTTCT
1 TTTTTTTCT
5443607 TTTTTTTCT
1 TTTTTTTCT
5443616 TTTTT
1 TTTTT
5443621 AAGCATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:5454087 original size:19 final size:19
Alignment explanation
Indices: 5454042--5454089 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5454032 ATGAAATATT
* *
5454042 AATAAGAAAATATATAAAT
1 AATATGAAAATATATAAAA
*
5454061 ACTATGAAAATATATAAAA
1 AATATGAAAATATATAAAA
*
5454080 AATTTGAAAA
1 AATATGAAAA
5454090 GAAAGCATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (19 bp):
AATATGAAAATATATAAAA
Found at i:5455458 original size:11 final size:11
Alignment explanation
Indices: 5455444--5455482 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
5455434 AAAGCTCTCC
5455444 CTTCTCTCTAG
1 CTTCTCTCTAG
5455455 CTTCTCTCTAG
1 CTTCTCTCTAG
5455466 C-T-TCTCTAG
1 CTTCTCTCTAG
5455475 CTTCTCTC
1 CTTCTCTC
5455483 ATTTCTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 2 0.08
11 16 0.62
ACGTcount: A:0.08, C:0.38, G:0.08, T:0.46
Consensus pattern (11 bp):
CTTCTCTCTAG
Found at i:5455460 original size:9 final size:9
Alignment explanation
Indices: 5455448--5455481 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
5455438 CTCTCCCTTC
5455448 TCTCTAGCTT
1 TCTCTAGC-T
5455458 CTCTCTAGCT
1 -TCTCTAGCT
5455468 TCTCTAGCT
1 TCTCTAGCT
5455477 TCTCT
1 TCTCT
5455482 CATTTCTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 1 0.04
11 8 0.35
ACGTcount: A:0.09, C:0.35, G:0.09, T:0.47
Consensus pattern (9 bp):
TCTCTAGCT
Found at i:5456228 original size:3 final size:3
Alignment explanation
Indices: 5456222--5456269 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
5456212 TAATATTTAT
5456222 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA
5456268 TA
1 TA
5456270 TTTAAATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.79
4 7 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5467148 original size:21 final size:23
Alignment explanation
Indices: 5467122--5467173 Score: 81
Period size: 21 Copynumber: 2.3 Consensus size: 23
5467112 TTTGATTACG
5467122 TTTTATAAAAAAATA-T-AATTA
1 TTTTATAAAAAAATATTAAATTA
5467143 TTTTATAAAAAAATATTAAATTA
1 TTTTATAAAAAAATATTAAATTA
*
5467166 ATTTATAA
1 TTTTATAA
5467174 TATTATGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 15 0.54
22 1 0.04
23 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTATAAAAAAATATTAAATTA
Found at i:5471317 original size:83 final size:81
Alignment explanation
Indices: 5471216--5471651 Score: 394
Period size: 83 Copynumber: 5.3 Consensus size: 81
5471206 GTTAGCGGCA
* * * * *
5471216 TTTTTATACAAAATGCCGCAACATAGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGTAATAA
1 TTTTTA-AC-AAACGCCGCAACATAGTAGTACTTTAGCGGCGTTT-TATACAAACGCCGCAAT-A
* * *
5471281 GG-TTCATATGTAGTGGCAT
62 GGTTTCATCTATAGTGGCGT
* * **
5471300 TTTTTCAACAAACGCCGCAACAGAGTAGTACTTTAGCGGTGTTTTTATACAAACGCAACAATAGG
1 TTTTT-AACAAACGCCGCAACATAGTAGTACTTTAGCGGCG-TTTTATACAAACGCCGCAATAGG
*
5471365 TTT-ATCCATAGTGGCGT
64 TTTCATCTATAGTGGCGT
* ** ** * * * * *
5471382 TTCTTAACAAACGTTGTTATAGAGTAGTACTTTAGCGGCGTTTTTTACAAATGCCTCAATAGGTT
1 TTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTATACAAACGCCGCAATAGGTT
5471447 TCATCTATAGTGGCGT
66 TCATCTATAGTGGCGT
* * *
5471463 TTTTTCAACAAATGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGG
1 TTTTT-AACAAACGCCGCAACATAGTAGTAC-TTTAGCGGCGTTTTATACAAACGCCGCAATAGG
5471528 TTTCATCTATAGTGGCGT
64 TTTCATCTATAGTGGCGT
** * * * * *
5471546 TTTTTAACAAGTGCCGCAACATAGTAGTACTGTAGAGGCATTTTTTTACCAACGCCGCAATA-GT
1 TTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGC-GTTTTATACAAACGCCGCAATAGGT
** * *
5471610 TTGGTATATTCGTGGCGT
65 TTCATCTA-TAGTGGCGT
5471628 TTGGCTTTAA-AAACGCCGCAACAT
1 TT---TTTAACAAACGCCGCAACAT
5471652 TTTCTGCTTC
Statistics
Matches: 294, Mismatches: 47, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
80 22 0.07
81 60 0.20
82 88 0.30
83 96 0.33
84 22 0.07
85 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (81 bp):
TTTTTAACAAACGCCGCAACATAGTAGTACTTTAGCGGCGTTTTATACAAACGCCGCAATAGGTT
TCATCTATAGTGGCGT
Found at i:5471462 original size:40 final size:41
Alignment explanation
Indices: 5471418--5471564 Score: 160
Period size: 40 Copynumber: 3.6 Consensus size: 41
5471408 GTACTTTAGC
*
5471418 GGCGTTTTTT-ACAAATGCCTCAATAGGTTTCATCTATAGT
1 GGCGTTTTTTAACAAATGCCGCAATAGGTTTCATCTATAGT
* * *
5471458 GGCGTTTTTTCAACAAATGCCGCAAAATA-GTAGT-A-CTTTTAGC
1 GGCGTTTTTT-AACAAATGCCGC--AATAGGT-TTCATC-TATAGT
*
5471501 GGCGTTTTTT-ACAAACGCCGCAATAGGTTTCATCTATAGT
1 GGCGTTTTTTAACAAATGCCGCAATAGGTTTCATCTATAGT
*
5471541 GGCGTTTTTTAACAAGTGCCGCAA
1 GGCGTTTTTTAACAAATGCCGCAA
5471565 CATAGTAGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
39 5 0.06
40 27 0.31
41 22 0.25
42 11 0.13
43 17 0.20
44 5 0.06
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTTAACAAATGCCGCAATAGGTTTCATCTATAGT
Found at i:5471470 original size:163 final size:165
Alignment explanation
Indices: 5471240--5471555 Score: 444
Period size: 163 Copynumber: 1.9 Consensus size: 165
5471230 GCCGCAACAT
*
5471240 AGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGTAATAAGGTTCATATGTAGTGGCATTTTTT
1 AGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGTAATAAGGTTCATATATAGTGGCATTTTTT
* *
5471305 CAACAAACGCCGCAACAGAGTAGTAC-TTTAGCGGTGTTTTTATACAAACGCAACAATAGGTTT-
66 CAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTT-TACAAACGCAACAATAGGTTTC
5471368 ATCCATAGTGGCGTTTCTTAACAAACGTTGTTATAG
130 ATCCATAGTGGCGTTTCTTAACAAACGTTGTTATAG
* * * * *
5471404 AGTAGTACTTTAGCGGCGTTT-TTTACAAATGCC-TCAAT-AGGTTTCATCTATAGTGGCGTTTT
1 AGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGT-AATAAGG-TTCATATATAGTGGCATTTT
* * **
5471466 TTCAACAAATGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGGTTT
64 TTCAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCAACAATAGGTTT
* *
5471531 CATCTATAGTGGCGTTTTTTAACAA
129 CATCCATAGTGGCGTTTCTTAACAA
5471556 GTGCCGCAAC
Statistics
Matches: 134, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
162 4 0.03
163 74 0.55
164 56 0.42
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (165 bp):
AGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGTAATAAGGTTCATATATAGTGGCATTTTTT
CAACAAACGCCGCAAAAGAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCAACAATAGGTTTCA
TCCATAGTGGCGTTTCTTAACAAACGTTGTTATAG
Found at i:5471550 original size:41 final size:40
Alignment explanation
Indices: 5471291--5471564 Score: 157
Period size: 40 Copynumber: 6.7 Consensus size: 40
5471281 GGTTCATATG
* * * *
5471291 TAGTGGCATTTTTTCAACAAACGCCGCAACAGAGTAGTA-CTT
1 TAGTGGCGTTTTTT-AACAAACGCCGCAATAG-GT-TTATCTA
* * ** *
5471333 TAGCGGTG-TTTTTATACAAACGCAACAATAGGTTTATCCA
1 TAGTGGCGTTTTTTA-ACAAACGCCGCAATAGGTTTATCTA
* ** ** * *
5471373 TAGTGGCGTTTCTTAACAAACGTTGTTATAGAGTAGTA-CTT
1 TAGTGGCGTTTTTTAACAAACGCCGCAATAG-GT-TTATCTA
* * *
5471414 TAGCGGCGTTTTTT-ACAAATGCCTCAATAGGTTTCATCTA
1 TAGTGGCGTTTTTTAACAAACGCCGCAATAGGTTT-ATCTA
* * *
5471454 TAGTGGCGTTTTTTCAACAAATGCCGCAAAATA-GTAGTA-CTTT
1 TAGTGGCGTTTTTT-AACAAACGCCGC--AATAGGT-TTATC-TA
*
5471497 TAGCGGCGTTTTTT-ACAAACGCCGCAATAGGTTTCATCTA
1 TAGTGGCGTTTTTTAACAAACGCCGCAATAGGTTT-ATCTA
**
5471537 TAGTGGCGTTTTTTAACAAGTGCCGCAA
1 TAGTGGCGTTTTTTAACAAACGCCGCAA
5471565 CATAGTAGTA
Statistics
Matches: 174, Mismatches: 41, Indels: 35
0.70 0.16 0.14
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 63 0.36
41 60 0.34
42 18 0.10
43 17 0.10
44 5 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (40 bp):
TAGTGGCGTTTTTTAACAAACGCCGCAATAGGTTTATCTA
Found at i:5471600 original size:82 final size:82
Alignment explanation
Indices: 5471226--5471608 Score: 398
Period size: 83 Copynumber: 4.7 Consensus size: 82
5471216 TTTTTATACA
* * * * * * *
5471226 AAATGCCGCAACATAGTAATACTTTAGCGGCGTTTGTATAAAAATGCCGTAATAAGG-TTCATAT
1 AAATGCCGCAACATAGTAGTACTTTAGCGGC-TTTTTTTACAAACGCCGCAAT-AGGTTTCATCT
* *
5471290 GTAGTGGCATTTTTTCAAC
64 ATAGTGGCGTTTTTTCAAC
* * ** *
5471309 AAACGCCGCAACAGAGTAGTACTTTAGCGG-TGTTTTTATACAAACGCAACAATAGGTTT-ATCC
1 AAATGCCGCAACATAGTAGTACTTTAGCGGCT-TTTTT-TACAAACGCCGCAATAGGTTTCATCT
*
5471372 ATAGTGGCGTTTCTT-AAC
64 ATAGTGGCGTTTTTTCAAC
* ** ** * * * * *
5471390 AAACGTTGTTATAGAGTAGTACTTTAGCGGCGTTTTTTACAAATGCCTCAATAGGTTTCATCTAT
1 AAATGCCGCAACATAGTAGTACTTTAGCGGCTTTTTTTACAAACGCCGCAATAGGTTTCATCTAT
5471455 AGTGGCGTTTTTTCAAC
66 AGTGGCGTTTTTTCAAC
* *
5471472 AAATGCCGCAAAATAGTAGTACTTTTAGCGGCGTTTTTTACAAACGCCGCAATAGGTTTCATCTA
