Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 83 of 171
Found at i:27682966 original size:119 final size:120
Alignment explanation
Indices: 27682809--27683146 Score: 497
Period size: 119 Copynumber: 2.8 Consensus size: 120
27682799 AACAAGGTTA
* * *
27682809 AAAATGAAATTTTGG-AAAG-TTTGAGGGT-AAAATGGTAATTTTTG-AAAGTTTTAGGGTTAAT
1 AAAATGTAATTTTGGAAAAGTTTTG-GGGTCAAAAT-GTAATTTTAGAAAAGTTTTAGGGTTAAA
*
27682870 ATATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTGTGGAAAAGTTTTGGGGTC
64 ATATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTGTGGAAAAGTTTCGGGGTC
* *
27682927 AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAAT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTTAAAAT
* * *
27682992 ATAATTTTGGAAAAGTTTT-GGGTCAAAATGTAATTTTGGAAAAGTTTCGGGGTC
66 ATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTGTGGAAAAGTTTCGGGGTC
* * *
27683046 AAAATATAATTATGGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAAT
1 AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTTAAAAT
* *
27683111 ATAATTTTAGAAAAGTTTTGGGGTTTAAATATAATT
66 ATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATT
27683147 TTTGGATAAT
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
118 14 0.07
119 127 0.64
120 56 0.28
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (120 bp):
AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTTAAAAT
ATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTGTGGAAAAGTTTCGGGGTC
Found at i:27683095 original size:149 final size:148
Alignment explanation
Indices: 27682809--27683148 Score: 470
Period size: 149 Copynumber: 2.3 Consensus size: 148
27682799 AACAAGGTTA
* * * * * *
27682809 AAAATGAAATTTT-GGAAAG-TTTGAGGGTAAAATGGTAATTTTTGAAAGTTTTAGGGTTAATAT
1 AAAATGTAATTTTAGAAAAGTTTTG-GGGTAAAAT-ATAATTTTGGAAAGTTTTAGGGTCAAAAT
* * * *
27682872 ATAATTTTAGAAAAGTTTTGGGGTTAAAATGTAATTGTGGAAAAGTTTTGGGGTCAAAATGTAAT
64 ATAATTTTAGAAAAGTTTCGGGGTCAAAATATAATTATGGAAAAGTTTTGGGGTCAAAATGTAAT
*
27682937 TTTGGAAAAGTTTTGGGGTC
129 TTTGGAAAAGTTTTAGGGTC
27682957 AAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTT-GGGTCAAAAT
1 AAAATGTAATTTTAGAAAAGTTTTGGGGT-AAAATATAATTTTGG-AAAGTTTTAGGGTCAAAAT
* *
27683021 GTAATTTTGGAAAAGTTTCGGGGTCAAAATATAATTATGGAAAAGTTTTGGGGTCAAAATGTAAT
64 ATAATTTTAGAAAAGTTTCGGGGTCAAAATATAATTATGGAAAAGTTTTGGGGTCAAAATGTAAT
*
27683086 TTTGGAAAAGTTTTAGGGTT
129 TTTGGAAAAGTTTTAGGGTC
* *
27683106 AAAATATAATTTTAGAAAAGTTTTGGGGTTTAAATATAATTTT
1 AAAATGTAATTTTAGAAAAGTTTTGGGG-TAAAATATAATTTT
27683149 TGGATAATTT
Statistics
Matches: 171, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
148 12 0.07
149 141 0.82
150 18 0.11
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (148 bp):
AAAATGTAATTTTAGAAAAGTTTTGGGGTAAAATATAATTTTGGAAAGTTTTAGGGTCAAAATAT
AATTTTAGAAAAGTTTCGGGGTCAAAATATAATTATGGAAAAGTTTTGGGGTCAAAATGTAATTT
TGGAAAAGTTTTAGGGTC
Found at i:27684999 original size:6 final size:6
Alignment explanation
Indices: 27684947--27685038 Score: 61
Period size: 6 Copynumber: 15.8 Consensus size: 6
27684937 TTTTTTAATG
* * ** * *
27684947 TTAAAT TTAATGT TTTAAT TTTTAT TTAAAT TTAAAT TCAAA- GTAAAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
27684995 TTAAAT AATTAAA- TT--AT TTAAAT TTAAAT TTAAA- -TAAAT TTAAA
1 TTAAAT --TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
27685039 ATCAATTTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 18
0.71 0.11 0.19
Matches are distributed among these distances:
3 1 0.01
4 6 0.09
5 5 0.07
6 46 0.69
7 4 0.06
8 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:27685040 original size:23 final size:23
Alignment explanation
Indices: 27684970--27685040 Score: 51
Period size: 23 Copynumber: 3.1 Consensus size: 23
27684960 TTTAATTTTT
*
27684970 ATTTAAATTTAAATTCAAA-GT-AA
1 ATTTAAATTTAAA-T-AAATTTAAA
*
27684993 ATTTAAATAATTAAAT-TATTTAAA
1 ATTTAAAT--TTAAATAAATTTAAA
*
27685017 T-TTAAATTTAAATAAATTTAAA
1 ATTTAAATTTAAATAAATTTAAA
27685039 AT
1 AT
27685041 CAATTTAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
21 6 0.16
22 8 0.22
23 15 0.41
24 3 0.08
25 5 0.14
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (23 bp):
ATTTAAATTTAAATAAATTTAAA
Found at i:27685177 original size:2 final size:2
Alignment explanation
Indices: 27685165--27685207 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27685155 TAATATCAAA
27685165 AT AT A- 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
27685206 AT
1 AT
27685208 TCTACAACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27686215 original size:6 final size:6
Alignment explanation
Indices: 27686190--27686228 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
27686180 ACAATTCATA
* * *
27686190 TCACTT TCAATT TTAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
27686229 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (6 bp):
TCACTT
Found at i:27695875 original size:25 final size:24
Alignment explanation
Indices: 27695835--27695882 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
27695825 TTAGTATTTA
*
27695835 TAAAAAATTAATATTTAATTTAAT
1 TAAAAAATTAAAATTTAATTTAAT
*
27695859 TAAAAAATGTAAAATTTATTTTAA
1 TAAAAAAT-TAAAATTTAATTTAA
27695883 AAATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAAAAAATTAAAATTTAATTTAAT
Found at i:27696111 original size:13 final size:13
Alignment explanation
Indices: 27696093--27696118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27696083 AAATTATGTT
27696093 TATTTAATTAAAA
1 TATTTAATTAAAA
27696106 TATTTAATTAAAA
1 TATTTAATTAAAA
27696119 AATCAGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:27696317 original size:31 final size:30
Alignment explanation
Indices: 27696210--27696399 Score: 122
Period size: 31 Copynumber: 6.3 Consensus size: 30
27696200 TTAATATAAC
*
27696210 ATTTGGTACTTAAACTTGACACTTTTTCCTA
1 ATTTGGTACTTAAACTT-ACACTTTTTTCTA
* * ** *
27696241 ATTTAGTACCTAAACTT--TTTTTTTGTCCA
1 ATTTGGTACTTAAACTTACACTTTTT-TCTA
* * *
27696270 ATTCGGTAATCAAACTTCACACTTTTTTCTA
1 ATTTGGTACTTAAACTT-ACACTTTTTTCTA
*
27696301 ATTTGGTACTTAAACTTAACACTTTTTTTTA
1 ATTTGGTACTTAAACTT-ACACTTTTTTCTA