1 AAATGCCGCAACATAGTAGTAC-TTTAGCGGCTTTTTTTACAAACGCCGCAATAGGTTTCATCTA
5471537 TAGTGGCGTTTTTT-AAC
65 TAGTGGCGTTTTTTCAAC
* * * *
5471554 AAGTGCCGCAACATAGTAGTACTGTAGAGGCATTTTTTTACCAACGCCGCAATAG
1 AAATGCCGCAACATAGTAGTACTTTAGCGGC-TTTTTTTACAAACGCCGCAATAG
5471609 TTTGGTATAT
Statistics
Matches: 251, Mismatches: 41, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
80 18 0.07
81 58 0.23
82 82 0.33
83 93 0.37
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (82 bp):
AAATGCCGCAACATAGTAGTACTTTAGCGGCTTTTTTTACAAACGCCGCAATAGGTTTCATCTAT
AGTGGCGTTTTTTCAAC
Found at i:5474495 original size:21 final size:21
Alignment explanation
Indices: 5474471--5474511 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5474461 TTCATTTTTC
* *
5474471 TTGTTAAGGATTTTAAGTTTG
1 TTGTTAAGGATGTCAAGTTTG
*
5474492 TTGTTATGGATGTCAAGTTT
1 TTGTTAAGGATGTCAAGTTT
5474512 ATTGGAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.02, G:0.24, T:0.51
Consensus pattern (21 bp):
TTGTTAAGGATGTCAAGTTTG
Found at i:5474912 original size:43 final size:43
Alignment explanation
Indices: 5474680--5474927 Score: 266
Period size: 43 Copynumber: 5.8 Consensus size: 43
5474670 GTTTATTCTA
* * * * * * *
5474680 AAAAACGCCGCTATATA-CCAGATCTTTTGCGGTGTTTGTGGG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
* * * * *
5474722 AAAAACACCGCTAAATCTCAAGACCAATTACGGCGTTTG-TGG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
* * * *
5474764 AAAAAACGCCGCTAAATCTCAACACCTATTACGGCATTTGTGGG
1 -AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
* *
5474808 AAAAACGTCGCTAAATCTCAACACCTATTGCGGCGTTTGTTGG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
5474851 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
* * ***
5474894 ACAAACGCCGCTATATATCGTTACCTATTGCGGC
1 AAAAACGCCGCTAAATATCAACACCTATTGCGGC
5474928 ATTTTTTGTT
Statistics
Matches: 177, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
42 16 0.09
43 159 0.90
44 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
Found at i:5476318 original size:22 final size:22
Alignment explanation
Indices: 5476282--5476324 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5476272 ATTGAACATA
*
5476282 TAAACGAACGATAAATGAACAC
1 TAAACGAACGATAAACGAACAC
* *
5476304 TAAACGAATGTTAAACGAACA
1 TAAACGAACGATAAACGAACA
5476325 TATTCGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (22 bp):
TAAACGAACGATAAACGAACAC
Found at i:5476411 original size:23 final size:23
Alignment explanation
Indices: 5476315--5476411 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
5476305 AAACGAATGT
* *
5476315 TAAACGAACATATTCGTGAACAC
1 TAAACGAACATGTTCGTGAACAA
* *
5476338 TAAATGAACATGTTCATGAACATA
1 TAAACGAACATGTTCGTGAACA-A
* * * * *
5476362 TAAACGAACACGTTTGCGGACAT
1 TAAACGAACATGTTCGTGAACAA
5476385 TAAACGAACATGTTCGTGAACAA
1 TAAACGAACATGTTCGTGAACAA
5476408 TAAA
1 TAAA
5476412 TAAACGAACA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 41 0.72
24 16 0.28
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (23 bp):
TAAACGAACATGTTCGTGAACAA
Found at i:5491359 original size:21 final size:21
Alignment explanation
Indices: 5491335--5491379 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5491325 AATATGTGAA
* *
5491335 TCGCATTGCGATTTTCTAAAT
1 TCGCATTACGATTTTCCAAAT
*
5491356 TCGCGTTACGATTTTCCAAAT
1 TCGCATTACGATTTTCCAAAT
5491377 TCG
1 TCG
5491380 TAACGCGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (21 bp):
TCGCATTACGATTTTCCAAAT
Found at i:5491422 original size:20 final size:20
Alignment explanation
Indices: 5491397--5491495 Score: 162
Period size: 20 Copynumber: 5.0 Consensus size: 20
5491387 AATTTGTAAA
*
5491397 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
5491417 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
5491437 TCGCAACACATAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
5491457 TCGCAACACAGAAATCAAAT
1 TCGCAACACAGAAGTCAAAT
5491477 TCGCAACACAGAAGTCAAA
1 TCGCAACACAGAAGTCAAA
5491496 GCGCATTTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.16
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:5496477 original size:20 final size:20
Alignment explanation
Indices: 5496440--5496478 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5496430 AGATTGAGTG
* * *
5496440 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
5496460 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
5496479 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:5496675 original size:21 final size:21
Alignment explanation
Indices: 5496636--5496675 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5496626 CAGAACCCCA
* *
5496636 GGGGGGTATCGATTTCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
5496657 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
5496676 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.40, T:0.28
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:5496684 original size:23 final size:22
Alignment explanation
Indices: 5496658--5496716 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
5496648 TTTCCCTGTG
5496658 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TCAAA
*
5496681 GGGGGAATCAGTT-CCCTCAAA
1 GGGGGAATCGGTTCCCCTCAAA
*
5496702 GGGGG-ATCGATTCCC
1 GGGGGAATCGGTTCCC
5496717 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 3 0.09
23 12 0.38
ACGTcount: A:0.22, C:0.25, G:0.32, T:0.20
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTCAAA
Found at i:5496702 original size:21 final size:23
Alignment explanation
Indices: 5496658--5496707 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
5496648 TTTCCCTGTG
*
5496658 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCAGTTCCCCTTCAAA
5496681 GGGGGAATCAGTT-CCC-TCAAA
1 GGGGGAATCAGTTCCCCTTCAAA
5496702 GGGGGA
1 GGGGGA
5496708 TCGATTCCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 11 0.42
22 3 0.12
23 12 0.46
ACGTcount: A:0.24, C:0.22, G:0.36, T:0.18
Consensus pattern (23 bp):
GGGGGAATCAGTTCCCCTTCAAA
Found at i:5500563 original size:20 final size:21
Alignment explanation
Indices: 5500519--5500563 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
5500509 GTTTGCTTTC
* * *
5500519 ATTTTTTTATTTTGAAACATC
1 ATTTTTATATTTTGAAAAATA
5500540 ATTTTTATATTTT-AAAAATA
1 ATTTTTATATTTTGAAAAATA
5500560 ATTT
1 ATTT
5500564 CTCAAAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTATATTTTGAAAAATA
Found at i:5503428 original size:20 final size:21
Alignment explanation
Indices: 5503403--5503443 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5503393 CGCTATGTGG
*
5503403 TGAGGTATCTACT-TACGTGA
1 TGAGGTAGCTACTCTACGTGA
*
5503423 TGAGGTAGCTGCTCTACGTGA
1 TGAGGTAGCTACTCTACGTGA
5503444 GATTGTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (21 bp):
TGAGGTAGCTACTCTACGTGA
Found at i:5503549 original size:4 final size:4
Alignment explanation
Indices: 5503540--5503589 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
5503530 TTTTTCGGCA
* * *
5503540 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TGAT TTAT GTAT TAAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
5503588 TT
1 TT
5503590 TCAGCGGCCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:5503780 original size:21 final size:21
Alignment explanation
Indices: 5503756--5503836 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
5503746 GGCGTTTTCT
*
5503756 ATCGTTCAAAAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTGTC
*
5503777 ATCGTTCAAGAGGCCCCTCTC
1 ATCGTTCAAGAGGCCCCTGTC
*
5503798 ACCGTTCAAGAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTGTC
* *
5503819 ATCGTTCAATAGGTCCCT
1 ATCGTTCAAGAGGCCCCT
5503837 CCCACCATTC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTGTC
Found at i:5503849 original size:42 final size:42
Alignment explanation
Indices: 5503760--5503851 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
5503750 TTTTCTATCG
* * *
5503760 TTCAAAAGGCCCCTGTCATCGTTCAAGAGGCCCCTCTCACCG
1 TTCAAGAGGCCCCTGTCATCGTTCAAGAGGCCCCTCCCACCA
* *
5503802 TTCAAGAGGCCCCTGTCATCGTTCAATAGGTCCCTCCCACCA
1 TTCAAGAGGCCCCTGTCATCGTTCAAGAGGCCCCTCCCACCA
5503844 TTCAAGAG
1 TTCAAGAG
5503852 CTTGATTCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TTCAAGAGGCCCCTGTCATCGTTCAAGAGGCCCCTCCCACCA
Found at i:5505261 original size:64 final size:64
Alignment explanation
Indices: 5505150--5505304 Score: 256
Period size: 64 Copynumber: 2.4 Consensus size: 64
5505140 TTAATTGAAT
*