* * ** *
27696332 AGTTGGTACTTCAACTT----TTTGGGATCCA
1 ATTTGGTACTTAAACTTACACTTT--TTTCTA
* *
27696360 ATTTGGTACCTAAACTTTACTCTTTTTTCTA
1 ATTTGGTACTTAAAC-TTACACTTTTTTCTA
27696391 ATTTGGTAC
1 ATTTGGTAC
27696400 CTAATCTTTT
Statistics
Matches: 117, Mismatches: 31, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
26 3 0.03
28 19 0.16
29 16 0.14
31 71 0.61
32 5 0.04
33 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTACACTTTTTTCTA
Found at i:27696348 original size:91 final size:90
Alignment explanation
Indices: 27696210--27696399 Score: 222
Period size: 91 Copynumber: 2.1 Consensus size: 90
27696200 TTAATATAAC
* * **
27696210 ATTTGGTACTTAAACTTGACACTTTTTCCTAATTTAGTACCTAAACTTTTTTTTTG-TCCAATTC
1 ATTTGGTACTTAAACTTAACACTTTTTCCTAAGTTAGTACCTAAAC--TTTTTGGGATCCAATTC
*
27696274 GGTA-ATCAAACTTCACACTTTTTTCTA
64 GGTACCT-AAACTTCACACTTTTTTCTA
** * * * *
27696301 ATTTGGTACTTAAACTTAACACTTTTTTTTAAGTTGGTACTTCAACTTTTTGGGATCCAATTTGG
1 ATTTGGTACTTAAACTTAACACTTTTTCCTAAGTTAGTACCTAAACTTTTTGGGATCCAATTCGG
* *
27696366 TACCTAAACTTTACTCTTTTTTCTA
66 TACCTAAACTTCACACTTTTTTCTA
27696391 ATTTGGTAC
1 ATTTGGTAC
27696400 CTAATCTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
89 6 0.07
90 38 0.45
91 40 0.48
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.47
Consensus pattern (90 bp):
ATTTGGTACTTAAACTTAACACTTTTTCCTAAGTTAGTACCTAAACTTTTTGGGATCCAATTCGG
TACCTAAACTTCACACTTTTTTCTA
Found at i:27696625 original size:31 final size:31
Alignment explanation
Indices: 27696586--27696687 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
27696576 AAAAGAGCAT
27696586 AGGTACCAAATTAGGAAAAAATGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAATGTCAAGTTC
* * * *
27696617 AGGCACCAAATTGGGTCCAAAAA-G---AGTTT
1 AGGTACCAAATTAGG--AAAAAATGTCAAGTTC
*
27696646 AGATACCAAATTA-GAAAAAAGTGTCAAGTTC
1 AGGTACCAAATTAGGAAAAAA-TGTCAAGTTC
27696677 AGGTACCAAAT
1 AGGTACCAAAT
27696688 GTTATATTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
26 5 0.09
28 2 0.04
29 14 0.26
31 27 0.50
32 1 0.02
33 5 0.09
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (31 bp):
AGGTACCAAATTAGGAAAAAATGTCAAGTTC
Found at i:27696657 original size:60 final size:60
Alignment explanation
Indices: 27696575--27696687 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
27696565 AATTGAATCT
*
27696575 AAAAAGAGCATAGGTACCAAATTAGGAAAAAA-TGTCAAGTTCAGGCACCAAATTGGGTCC
1 AAAAAGAGCATAGATACCAAATTA-GAAAAAAGTGTCAAGTTCAGGCACCAAATTGGGTCC
** *
27696635 AAAAAGAGTTTAGATACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAAT
1 AAAAAGAGCATAGATACCAAATTAGAAAAAAGTGTCAAGTTCAGGCACCAAAT
27696688 GTTATATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 7 0.15
60 41 0.85
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.20
Consensus pattern (60 bp):
AAAAAGAGCATAGATACCAAATTAGAAAAAAGTGTCAAGTTCAGGCACCAAATTGGGTCC
Found at i:27700809 original size:17 final size:18
Alignment explanation
Indices: 27700787--27700823 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27700777 TAAGGCATAA
*