5505150 TTTACATTGATTTGTAAAAGGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTT
1 TTTA-ATTGATTTGTAAAA-GTTGATTTGTTTAATTGAAGAGGAAATAAGAATTATTTTTTGCTT
5505215 G
64 G
* * *
5505216 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGAAGTGTAAATAAGAATTATTTTTTTCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGAAGAGGAAATAAGAATTATTTTTTGCTTG
5505280 TTTAATTGATTTGTAAAAGTTGATT
1 TTTAATTGATTTGTAAAAGTTGATT
5505305 CATTGTTTAT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
64 67 0.79
65 14 0.16
66 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGAAGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:5505435 original size:20 final size:20
Alignment explanation
Indices: 5505410--5505461 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
5505400 TCATTACGAT
5505410 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACACAAA
* *
5505430 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAACACAAA
5505450 AGTCAAATTCGC
1 AGTCAAATTCGC
5505462 GTTGCGGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.17
Consensus pattern (20 bp):
AGTCAAATTCGCAACACAAA
Found at i:5505555 original size:20 final size:20
Alignment explanation
Indices: 5505530--5505568 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5505520 CGCGATTATC
*
5505530 GCGTTGCGAATTTGACTTTT
1 GCGTTGCGAATTTAACTTTT
5505550 GCGTTGCGAATTTAACTTT
1 GCGTTGCGAATTTAACTTT
5505569 CACATCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGTTGCGAATTTAACTTTT
Found at i:5506349 original size:19 final size:19
Alignment explanation
Indices: 5506284--5506373 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 19
5506274 ACTAAAACAT
*
5506284 GTTGCGAAATT-AAATTC-
1 GTTGCGAATTTGAAATTCA
* *
5506301 GTGTGCGAATTCGAAAATCGA
1 GT-TGCGAATTTGAAATTC-A
*
5506322 GTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
* *
5506341 ATTGCGAATTTAAAATTCA
1 GTTGCGAATTTGAAATTCA
5506360 GTGTTGCGAATTTG
1 --GTTGCGAATTTG
5506374 GCAAACGCGT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
17 2 0.04
18 7 0.12
19 22 0.39
20 13 0.23
21 12 0.21
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:5506521 original size:19 final size:19
Alignment explanation
Indices: 5506483--5506530 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
5506473 TGGAAACTGG
*
5506483 GTTGCGAAATTGGAGTTCGC
1 GTTGCG-AATTGGAGATCGC
*
5506503 GTTGCGAATTTGAGATCGC
1 GTTGCGAATTGGAGATCGC
*
5506522 GTTACGAAT
1 GTTGCGAAT
5506531 GTGATGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (19 bp):
GTTGCGAATTGGAGATCGC
Found at i:5510776 original size:20 final size:20
Alignment explanation
Indices: 5510752--5510831 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 20
5510742 AACAAAATGC
5510752 TAATAAATAAAAAATGAATAA
1 TAATAAATAAAAAAT-AATAA
*
5510773 -AATATATAAAAAATAATAA
1 TAATAAATAAAAAATAATAA
5510792 TAATAATGAATGAAAGAAATAATAA
1 TAAT-A--AAT-AAA-AAATAATAA
*
5510817 AAATAAATAATAAAA
1 TAATAAATAA-AAAA
5510832 GGTTAAGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
19 5 0.10
20 16 0.33
21 6 0.12
22 4 0.08
23 2 0.04
24 4 0.08
25 12 0.24
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
TAATAAATAAAAAATAATAA
Found at i:5510832 original size:25 final size:25
Alignment explanation
Indices: 5510783--5510832 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5510773 AATATATAAA
* *
5510783 AAATAATAATAATAATGAATGAAAG
1 AAATAATAAAAATAATGAATAAAAG
5510808 AAATAATAAAAATAAAT-AATAAAAG
1 AAATAATAAAAAT-AATGAATAAAAG
5510833 GTTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (25 bp):
AAATAATAAAAATAATGAATAAAAG
Found at i:5512294 original size:74 final size:74
Alignment explanation
Indices: 5512215--5512556 Score: 293
Period size: 74 Copynumber: 4.6 Consensus size: 74
5512205 CACAAATATG
* * *
5512215 TAATATATAAATTTCCAAAATGCTTTTAAAAACTATATATTATACATGTTTTTAAAAACGTTTT-
1 TAATATATAAATTTTCAAAATG-TTTTAAAAACTATATATTATATATGTTTTTAAAAATGTTTTA
*
5512279 AAAAACTTTA
65 AAAAACTATA
* * * *
5512289 TAATATAT--ATTTTCAGAAACGGTTTAAAAATTATATATTATATATATTTTTAAAATAT-TTTT
1 TAATATATAAATTTTCA-AAATGTTTTAAAAACTATATATTATATATGTTTTTAAAA-ATGTTTT
* *
5512351 CAAAAATTATA
64 AAAAAACTATA
* * *** * * *
5512362 TAATATTTAAATGTTTTAAAA-AAATTCAAAACTATATATTATATAAGTTTTCAAAAATGATTTT
1 TAATATATAAAT-TTTCAAAATGTTTTAAAAACTATATATTATATATGTTTTTAAAAATG-TTTT
5512426 AAAAAACTATA
64 AAAAAACTATA
* * * * *
5512437 TATTATATATATTTTCTAAAATGTTTTAAAAACTATATACTATATA-GTTTTCAAAAAATATTTT
1 TAATATATAAATTTTC-AAAATGTTTTAAAAACTATATATTATATATGTTTT-TAAAAATGTTTT
*
5512501 -TAAAACTATA
64 AAAAAACTATA
* * * *
5512511 TATTATGTACATTTTCAAAATGTTTTCAAAAATTATGTATATTATA
1 TAATATATAAATTTTCAAAATGTTTT-AAAAACTA--TATATTATA
5512557 AGTATTTTTA
Statistics
Matches: 217, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
72 40 0.18
73 32 0.15
74 68 0.31
75 40 0.18
76 37 0.17
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (74 bp):
TAATATATAAATTTTCAAAATGTTTTAAAAACTATATATTATATATGTTTTTAAAAATGTTTTAA
AAAACTATA
Found at i:5512316 original size:35 final size:36
Alignment explanation
Indices: 5512239--5512338 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 36
5512229 CCAAAATGCT
* * * * * *
5512239 TTTAAAAACTATATATTATACATGTTTTTAAAAACGT
1 TTTAAAAATTATATA-TATATATATTTTCAGAAACGG
5512276 TTTAAAAACTT-TATA-ATATATATTTTCAGAAACGG
1 TTTAAAAA-TTATATATATATATATTTTCAGAAACGG
5512311 TTTAAAAATTATATATTATATATATTTT
1 TTTAAAAATTATATA-TATATATATTTT
5512339 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 2 0.04
35 27 0.51
37 23 0.43
38 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTAAAAATTATATATATATATATTTTCAGAAACGG
Found at i:5512373 original size:29 final size:31
Alignment explanation
Indices: 5512325--5512387 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
5512315 AAAATTATAT
* **
5512325 ATTATATATATTTTTAAAATATTTTTCAAAA
1 ATTATATATATATTTAAAATATTTTAAAAAA
*
5512356 ATTATATA-ATATTT-AAATGTTTTAAAAAA
1 ATTATATATATATTTAAAATATTTTAAAAAA
5512385 ATT
1 ATT
5512388 CAAAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.54
30 5 0.18
31 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTATATATATATTTAAAATATTTTAAAAAA
Found at i:5512443 original size:113 final size:109
Alignment explanation
Indices: 5512231--5512568 Score: 307
Period size: 113 Copynumber: 3.0 Consensus size: 109
5512221 ATAAATTTCC
* * * * * *
5512231 AAAATGCTTTTAAAAACTATATATTATACATGTTTTTAAAAACGT-TTTAAAAACT-T-TATAAT
1 AAAATG-TTTTAAAAACTATATAATATA-AAGTTTTCAAAAA-ATATTTCAAAACTATATATTAT
* * *
5512293 ATATATTTTCAGAAACGGTTT-AAAAATTATATATTATATATATTTTT
63 ATACATTTTCA-AAATGTTTTAAAAAATTATATATTATATATATTTTT
* *
5512340 AAAATATTTTTCAAAAATTATATAATATTTAAATGTTTT-AAAAAA-A-TTCAAAACTATATATT
1 AAAAT-GTTTT-AAAAACTATATAATA--TAAA-GTTTTCAAAAAATATTTCAAAACTATATATT
*
5512402 ATATA-AGTTTTCAAAAATGATTTTAAAAAACTATATATTATATATATTTTCT
61 ATATACA-TTTTC-AAAATG-TTTTAAAAAATTATATATTATATATATTTT-T
* * * *
5512454 AAAATGTTTTAAAAACTATATACTATATAGTTTTCAAAAAATATTTTTAAAACTATATATTATGT
1 AAAATGTTTTAAAAACTATATAATATAAAGTTTTCAAAAAATA-TTTCAAAACTATATATTATAT
*
5512519 ACATTTTCAAAATGTTTTCAAAAATTATGTATATTATA-AGTATTTTT
65 ACATTTTCAAAATGTTTTAAAAAATTA--TATATTATATA-TATTTTT
5512566 AAA
1 AAA
5512569 GACCGTTTGC
Statistics
Matches: 190, Mismatches: 18, Indels: 39
0.77 0.07 0.16
Matches are distributed among these distances:
109 22 0.12
110 24 0.13
111 35 0.18
112 35 0.18
113 67 0.35
114 7 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (109 bp):
AAAATGTTTTAAAAACTATATAATATAAAGTTTTCAAAAAATATTTCAAAACTATATATTATATA
CATTTTCAAAATGTTTTAAAAAATTATATATTATATATATTTTT
Found at i:5512468 original size:37 final size:37
Alignment explanation
Indices: 5512217--5512568 Score: 242
Period size: 37 Copynumber: 9.4 Consensus size: 37
5512207 CAAATATGTA
* *
5512217 ATATATAAATTTCCAAAATGCTTTTAAAAACTATATATT
1 ATATAT-ATTTTCTAAAATG-TTTTAAAAACTATATATT
* * * *
5512256 ATACATGTTTT-TAAAAACGTTTTAAAAACT-T-TATA
1 ATATATATTTTCT-AAAATGTTTTAAAAACTATATATT
* * *
5512291 ATATATATTTTC-AGAAACGGTTTAAAAATTATATATT
1 ATATATATTTTCTA-AAATGTTTTAAAAACTATATATT
* * *
5512328 ATATATATTTT-TAAAATATTTTTCAAAAATTATATAAT
1 ATATATATTTTCTAAAAT-GTTTT-AAAAACTATATATT
* * *** *
5512366 ATTTAAATGTTT-TAAAA-AAATTCAAAACTATATATT
1 ATATATAT-TTTCTAAAATGTTTTAAAAACTATATATT
*
5512402 ATATA-AGTTTTCAAAAATGATTTTAAAAAACTATATATT
1 ATATATA-TTTTCTAAAATG-TTTT-AAAAACTATATATT
*
5512441 ATATATATTTTCTAAAATGTTTTAAAAACTATATACT
1 ATATATATTTTCTAAAATGTTTTAAAAACTATATATT
* * * *
5512478 ATATA-GTTTTCAAAAAATATTTTTAAAACTATATATT
1 ATATATATTTTC-TAAAATGTTTTAAAAACTATATATT