27700787 TATTACAT-TATTTGTTT
1 TATTACATATATTTGCTT
27700804 TATTACATATATTTGCTT
1 TATTACATATATTTGCTT
27700822 TA
1 TA
27700824 AGGTAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTACATATATTTGCTT
Found at i:27702040 original size:26 final size:26
Alignment explanation
Indices: 27702011--27702186 Score: 139
Period size: 26 Copynumber: 6.8 Consensus size: 26
27702001 AACCCAAAAT
27702011 AGAGTTTAGCTCTTACGAGCCCAGAC
1 AGAGTTTAGCTCTTACGAGCCCAGAC
*
27702037 AGAGTTTAGCTCTTAGGAGCCCAGAC
1 AGAGTTTAGCTCTTACGAGCCCAGAC
* *
27702063 AGAGTTTAACTCATTTA--AGCCCAAAC
1 AGAGTTTAGCTC--TTACGAGCCCAGAC
* *
27702089 AGAATTTAGCTCATT-TGAGCCCAGAC
1 AGAGTTTAGCTC-TTACGAGCCCAGAC
* * * *
27702115 AAAATTTAGCTCATT-CGAACCCACAC
1 AGAGTTTAGCTC-TTACGAGCCCAGAC
* *
27702141 AGAAG-TTAGCTAATT-CGAGCCCAAAC
1 AG-AGTTTAGCT-CTTACGAGCCCAGAC
* *
27702167 AGAATTTAGCTCATACGAGC
1 AGAGTTTAGCTCTTACGAGC
27702187 TTAGATAGAA
Statistics
Matches: 123, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.03
26 115 0.93
27 1 0.01
28 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (26 bp):
AGAGTTTAGCTCTTACGAGCCCAGAC
Found at i:27702113 original size:78 final size:78
Alignment explanation
Indices: 27702027--27702180 Score: 195
Period size: 78 Copynumber: 2.0 Consensus size: 78
27702017 TAGCTCTTAC
* * * * * * *
27702027 GAGCCCAGACAGAGTTTAGCTC-TTAGGAGCCCAGACAG-AGTTTAACTCATTTAAGCCCAAACA
1 GAGCCCAGACAAAATTTAGCTCATT-CGAACCCACACAGAAG-TTAACTAATTCAAGCCCAAACA
27702090 GAATTTAGCTCATTT
64 GAATTTAGCTCATTT
* *
27702105 GAGCCCAGACAAAATTTAGCTCATTCGAACCCACACAGAAGTTAGCTAATTCGAGCCCAAACAGA
1 GAGCCCAGACAAAATTTAGCTCATTCGAACCCACACAGAAGTTAACTAATTCAAGCCCAAACAGA
27702170 ATTTAGCTCAT
66 ATTTAGCTCAT
27702181 ACGAGCTTAG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 61 0.94
79 4 0.06
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (78 bp):
GAGCCCAGACAAAATTTAGCTCATTCGAACCCACACAGAAGTTAACTAATTCAAGCCCAAACAGA
ATTTAGCTCATTT
Found at i:27704652 original size:34 final size:34
Alignment explanation
Indices: 27704609--27704676 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
27704599 GGTTTGAAAA
27704609 ATAATTGAATAGTGCATAGCGTAATTAAATCGAG
1 ATAATTGAATAGTGCATAGCGTAATTAAATCGAG
27704643 ATAATTGAATAGTGCATAGCGTAATTAAATCGAG
1 ATAATTGAATAGTGCATAGCGTAATTAAATCGAG
27704677 CCTAATTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (34 bp):
ATAATTGAATAGTGCATAGCGTAATTAAATCGAG
Found at i:27709936 original size:22 final size:22
Alignment explanation
Indices: 27709897--27709938 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27709887 TTCATTCCTC
*
27709897 ATTTCATATGTGTATTTGTTTG
1 ATTTCATATCTGTATTTGTTTG
27709919 ATTTCATAGTCTGT-TTTGTT
1 ATTTCATA-TCTGTATTTGTT
27709939 GTACTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.60
Consensus pattern (22 bp):
ATTTCATATCTGTATTTGTTTG
Found at i:27711024 original size:64 final size:64
Alignment explanation
Indices: 27710922--27711048 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 64
27710912 CCCTTTTGGT
* * * * *