* * *
5512515 ATGTACATTTTC-AAAATGTTTTCAAAAATTATGTATATT
1 ATATATATTTTCTAAAATGTTTT-AAAAACTA--TATATT
5512554 ATA-AGTATTTT-TAAA
1 ATATA-TATTTTCTAAA
5512569 GACCGTTTGC
Statistics
Matches: 248, Mismatches: 43, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
34 1 0.00
35 30 0.12
36 39 0.16
37 80 0.32
38 39 0.16
39 58 0.23
40 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATATATTTTCTAAAATGTTTTAAAAACTATATATT
Found at i:5513508 original size:250 final size:246
Alignment explanation
Indices: 5513173--5514111 Score: 1156
Period size: 250 Copynumber: 3.8 Consensus size: 246
5513163 TGACAAATAG
* * * * * * * * * *
5513173 CCCTTCTTGCCTTGAGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTATAATCGAACCCGAG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
5513238 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
* * *
5513303 GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
131 GTAGTCGAACTCGAAGGTC-TTTGGTCACAGATAACCCTTCTAGACTTGAGTTATACTGCAAATG
5513368 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTCACAGATAA
195 ATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAA
* * * * * *
5513423 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
*
5513488 GGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
**
5513553 GTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCA-ACTT-ATGTTATACTGCAAA
131 GTAGTCGAACTCGAAGGTCTTTGG-TCACAGATAACCCTTCT-AGACTTGA-GTTATACTGCAAA
** *
5513616 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG-CAGATAG
193 TGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAA
* * * * * *
5513669 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
* * * * * *
5513733 GGTCTTTGGTTGGTAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGC
66 GGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAG-AGC
* * ** * * * *
5513798 TGAGTGTAATCGAACTCGGGGGTCTTTGG---CAGATAGCCCTTCTCGACTTAAGCTATACTGCA
126 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGACTTGAGTTATACTGCA
* * * *
5513860 AATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
191 AATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG-T--CAGATAA
* * *
5513918 CTCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGG
1 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
* *
5513983 GGTCTTTGGCAGATAGCCCTTCTCGACCTAAGCTATACTGCAAATGATGTGCCTTAGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
* * * *
5514048 GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAAT
131 GTAGTCGAACTCGAAGGTC-TTTGGTCACAGATAACCCTTCTAGACTTGAGTTATACTGCAAAT
5514112 AGTTTGTTTA
Statistics
Matches: 590, Mismatches: 80, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
245 82 0.14
246 120 0.20
247 2 0.00
248 1 0.00
249 122 0.21
250 262 0.44
251 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (246 bp):
CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAGC
GTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGACTTGAGTTATACTGCAAATGA
TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAA
Found at i:5514105 original size:165 final size:165
Alignment explanation
Indices: 5513243--5514111 Score: 1253
Period size: 165 Copynumber: 5.2 Consensus size: 165
5513233 CCGAGGGTCT
* * * * * * *
5513243 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAG-AGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
** * * * * * * *
5513307 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
66 TCGAACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGT
* * * *
5513372 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGG
127 GCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
** * * *
5513413 -TCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
* *
5513477 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATGCTGCAAATGATGTGCCT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
5513542 TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
131 TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* *
5513577 TTGGCAGATAACCCTTCTCA-ACTTATGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 TTGGCAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
5513641 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC
65 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC
*
5513706 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
130 TTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
5513742 TTGGTAGATAACCCTTCTCA-ACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1 TTGGCAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
5513806 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC
65 ATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC
*
5513871 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
130 TTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
* *
5513907 TTGGCAGATAACTCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
*
5513972 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACCTAAGCTATACTGCAAATGATGTGCCT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
5514037 TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
131 TAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG
** * * * *
5514073 -TCACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAAT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAAT
5514112 AGTTTGTTTA
Statistics
Matches: 643, Mismatches: 51, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
164 5 0.01
165 524 0.81
166 45 0.07
169 46 0.07
170 23 0.04
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.30
Consensus pattern (165 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
TAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:5518943 original size:20 final size:20
Alignment explanation
Indices: 5518919--5518964 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
5518909 AACAAAATGC
5518919 TAATAAATAAAAAATGAATAA
1 TAATAAATAAAAAAT-AATAA
* *
5518940 -AATATATAAATAATAATAA
1 TAATAAATAAAAAATAATAA
5518959 TAATAA
1 TAATAA
5518965 TGAAAGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
TAATAAATAAAAAATAATAA
Found at i:5520443 original size:37 final size:37
Alignment explanation
Indices: 5520395--5520720 Score: 220
Period size: 37 Copynumber: 8.7 Consensus size: 37
5520385 ATAAATTTCC
*
5520395 AAAATGCTTTTAAAAACTATATATTATACATGTTTTTA
1 AAAATG-TTTTAAAAACTATATATTATATATGTTTTTA
* * * *
5520433 AAAACGTTTTAAAAACT-T-TATAATATATATTTTCA
1 AAAATGTTTTAAAAACTATATATTATATATGTTTTTA
* * * * *
5520468 GAAACGGTTTAAAAATTATATATTATATATATTTTTA
1 AAAATGTTTTAAAAACTATATATTATATATGTTTTTA
* * *
5520505 AAATAT-TTTTCAAAAATTATATAATATTTAAATG-TTTTA
1 AAA-ATGTTTT-AAAAACTATAT-AT-TATATATGTTTTTA
** * * *
5520544 AAAA--AATTCAAAACTATATATTATATAAGTTTTCA
1 AAAATGTTTTAAAAACTATATATTATATATGTTTTTA
*
5520579 AAAATGATTTTAAAAAACTATATATTATATATATTTTCT-
1 AAAATG-TTTT-AAAAACTATATATTATATATGTTTT-TA
* * *
5520618 AAAATGTTTTAAAAACTATATACTATGTA-GTTTTCAA
1 AAAATGTTTTAAAAACTATATATTATATATGTTTT-TA
* * * ** *
5520655 AAAATATTTTTAAAACTATATATTATGTA-CATTTTC
1 AAAATGTTTTAAAAACTATATATTATATATGTTTTTA
*
5520691 AAAATGTTTTCAAAAATTATGTATATTATA
1 AAAATGTTTT-AAAAACTA--TATATTATA
5520721 AGTATTTTCA
Statistics
Matches: 227, Mismatches: 45, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
34 5 0.02
35 37 0.16
36 25 0.11
37 85 0.37
38 24 0.11
39 46 0.20
40 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATATTATATATGTTTTTA
Found at i:5520480 original size:35 final size:36
Alignment explanation
Indices: 5520403--5520502 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 36
5520393 CCAAAATGCT
* * * * * *
5520403 TTTAAAAACTATATATTATACATGTTTTTAAAAACGT
1 TTTAAAAATTATATA-TATATATATTTTCAGAAACGG
5520440 TTTAAAAACTT-TATA-ATATATATTTTCAGAAACGG
1 TTTAAAAA-TTATATATATATATATTTTCAGAAACGG
5520475 TTTAAAAATTATATATTATATATATTTT
1 TTTAAAAATTATATA-TATATATATTTT
5520503 TAAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 2 0.04
35 27 0.51
37 23 0.43
38 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (36 bp):
TTTAAAAATTATATATATATATATTTTCAGAAACGG
Found at i:5520537 original size:29 final size:31
Alignment explanation
Indices: 5520489--5520551 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
5520479 AAAATTATAT
* **
5520489 ATTATATATATTTTTAAAATATTTTTCAAAA
1 ATTATATATATATTTAAAATATTTTAAAAAA
*
5520520 ATTATATA-ATATTT-AAATGTTTTAAAAAA
1 ATTATATATATATTTAAAATATTTTAAAAAA
5520549 ATT
1 ATT
5520552 CAAAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.54
30 5 0.18
31 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTATATATATATTTAAAATATTTTAAAAAA
Found at i:5520607 original size:113 final size:110
Alignment explanation
Indices: 5520381--5520729 Score: 295
Period size: 113 Copynumber: 3.1 Consensus size: 110
5520371 AAAATATGTA
* * * ** * * *
5520381 ATATATAAATTTCCAAAATGCTTTTAAAAACTATATATTATACATGTTTTTAAAAACGT-TTTAA
1 ATATAT-ATTTTCTAAAATG-TTTTAAAAACTATATAATATGTA-GTTTTCAAAAA-ATATTTCA
* * * *
5520445 AAACT-T-TATAATATATATTTTCAGAAACGGTTT-AAAAATTATATATT
62 AAACTATATATTATATACATTTTCA-AAATGTTTTAAAAAATTATATATT
* * *
5520492 ATATATATTTT-TAAAATATTTTTCAAAAATTATATAATATTTAAATGTTTT-AAAAAA-A-TTC
1 ATATATATTTTCTAAAAT-GTTTT-AAAAACTATATAATATGT--A-GTTTTCAAAAAATATTTC
*
5520553 AAAACTATATATTATATA-AGTTTTCAAAAATGATTTTAAAAAACTATATATT
61 AAAACTATATATTATATACA-TTTTC-AAAATG-TTTTAAAAAATTATATATT
* *
5520605 ATATATATTTTCTAAAATGTTTTAAAAACTATATACTATGTAGTTTTCAAAAAATATTTTTAAAA
1 ATATATATTTTCTAAAATGTTTTAAAAACTATATAATATGTAGTTTTCAAAAAATA-TTTCAAAA
* *
5520670 CTATATATTATGTACATTTTCAAAATGTTTTCAAAAATTATGTATATT
65 CTATATATTATATACATTTTCAAAATGTTTTAAAAAATTA--TATATT
5520718 ATA-AGTATTTTC
1 ATATA-TATTTTC
5520730 AAAGACCGTT
Statistics
Matches: 197, Mismatches: 21, Indels: 38
0.77 0.08 0.15
Matches are distributed among these distances:
109 22 0.11
110 27 0.14
111 40 0.20
112 33 0.17
113 68 0.35
114 7 0.04
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (110 bp):
ATATATATTTTCTAAAATGTTTTAAAAACTATATAATATGTAGTTTTCAAAAAATATTTCAAAAC
TATATATTATATACATTTTCAAAATGTTTTAAAAAATTATATATT
Found at i:5522618 original size:4 final size:4
Alignment explanation
Indices: 5522609--5522636 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
5522599 TTTTTAATAG
5522609 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA
5522637 TATAACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:5530174 original size:173 final size:174
Alignment explanation
Indices: 5529879--5530225 Score: 624
Period size: 173 Copynumber: 2.0 Consensus size: 174
5529869 TGGCAGATTT
*
5529879 GGGTCGAACTCCTCCGTATGTGGAAAGTTAATTCAGTTCTCCCTAATAATCCGAAAGGCTTCTTG
1 GGGTCGAACTCCTCCGTATGTGGAAAGTTAATTCAGTTCTCCCTAACAATCCGAAAGGCTTCTTG
*
5529944 CTTTCTTGGCCGCAATTAAGACCAAACTCGTGTATTTGGAGATTTATTCCAGGAGCTGTTTTGTG
66 CTTTCTTGGCCGCAATTAAGACCAAACTCATGTATTTGGAGATTTATTCCAGGAGCTGTTTTGTG
5530009 GTCTGTCTGGCTGTGTAGGAACCAGATTGTATTTAAGAAAGGCA
131 GTCTGTCTGGCTGTGTAGGAACCAGATTGTATTTAAGAAAGGCA
* * *
5530053 GGGTTGAACTCCTCCGTATGTGGAAAGTTAATTCAGTTCTCTCT-ACAATTCGAAAGGCTTCTTG
1 GGGTCGAACTCCTCCGTATGTGGAAAGTTAATTCAGTTCTCCCTAACAATCCGAAAGGCTTCTTG
5530117 CTTTCTTGGCCGCAATTAAGACCAAACTCATGTATTTGGAGATTTATTCCAGGAGCTGTTTTGTG
66 CTTTCTTGGCCGCAATTAAGACCAAACTCATGTATTTGGAGATTTATTCCAGGAGCTGTTTTGTG
* *
5530182 GTTTGTCTGGCTGTGTAGGAACCATATTGTATTTAAGAAAGGCA
131 GTCTGTCTGGCTGTGTAGGAACCAGATTGTATTTAAGAAAGGCA
5530226 AGTTGGATAG
Statistics
Matches: 166, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
173 124 0.75
174 42 0.25
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (174 bp):
GGGTCGAACTCCTCCGTATGTGGAAAGTTAATTCAGTTCTCCCTAACAATCCGAAAGGCTTCTTG
CTTTCTTGGCCGCAATTAAGACCAAACTCATGTATTTGGAGATTTATTCCAGGAGCTGTTTTGTG
GTCTGTCTGGCTGTGTAGGAACCAGATTGTATTTAAGAAAGGCA
Found at i:5538431 original size:85 final size:85
Alignment explanation
Indices: 5538281--5538469 Score: 254
Period size: 85 Copynumber: 2.2 Consensus size: 85
5538271 ATCTACCAGC
* *
5538281 TTTACATCATAGCTCAAGGAGAGAAGGGCTATATGTCAACCAAGACCTTCGAGTTCAATTACATT
1 TTTACAGCATAGCTCAAGGAGAGAAGGGCTATATGTCAACAAAGACCTTCGAGTTCAATTACATT
**
5538346 CAGCTCAAAGGCATATCAAA
66 CAAATCAAAGGCATATCAAA
* * * * * **
5538366 TTTGCGGCATAGCTCAAGGTGAGAAGGGTTATCA-GTCAGCAAAGACCTTCGAGTTTGATTACAT
1 TTTACAGCATAGCTCAAGGAGAGAAGGGCTAT-ATGTCAACAAAGACCTTCGAGTTCAATTACAT
5538430 TCAAATCAAAGGCATATCAAA
65 TCAAATCAAAGGCATATCAAA
*
5538451 TTTACAGCATAACTCAAGG
1 TTTACAGCATAGCTCAAGG
5538470 CGACCAAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 88 0.99
86 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (85 bp):
TTTACAGCATAGCTCAAGGAGAGAAGGGCTATATGTCAACAAAGACCTTCGAGTTCAATTACATT
CAAATCAAAGGCATATCAAA
Found at i:5540374 original size:85 final size:84
Alignment explanation
Indices: 5540231--5540473 Score: 378
Period size: 85 Copynumber: 2.9 Consensus size: 84
5540221 GAAGTTATCA
*
5540231 AAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAATGCATATCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAA-GCATATCAAATTT
5540296 ACATCATAACTCAAGGCGAG
65 ACATCATAACTCAAGGCGAG
*
5540316 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTTAAAGACATATCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAG-CATATCAAATTT
*
5540381 ACATCATAATTCAAGGCGAG
65 ACATCATAACTCAAGGCGAG
* * * * *
5540401 AAGGGTTATCTATCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAA-AGCATATCAAATTT
*
5540466 ACAGCATA
65 ACATCATA
5540474 GCTTAAGTCG
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 1 0.01
85 144 0.99
86 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (84 bp):
AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGCATATCAAATTTA
CATCATAACTCAAGGCGAG
Found at i:5540496 original size:85 final size:84
Alignment explanation
Indices: 5540231--5540534 Score: 367
Period size: 85 Copynumber: 3.6 Consensus size: 84
5540221 GAAGTTATCA
* *
5540231 AAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAATGCATATCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
*
5540296 ACATCATAACTCAAGGCGAG
66 ACATCAT-ACTTAAGGCGAG
* *
5540316 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTTAAAGACATATCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
*
5540381 ACATCATAATTCAAGGCGAG
66 ACATCATACTT-AAGGCGAG
* * * * *
5540401 AAGGGTTATCTATCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTT
1 AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * *
5540466 ACAGCATAGCTTAAGTCGAT
66 ACATCATA-CTTAAGGCGAG
** * * * * *
5540486 AAAAGCTATCTGTCAATAAAAAACTATCGAGTTTGATT-CTATTCAGCTC
1 AAGGGTTATCTGTCAACAAAGACCT-TCGAGTTCGATTAC-ATTCAGCTC
5540535 GATGACACAT
Statistics
Matches: 190, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
84 2 0.01
85 166 0.87
86 22 0.12
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (84 bp):
AAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
ACATCATACTTAAGGCGAG
Found at i:5541972 original size:84 final size:85
Alignment explanation
Indices: 5541630--5542013 Score: 394
Period size: 85 Copynumber: 4.5 Consensus size: 85
5541620 ACATGTCATC
* * * * * * ** * * *
5541630 GAGCTGAATGGAATCGAACTCAATAGTTTTTTATTGACATATAACTTTTCTTGACTTAAGTTAT-
1 GAGCTGAATGAAATCGAACTCGA-AGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
* * *
5541694 ACTGTAAATTTTACATGCCCTT
65 A-TATAAATTTGATATGCCCTT
* *
5541716 GAGCTGAATGAAATCGAACTCGAAGGTATTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATCA
1 GAGCTGAATGAAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGA
*
5541781 TATAAATTTGATATGCCTTT
66 TATAAATTTGATATGCCCTT
* * * * ** * * *
5541801 GAGTTGAATGTAATCGAACTCGAAGGTCTTTGCTGACAGGTTGCCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAATGAAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGA
*
5541866 CATAAATTTGATATGCCCTT
66 TATAAATTTGATATGCCCTT
* * * *
5541886 GAGCTGAATGTAATCAAACTCGAAGGT-TTTGTTGACAGATAACCCTTATCGCCTTGAGTTATGT
1 GAGCTGAATGAAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGA
* *
5541950 TGTAAATTTGATATGCCTTT
66 TATAAATTTGATATGCCCTT
* * * * *
5541970 GAGCTGAACGAAATCGAACTCAAAAGTCTTCGTTGACATATAAC
1 GAGCTGAATGAAATCGAACTCGAAGGTCTTTGTTGACAGATAAC
5542014 TTTTATCAAC
Statistics
Matches: 248, Mismatches: 48, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
84 68 0.27
85 158 0.64
86 22 0.09
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGAAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGA
TATAAATTTGATATGCCCTT
Found at i:5543244 original size:13 final size:13
Alignment explanation
Indices: 5543210--5543238 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5543200 TTTTCCTTTG
5543210 TTTTTA-TTTCTC
1 TTTTTATTTTCTC
5543222 TTTTTATTTTCTC
1 TTTTTATTTTCTC
5543235 TTTT
1 TTTT
5543239 CTTTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTCTC
Found at i:5543467 original size:2 final size:2
Alignment explanation
Indices: 5543460--5543513 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
5543450 ATAACAAGGG