27710922 TATGCACTAGTTGATGGTCTGAGAGTCAATCGATCATATAAGTTGGGTAGAATCCGTCTAAAAA
1 TATGCACCAGTTGATGGTCTGAAAGTCAATCGACCATATAAGTTGCGTAGAATCCGACTAAAAA
*
27710986 TATGCACCAGTTGATGGTCTGAAAGTCAATCGACCATATAAGTTGCGTAGAATCTGACTAAAA
1 TATGCACCAGTTGATGGTCTGAAAGTCAATCGACCATATAAGTTGCGTAGAATCCGACTAAAA
27711049 CAGAAAGGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (64 bp):
TATGCACCAGTTGATGGTCTGAAAGTCAATCGACCATATAAGTTGCGTAGAATCCGACTAAAAA
Found at i:27719557 original size:15 final size:14
Alignment explanation
Indices: 27719537--27719566 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27719527 ACTTTCTTCG
27719537 TAAAATAAAAGAAAA
1 TAAAAT-AAAGAAAA
27719552 TAAAATAAAGAAAA
1 TAAAATAAAGAAAA
27719566 T
1 T
27719567 TTGGTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAAATAAAGAAAA
Found at i:27722442 original size:2 final size:2
Alignment explanation
Indices: 27722435--27722460 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27722425 TAGTTGTGGT
27722435 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27722461 ATCTCTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27726563 original size:103 final size:104
Alignment explanation
Indices: 27726355--27726628 Score: 327
Period size: 103 Copynumber: 2.6 Consensus size: 104
27726345 CAAGGTCATT
* * * * * ** *
27726355 GAGCTGTTCGGAGTTGCGATATTAAATCAACTAACTCAAATAATCGGAGGTTGCGGTCTTAAATC
1 GAGCTGTTCGAAGTTGCGATCTTAAATCAACTAACTCAAATAATTGGAGGCTACAATATTAAATC
* *
27726420 AACGAGCCTTAATAGAATCAATTGTGAACGTTGGTCAGC
66 AACGAGCCTTAATAGAATCAACTGTGAACGATGGTCAGC
*
27726459 GAGCTGTTCGAAGTTGTGATCTTAAATCAACTAACTCAAATAATTGGA-GCTACAATATTAAATC
1 GAGCTGTTCGAAGTTGCGATCTTAAATCAACTAACTCAAATAATTGGAGGCTACAATATTAAATC
** *
27726523 AGTGAGGCTTAATA-AGATCAACTGTGAACGATGGTCAGC
66 AACGAGCCTTAATAGA-ATCAACTGTGAACGATGGTCAGC
* * * * * * * *
27726562 GAACTGTTTGAAGTTACAATCTTAAATCAACTAACTCAAATAATTGAAGGCTGCGATCTTAAATC
1 GAGCTGTTCGAAGTTGCGATCTTAAATCAACTAACTCAAATAATTGGAGGCTACAATATTAAATC
27726627 AA
66 AA
27726629 TGAAACTTAA
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
102 1 0.01
103 85 0.59
104 58 0.40
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (104 bp):
GAGCTGTTCGAAGTTGCGATCTTAAATCAACTAACTCAAATAATTGGAGGCTACAATATTAAATC
AACGAGCCTTAATAGAATCAACTGTGAACGATGGTCAGC
Found at i:27726714 original size:87 final size:86
Alignment explanation
Indices: 27726568--27726729 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
27726558 CAGCGAACTG
* * * *
27726568 TTTGAAGTTACAATCTTAAATCAACTAACTCAAATAATTGAAGGCTGCGATCTTAAATCAATGAA
1 TTTGAAGTTACAATCTTAAATCAACTAAATCAAATAATTGAAGGCTACAATATTAAATCAATG-A
27726633 ACTTAATAAAGTCAACAAATTA
65 ACTTAATAAAGTCAACAAATTA
* * *
27726655 TTTGAAGTTACGATCTTAAATCAATTAAATCAAATAATTTG-AGGCTACAATATTAAATCAGTGA
1 TTTGAAGTTACAATCTTAAATCAACTAAATCAAATAA-TTGAAGGCTACAATATTAAATCAATGA
*
27726719 GCTTAATAAAG
65 ACTTAATAAAG
27726730 GAAAATAACC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 11 0.17
87 52 0.79
88 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (86 bp):
TTTGAAGTTACAATCTTAAATCAACTAAATCAAATAATTGAAGGCTACAATATTAAATCAATGAA