5543460 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5543502 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5543514 GTATGGATAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5550782 original size:23 final size:23
Alignment explanation
Indices: 5550714--5550774 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
5550704 CAATCTTATA
* *
5550714 TGGCACTACGGTGTAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
5550737 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
5550760 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
5550775 TTTATACGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:5552623 original size:21 final size:19
Alignment explanation
Indices: 5552578--5552632 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
5552568 AAAGAGAGAG
5552578 AAAAAAT-AAAT-AAATTT
1 AAAAAATAAAATAAAATTT
*
5552595 AGAAAATAACAATAAAATGTT
1 AAAAAATAA-AATAAAAT-TT
5552616 AAAAAATAAAAATAAAA
1 AAAAAAT-AAAATAAAA
5552633 ATGAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 3 0.10
20 4 0.13
21 15 0.48
22 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAAAATAAAATAAAATTT
Found at i:5552642 original size:21 final size:21
Alignment explanation
Indices: 5552595--5552642 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
5552585 AAATAAATTT
*
5552595 AGAAAATAACAATAAAATGTTA
1 AGAAAATAAAAATAAAATG-TA
5552617 A-AAAATAAAAATAAAAATG-A
1 AGAAAATAAAAAT-AAAATGTA
5552637 AGAAAA
1 AGAAAA
5552643 ATGTTTAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 2 0.09
21 14 0.61
22 7 0.30
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (21 bp):
AGAAAATAAAAATAAAATGTA
Found at i:5552753 original size:2 final size:2
Alignment explanation
Indices: 5552746--5552770 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5552736 AAAGAAAAGA
5552746 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5552771 AATAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5553148 original size:216 final size:217
Alignment explanation
Indices: 5552794--5553228 Score: 773
Period size: 216 Copynumber: 2.0 Consensus size: 217
5552784 AAATGTAAAT
* * *
5552794 GATCAAAATAGTAAAAACAAAAGGTTAAAGGACTAAAATATCAAAAATAGAAATTTAAGGGTTTA
1 GATCAAAATAGCAAAAACAAAAGGTTAAAGGACTAAAATATCAAAAATAGAAATTTAAGGCTCTA
*
5552859 AACTGGTATTAACAGAAACTAAAATGACTAAACAATAAATACAAAATAAATTAGAGCCCAATAAT
66 AACTGGTATTAACAGAAACTAAAATGACTAAACAATAAATACAAAATAAATCAGAGCCCAATAAT
*
5552924 CAATTAAAATAAATACAGGGACCAGAAACTAAAATAACCCAAAAATAACATTTACAGATTAAAAT
131 CAATTAAAATAAATACAGGAACCAGAAACTAAAATAACCCAAAAATAACATTTACAGATTAAAAT
5552989 AAAATAAACAAGAAACATGGAG
196 AAAATAAACAAGAAACATGGAG
*
5553011 GATCAAAATAGCAAAAACAAAAGGTTAAA-GACTAAAATATTAAAAATAGAAATTTAAGGCTCTA
1 GATCAAAATAGCAAAAACAAAAGGTTAAAGGACTAAAATATCAAAAATAGAAATTTAAGGCTCTA
* **
5553075 AACTGGTATTAACAGAAACTAAAATGACTAAACAATAATTGTAAAATAAATCAGAGCCCAATAAT
66 AACTGGTATTAACAGAAACTAAAATGACTAAACAATAAATACAAAATAAATCAGAGCCCAATAAT
*
5553140 CAATTAAAATAAATATAGGAACCAGAAACTAAAATAACCCAAAAATAACATTTACAGATTAAAAT
131 CAATTAAAATAAATACAGGAACCAGAAACTAAAATAACCCAAAAATAACATTTACAGATTAAAAT
5553205 AAAATAAACAAGAAACATGGAG
196 AAAATAAACAAGAAACATGGAG
5553227 GA
1 GA
5553229 CTAAACAATA
Statistics
Matches: 208, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
216 180 0.87
217 28 0.13
ACGTcount: A:0.57, C:0.12, G:0.11, T:0.20
Consensus pattern (217 bp):
GATCAAAATAGCAAAAACAAAAGGTTAAAGGACTAAAATATCAAAAATAGAAATTTAAGGCTCTA
AACTGGTATTAACAGAAACTAAAATGACTAAACAATAAATACAAAATAAATCAGAGCCCAATAAT
CAATTAAAATAAATACAGGAACCAGAAACTAAAATAACCCAAAAATAACATTTACAGATTAAAAT
AAAATAAACAAGAAACATGGAG
Found at i:5554514 original size:19 final size:19
Alignment explanation
Indices: 5554472--5554520 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5554462 TATAATATGT
* * *
5554472 ATATTATATTATTATATTA
1 ATATTATTTTATTAAACTA
*
5554491 CTATTATTTTATTAAACTA
1 ATATTATTTTATTAAACTA
5554510 ATATT-TTTTAT
1 ATATTATTTTAT
5554521 GTACAACCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
ATATTATTTTATTAAACTA
Found at i:5555961 original size:29 final size:28
Alignment explanation
Indices: 5555884--5555961 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 28
5555874 GTTAATACCA
* *
5555884 ATTTTGA-CCCTTAAATTTCTGTTTTGAT
1 ATTTTGATCCTTTACATTT-TGTTTTGAT
* *
5555912 ATTTT-AGTCCTTTAACCTTTTGTTTTTGCT
1 ATTTTGA-TCCTTT-ACATTTTG-TTTTGAT
5555942 ATTTTGATCCTTTACATTTT
1 ATTTTGATCCTTTACATTTT
5555962 TATTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 1 0.03
28 5 0.12
29 12 0.30
30 21 0.52
31 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (28 bp):
ATTTTGATCCTTTACATTTTGTTTTGAT
Found at i:5556080 original size:23 final size:25
Alignment explanation
Indices: 5556054--5556104 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
5556044 TTTTTTAACA
*
5556054 TTTTTCTT-CATTTTT-TTTTTATT
1 TTTTTCTTACATTTTTATTGTTATT
5556077 TTTTTCTTAACATTTTTATTGTTATT
1 TTTTTCTT-ACATTTTTATTGTTATT
5556103 TT
1 TT
5556105 CTCAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
25 7 0.29
26 9 0.38
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTTCTTACATTTTTATTGTTATT
Found at i:5561135 original size:22 final size:23
Alignment explanation
Indices: 5561102--5561150 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
5561092 TTGAAGAGAG
*
5561102 AAAATGAGAGGAAGAAGAA-GAAA
1 AAAATGAGAGGAA-AAAAATGAAA
5561125 AAAATGA-AGGAAAAAAATGAAA
1 AAAATGAGAGGAAAAAAATGAAA
5561147 AAAA
1 AAAA
5561151 AATTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.06
Consensus pattern (23 bp):
AAAATGAGAGGAAAAAAATGAAA
Found at i:5561139 original size:13 final size:12
Alignment explanation
Indices: 5561118--5561153 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
5561108 AGAGGAAGAA
5561118 GAAGAAAAAAAT
1 GAAGAAAAAAAT
5561130 GAAGGAAAAAAAT
1 GAA-GAAAAAAAT
5561143 GAA-AAAAAAAT
1 GAAGAAAAAAAT
5561154 TATTTAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 3 0.13
13 12 0.52
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (12 bp):
GAAGAAAAAAAT
Found at i:5566247 original size:182 final size:183
Alignment explanation
Indices: 5565938--5566611 Score: 1013
Period size: 182 Copynumber: 3.7 Consensus size: 183
5565928 TGTCGGTTTA
* *
5565938 TGTCGATACTTTATAA-AACTGTATCGATCCACATCAATATAACAGGTAAAAATATGACAAAACC
1 TGTCGATACTTTATAACAA-TGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
* *
5566002 GGTCTCGAAA-AGACAAAACC-G-ATAAAGCGGTACCAGATATATTGAAAGTGACGATACTTTAA
65 GGTCTCGAAAGAGACAAAACCGGTATAGAGC-G-ACCAGATATATTGAAAGTGTCGATACTTTAA
*
5566064 TATAAGTATCGACACTTTGTGAATATAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
128 TATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* *
5566120 TGTCGATACTTTATAACAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
5566185 GTTTCTAAAGAG-CAAAATCGGTATAGAGCGACCAGATATATTGAAAATGTCGATATTTTAATAT
66 GTCTCGAAAGAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATAT
*
5566249 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGTCTATAAAG
131 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
**
5566302 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAATTG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* *
5566367 GTCTCTAAAG-GACAAAACCAGTATAGAGCGACC-GAATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCGAAAGAGACAAAACCGGTATAGAGCGACCAG-ATATATTGAAAGTGTCGATACTTTAATA
5566430 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
5566484 TGTCGATACTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGAAAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * * * *
5566549 ATCTCGAAA-TGACAAAACCGGTAGAGCGCTACCAGAAATATTGAAAGTGTCGACACTTTAATA
66 GTCTCGAAAGAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATA
5566612 AGTACGCCTA
Statistics
Matches: 450, Mismatches: 34, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
181 2 0.00
182 435 0.97
183 7 0.02
184 6 0.01
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (183 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAGAGACAAAACCGGTATAGAGCGACCAGATATATTGAAAGTGTCGATACTTTAATAT
AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:5568978 original size:21 final size:21
Alignment explanation
Indices: 5568954--5568996 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5568944 CCTCCTTCTC
5568954 AAACAATCA-AGAGTCGAAGAG
1 AAAC-ATCAGAGAGTCGAAGAG
* *
5568975 AAACTTGAGAGAGTCGAAGAG
1 AAACATCAGAGAGTCGAAGAG
5568996 A
1 A
5568997 CACTTGAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.12, G:0.28, T:0.12
Consensus pattern (21 bp):