CTTAATAAAGTCAACAAATTA
Found at i:27728693 original size:17 final size:18
Alignment explanation
Indices: 27728671--27728709 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
27728661 TGTTTTGGTC
27728671 TTTTCA-TTTTTAATTTA
1 TTTTCACTTTTTAATTTA
27728688 TTTTCACTTTTTAATTTA
1 TTTTCACTTTTTAATTTA
27728706 TTTT
1 TTTT
27728710 TTATAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTCACTTTTTAATTTA
Found at i:27729448 original size:9 final size:8
Alignment explanation
Indices: 27729424--27729460 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
27729414 TTTGATCTTG
27729424 ATTTAAAA
1 ATTTAAAA
27729432 ATTTAAAA
1 ATTTAAAA
27729440 ATTTAAAA
1 ATTTAAAA
27729448 ATTTAAAA
1 ATTTAAAA
27729456 TATTT
1 -ATTT
27729461 GTTTAGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 24 0.86
9 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATTTAAAA
Found at i:27733893 original size:27 final size:27
Alignment explanation
Indices: 27733858--27733933 Score: 152
Period size: 27 Copynumber: 2.8 Consensus size: 27
27733848 GTAATCTATT
27733858 AAAATGATGAAATTATATTTTTTCAAA
1 AAAATGATGAAATTATATTTTTTCAAA
27733885 AAAATGATGAAATTATATTTTTTCAAA
1 AAAATGATGAAATTATATTTTTTCAAA
27733912 AAAATGATGAAATTATATTTTT
1 AAAATGATGAAATTATATTTTT
27733934 ACTATCGTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (27 bp):
AAAATGATGAAATTATATTTTTTCAAA
Found at i:27735517 original size:59 final size:58
Alignment explanation
Indices: 27735388--27735756 Score: 365
Period size: 58 Copynumber: 6.3 Consensus size: 58
27735378 ATACTGGGGG
*** * * * * * *
27735388 AAAAATGGTAATTTTGGACTTTTCGGGGGCAAAATGATAATTTTTGTGAAATCG-GTGCT
1 AAAAATGG-AATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTGGTAAAATCGAG-GTT
* * *
27735447 -AAAATGGAATTTTGGAAAGTTCGGGGGGTAAAATGGTAAATTTGGCAAAATTGAGGTC
1 AAAAATGGAATTTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTGGTAAAATCGAGGTT
* * * *
27735505 AAAAATGGAATTTTGGGAAGTTCGAGGGTAAAATAGTAAATTTGGTGAAATCGAGGTT
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTGGTAAAATCGAGGTT
* *
27735563 AAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATGGTAAATTTTGGTAAAATCGAGGTT
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAA-TTTGGTAAAATCGAGGTT
* * * * *
27735622 -AAAATGGAATTTTGGAAGGTTCGGGGGTAAAATAGTAATTTTTGGTGAAATTG-GAGTT
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA-ATTTGGTAAAATCGAG-GTT
* * * *
27735680 AAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTG-AAAGTTTCGAGGTT
1 AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTGGTAAA--ATCGAGGTT
27735739 AAAATAT--AATTTTGGAAA
1 AAAA-ATGGAATTTTGGAAA
27735757 AGTTTTAGGG
Statistics
Matches: 264, Mismatches: 35, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
57 15 0.06
58 163 0.62
59 83 0.31
60 3 0.01
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
AAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTGGTAAAATCGAGGTT
Found at i:27735614 original size:117 final size:117
Alignment explanation
Indices: 27735388--27735724 Score: 409