AAACATCAGAGAGTCGAAGAG
Found at i:5569001 original size:21 final size:21
Alignment explanation
Indices: 5568963--5569005 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5568953 CAAACAATCA
5568963 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
5568984 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
5569005 A
1 A
5569006 TGCATAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.33, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:5569271 original size:18 final size:18
Alignment explanation
Indices: 5569248--5569304 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
5569238 GAAAAAATAT
5569248 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
5569266 GAAGAAAAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
5569284 GAAGAAGAAAATATGGAG
1 GAAGAAGAAAAGATGGAG
5569302 GAA
1 GAA
5569305 ATGAGGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.07
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:5570882 original size:19 final size:19
Alignment explanation
Indices: 5570858--5570906 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5570848 AATGTAGGGT
5570858 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5570877 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
5570896 TAATTTTGTAT
1 TAATTTTGTAT
5570907 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5571238 original size:15 final size:15
Alignment explanation
Indices: 5571215--5571268 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
5571205 ATCCAGTATG
*
5571215 GTTCTCAAACGTAAA
1 GTTCCCAAACGTAAA
5571230 GTTCCCAAACGTAAA
1 GTTCCCAAACGTAAA
* *
5571245 GTTCTCAAACATAAA
1 GTTCCCAAACGTAAA
*
5571260 GTTTCCAAA
1 GTTCCCAAA
5571269 AATAGGTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (15 bp):
GTTCCCAAACGTAAA
Found at i:5572010 original size:199 final size:199
Alignment explanation
Indices: 5571284--5572441 Score: 1423
Period size: 200 Copynumber: 5.8 Consensus size: 199
5571274 GTAAGCAGAT
* * * *
5571284 GTGTCGATACATTTATAAAAAGTATCGATTCCAAAAACATAGAAATCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
5571349 -ATAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
* * *
5571413 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACAC
131 ATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
5571478 ATAAA
195 ATAAA
*
5571483 GTGTCAATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* ** *** * * * * *
5571548 GGTAAATTTACAATGTAACCAAAATAACTATATCGGTTTTATGAGAGAATAGGTCTACATAATAT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
* * * * *
5571613 ATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTGCATC-
131 ATCGACACTT-TGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTG-AACG
5571677 CATAAA
194 CATAAA
* * * * * *
5571683 GAGTCGATACATTTTTTAAAAGTGTCGATCTCAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* *
5571748 GGTAATTTTGTAATGTAACCGGTATAAATATATCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
* * *
5571813 ATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGTTGAACGC
131 ATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
5571878 ATAAA
195 ATAAA
* *
5571883 GTGTCGATACATTTTTAAAAAGTATCGATCCCAGAGACATCG-AACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
5571947 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
* ** * * *
5572012 ATCAACACTTTTTAATTATGTGTCGATACATTTTGTCCAGAATAAATGCCCAAAAAGATGGTGCA
131 ATCGACACTTTGAAATT-TGTGTCGATACTTTTTGTCCAGAATGAATGCCC--AAA-ATGGTGAA
*
5572077 TGCATAAA
192 CGCATAAA
* * * * *
5572085 GTGTCAATACATTTATAAAAAGTATCTATCCCAGAAACGTCGAAATCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
5572150 AGTAATTTT-TCAATGTAACCGGTATAAATATACCAGTTTTATGCT-AGAATATGTCTAGAAAAT
66 GGTAATTTTGT-AATGTAACCGGTATAAATATACCGGTTTTATG-TGAGAATATGTCTACATAAT
* * * * * *
5572213 GTATCGACACTTTTGGAATTTGTGTTGATACTTTTTGTCTAGAAGGAATG-CCAAAAGGGTGCAC
129 GTATCGACAC-TTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
* *
5572277 CCATTAA
193 GCATAAA
* * * * *
5572284 GTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
5572349 GGTAAATTTCTAATGTAATCGGTATAAATATACC-GTTTTATGAGAAAATATGTC-AGAATAAAG
66 GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTA-CATAATG
* * *
5572412 TATTGACAATTGTTAAATTTGTGTCGATAC
130 TATCGACACTT-TGAAATTTGTGTCGATAC
5572442 CATTTTAAAA
Statistics
Matches: 831, Mismatches: 111, Indels: 35
0.85 0.11 0.04
Matches are distributed among these distances:
197 3 0.00
198 50 0.06
199 281 0.34
200 320 0.39
201 7 0.01
202 53 0.06
203 109 0.13
204 8 0.01
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACATAATGT
ATCGACACTTTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:5572249 original size:402 final size:399
Alignment explanation
Indices: 5571284--5572402 Score: 1534
Period size: 402 Copynumber: 2.8 Consensus size: 399
5571274 GTAAGCAGAT
* * *
5571284 GTGTCGATACATTTATAAAAAGTATCGATTCCAAAAACATAGAAATCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATGTAATA
* *
5571349 A-TAATTTTGTAATATAACCGATATAAATATACCGATTTTATGTGAGAATATGTCTACATAATGT
66 AGTAATTTTGTAATGTAACCGGTATAAATATACCG-TTTTATGTGAGAATATGTCTACATAATGT
*
5571413 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCATAATGAATGCCCAAAATGGTGAACAC
130 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACAC
* *
5571478 ATAAAGTGTCAATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATG
195 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATG
* *** * * *
5571543 TAATAGGTAAATTTACAATGTAACCAAAATAACTATATCGGTTTTATGAGAGAATAGGTCTACAT
260 TAATAGGTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACAT
* *
5571608 AATATATCGACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGGAATGCCCAAAAGGGTG
325 AATATATCAACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGAAATGCCCAAAAGGGTG
5571673 CATCCATAAA
390 CATCCATAAA
* * * * * * *
5571683 GAGTCGATACATTTTTTAAAAGTGTCGATCTCAGAGACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATGTAATA
* * *
5571748 GGTAATTTTGTAATGTAACCGGTATAAATATATCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 AGTAATTTTGTAATGTAACCGGTATAAATATA-CCGTTTTATGTGAGAATATGTCTACATAATGT
* * *
5571813 ATCGACACATTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGTTGAACGC
130 ATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACAC
*
5571878 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAGAGACATCG-AACCCATAATTATAATG
195 ATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATG
* * *
5571942 TAATAGGTAATTTTGTAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATATGTCTACAT
260 TAATAGGTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACAT
* ** *
5572007 AATGTATCAACACTT-TTTAATTATGTGTCGATACAT-TTTGTCCAGAATAAATGCCCAAAAAGA
325 AATATATCAACACTTCTGGAATT-TGTGTCGATAC-TGTTTGTCCAGAAGAAATGCCC-AAAAG-
*
5572070 TGGTGCATGCATAAA
386 -GGTGCATCCATAAA
* * * *
5572085 GTGTCAATACATTTATAAAAAGTATCTATCCCAGAAACGTCGAAATCCATGATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATGTAATA
* *
5572150 AGTAATTTT-TCAATGTAACCGGTATAAATATACCAGTTTTATGCT-AGAATATGTCTAGAAAAT
66 AGTAATTTTGT-AATGTAACCGGTATAAATATACC-GTTTTATG-TGAGAATATGTCTACATAAT
* * * * * * * *
5572213 GTATCGACACTTTTGGAATTTGTGTTGATACTTTTTGTCTAGAAGGAATG-CCAAAAGGGTGCAC
128 GTATCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAAC
* * * * *
5572277 CCATTAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAA
193 ACATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAA
* * * *
5572342 AGTAATAGGTAAATTTCTAATGTAATCGGTATAAATATACC-GTTTTATGAGAAAATATGTC
258 TGTAATAGGTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTC
5572403 AGAATAAAGT
Statistics
Matches: 632, Mismatches: 77, Indels: 20
0.87 0.11 0.03
Matches are distributed among these distances:
398 5 0.01
399 169 0.27
400 167 0.26
401 77 0.12
402 213 0.34
403 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.32
Consensus pattern (399 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAATCCATAATTATAATGTAATA
AGTAATTTTGTAATGTAACCGGTATAAATATACCGTTTTATGTGAGAATATGTCTACATAATGTA
TCGACACTTTTGAAATTGGTGTCGATACTTTTTGTCCAAAATGAATGCCCAAAATGGTGAACACA
TAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACATA
ATATATCAACACTTCTGGAATTTGTGTCGATACTGTTTGTCCAGAAGAAATGCCCAAAAGGGTGC
ATCCATAAA
Found at i:5577120 original size:200 final size:198
Alignment explanation
Indices: 5576647--5577411 Score: 989
Period size: 199 Copynumber: 3.9 Consensus size: 198
5576637 TAAAGTTTCC
* * * *
5576647 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATTATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * * * * *
5576712 GTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGCGAGAATAGGTCTAGA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACA
** *
5576777 -AAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAGGGT
131 TAAA-GTATCGACACTT-TTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGT
*
5576841 ACACC
194 ACACG
** *
5576846 CATTTAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * **
5576911 GTAATAGGTAAATTTCCAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATATGTCGGCA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACA
* * * * * *
5576976 TAAAGTATTGACAATTGTTAAATTCGTATCGATATTTTTTGTCCAAAATGAATGCCAAAAGGGTT
131 TAAAGTATCGACACTT-TTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGG-T
5577041 ACACG
194 ACACG
5577046 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * *
5577111 ATAATAGGTAAATTTACAATGTAACCTGTATAAATATACCAGTTTTATGAGAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACA
* * * * ** *
5577176 TAATGTATTGACACGTTTTAGATTTGTGTCGATACGTTTTGTCCAGAATGAATGCCAACGGGGTG
131 TAAAGTATCGACAC-TTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTA
*
5577241 CAGG
195 CACG
* * * ** *
5577245 GACAAAGT-TACGAT--ATTTTGAAATTGTATCGATCCCAATAACATCGAAACCGATAATTATAA
1 CATAAAGTGT-CGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* *
5577307 TGTAATAGGTAAATTTACAATGTAATCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAAC
* *
5577372 ATAATGTATCGACACTTTTAAATTTATGTCGATACTTTTT
130 ATAAAGTATCGACACTTTTAAATTTGTGTCGATACTTTTT
5577412 AAATAATGCA
Statistics
Matches: 494, Mismatches: 68, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
196 22 0.04
197 117 0.24
198 1 0.00
199 176 0.36
200 176 0.36
201 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAACA
TAAAGTATCGACACTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAAAGGGTAC
ACG
Found at i:5577203 original size:399 final size:396
Alignment explanation
Indices: 5576647--5577395 Score: 1034
Period size: 399 Copynumber: 1.9 Consensus size: 396
5576637 TAAAGTTTCC
* *
5576647 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATTATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * * * * * * *
5576712 GTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTATGCGAGAATAGGTCTAGA
66 ATAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACA
* *
5576777 AAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCAAAAGGGTA
131 AAATGTATCGACACTTCTAGAATTTGTGTCGATACGTTTTGTCCAGAAGGAATGCCAAAAGGGTA
*** * *
5576842 CACCCATTTAGTGT-CGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCGATAATT
196 CACCCACAAAGT-TACGAT--ATTTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATT
* *
5576906 ATAATGTAATAGGTAAATTTCCAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATATGT
258 ATAATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT
** *
5576971 CGGCATAAAGTATTGACAATTGTTAAATTCGTATCGATATTTTTTGTCCAAAATGAATGCCAAAA
323 CAACATAAAGTATCGACAATT-TTAAATTCGTATCGATATTTTTTGTCCAAAATGAATGCCAAAA
5577036 GGGTTACACG
387 GGGTTACACG
* *
5577046 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* *
5577111 ATAATAGGTAAATTTACAATGTAACCTGTATAAATATACCAGTTTTATGAGAAAATAGGTGAACA
66 ATAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACA
* * * * **
5577176 TAATGTATTGACACGTTTTAG-ATTTGTGTCGATACGTTTTGTCCAGAATGAATGCCAACGGGGT
131 AAATGTATCGACAC-TTCTAGAATTTGTGTCGATACGTTTTGTCCAGAAGGAATGCCAAAAGGGT
* *** ** *
5577240 GCAGGGACAAAGTTACGATATTTTGAAATTGTATCGATCCCAATAACATCGAAACCGATAATTAT
195 ACACCCACAAAGTTACGATATTTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAT
* * *
5577305 AATGTAATAGGTAAATTTACAATGTAATCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCA
260 AATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCA
* *
5577370 ACATAATGTATCGACACTTTTAAATT
325 ACATAAAGTATCGACAATTTTAAATT
5577396 TATGTCGATA
Statistics
Matches: 303, Mismatches: 45, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
396 7 0.02
397 115 0.38
398 1 0.00
399 176 0.58
400 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (396 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
ATAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACA
AAATGTATCGACACTTCTAGAATTTGTGTCGATACGTTTTGTCCAGAAGGAATGCCAAAAGGGTA
CACCCACAAAGTTACGATATTTTGAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATA
ATGTAATAGGTAAATTTACAATATAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAA
CATAAAGTATCGACAATTTTAAATTCGTATCGATATTTTTTGTCCAAAATGAATGCCAAAAGGGT
TACACG
Found at i:5579577 original size:21 final size:21
Alignment explanation
Indices: 5579535--5579577 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5579525 TTTCTGGGCT
*
5579535 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
5579556 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
5579577 A
1 A
5579578 ACGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:5580307 original size:103 final size:102
Alignment explanation
Indices: 5580123--5580440 Score: 591
Period size: 103 Copynumber: 3.1 Consensus size: 102
5580113 GTAGAGGGTC
5580123 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGT-CTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5580188 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
5580226 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTC-TTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5580291 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5580329 TATGTGGTTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGG-TCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5580394 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
65 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5580432 TATGTGGTC
1 TATGTGGTC
5580441 CTTATAGAAA
Statistics
Matches: 209, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
102 3 0.01
103 204 0.98
104 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.37
Consensus pattern (102 bp):
TATGTGGTCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACT
TGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5580486 original size:23 final size:23
Alignment explanation
Indices: 5580460--5580522 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
5580450 ATTATTATAT
5580460 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * *
5580483 GGCACTCCGGTGCAATTTTACGT
1 GGCACTACGGTGCAATTCTACGC
5580506 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
5580523 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:5586600 original size:21 final size:21
Alignment explanation
Indices: 5586558--5586600 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5586548 TTTCTGGGCT
*
5586558 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
5586579 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
5586600 A
1 A
5586601 AAGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:5587474 original size:103 final size:103
Alignment explanation
Indices: 5587146--5587466 Score: 615
Period size: 103 Copynumber: 3.1 Consensus size: 103
5587136 GTAGAGGGTC
5587146 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5587211 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
5587249 TATGTGGTCCTTTGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
5587314 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5587352 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
5587417 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
5587455 TATGTGGTCCTT
1 TATGTGGTCCTT
5587467 ATGGACATTA
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:5587510 original size:23 final size:22
Alignment explanation
Indices: 5587483--5587545 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
5587473 ATTATTATAT
5587483 GGCACTATGGTGCAATTCTACGC
1 GGCACT-TGGTGCAATTCTACGC
* * *
5587506 GGCACTCCGGTGCAATTTTACGT
1 GGCACT-TGGTGCAATTCTACGC
5587529 GGCACTTAGGTGCAATT
1 GGCACTT-GGTGCAATT
5587546 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (22 bp):
GGCACTTGGTGCAATTCTACGC
Found at i:5587866 original size:19 final size:19
Alignment explanation
Indices: 5587842--5587888 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
5587832 AATGTAGGGT
5587842 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
5587861 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
5587880 TAATTTTGT
1 TAATTTTGT
5587889 GTGTGAATGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Done.