Period size: 117 Copynumber: 2.9 Consensus size: 117
27735378 ATACTGGGGG
*** * * * * *
27735388 AAAAATGGTAATTTTGGACTTTTCGGGGGCAAAAT-GATAAT-TTTTGTGAAATCGGTGCT-AAA
1 AAAAATGG-AATTTTGGAAGGTTCGAGGGTAAAATAG-TAATATTTGGTGAAATCGGAGTTAAAA
*
27735450 ATGGAATTTTGGAAAGTTCGGGGGGTAAAATGGTAAA-TTTGGCAAAATTGAGGT
64 ATGGAATTTTGGAAAGTTC-GGGGGTAAAATGGTAAATTTTGGCAAAATCGAGGT
27735504 CAAAAATGGAATTTTGGGAA-GTTCGAGGGTAAAATAGTAA-ATTTGGTGAAATC-GAGGTTAAA
1 -AAAAATGGAATTTT-GGAAGGTTCGAGGGTAAAATAGTAATATTTGGTGAAATCGGA-GTTAAA
* * *
27735566 AATGGAATTTTGGAAGGTTCGAGGGTAAAATGGTAAATTTTGGTAAAATCGAGGT
63 AATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGCAAAATCGAGGT
* * * *
27735621 TAAAATGGAATTTTGGAAGGTTCGGGGGTAAAATAGTAATTTTTGGTGAAATTGGAGTTAAAAAT
1 AAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATAGTAATATTTGGTGAAATCGGAGTTAAAAAT
* *
27735686 GGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTG
66 GGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTG
27735725 AAAGTTTCGA
Statistics
Matches: 192, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
115 5 0.03
116 82 0.43
117 103 0.54
118 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (117 bp):
AAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATAGTAATATTTGGTGAAATCGGAGTTAAAAAT
GGAATTTTGGAAAGTTCGGGGGTAAAATGGTAAATTTTGGCAAAATCGAGGT
Found at i:27735626 original size:30 final size:28
Alignment explanation
Indices: 27735446--27735636 Score: 134
Period size: 29 Copynumber: 6.6 Consensus size: 28
27735436 AAATCGGTGC
* * *
27735446 TAAAATGGAATTTTGG-AAAGTTCGGGGGG
1 TAAAATGGAATTTTGGTAAA-ATC-GAGGT
* * *
27735475 TAAAATGGTAAATTTGGCAAAATTGAGGT
1 TAAAATGG-AATTTTGGTAAAATCGAGGT
* * ** *
27735504 CAAAAATGGAATTTTGGGAAGTTCGAGGG
1 -TAAAATGGAATTTTGGTAAAATCGAGGT
* * *
27735533 TAAAATAGTAAATTTGGTGAAATCGAGGT
1 TAAAAT-GGAATTTTGGTAAAATCGAGGT
** *
27735562 TAAAAATGGAATTTTGG-AAGGTTCGAGGG
1 T-AAAATGGAATTTTGGTAA-AATCGAGGT
27735591 TAAAATGGTAAATTTTGGTAAAATCGAGGT
1 TAAAATGG--AATTTTGGTAAAATCGAGGT
27735621 TAAAATGGAATTTTGG
1 TAAAATGGAATTTTGG
27735637 AAGGTTCGGG
Statistics
Matches: 124, Mismatches: 29, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
28 21 0.17
29 56 0.45
30 42 0.34
31 5 0.04
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (28 bp):
TAAAATGGAATTTTGGTAAAATCGAGGT
Found at i:27735759 original size:30 final size:30
Alignment explanation
Indices: 27735555--27735871 Score: 121
Period size: 30 Copynumber: 10.7 Consensus size: 30
27735545 TTTGGTGAAA
*
27735555 TCGAGGTTAAAA-ATGGAATTTTGG--AAGGT
1 TCGAGGTTAAAATAT--AATTTTGGAAAAGTT
* *
27735584 TCGAGGGTAAAATGGTAAATTTTGGTAAAA---
1 TCGAGGTTAAAAT-AT-AATTTTGG-AAAAGTT
** *
27735614 TCGAGGTTAAAATGGAATTTTGG--AAGGT
1 TCGAGGTTAAAATATAATTTTGGAAAAGTT
* * *
27735642 TCGGGGGTAAAATAGTAATTTTTGGTGAAA--T
1 TCGAGGTTAAAATA-TAA-TTTTGG-AAAAGTT
*
27735673 TGGA-GTTAAAA-ATGGAATTTTGG-AAAGTT
1 TCGAGGTTAAAATAT--AATTTTGGAAAAGTT
* * * *
27735702 T-GGGGGTAAAATGGTAATTTTTG-AAAGTT
1 TCGAGGTTAAAAT-ATAATTTTGGAAAAGTT
27735731 TCGAGGTTAAAATATAATTTTGGAAAAGTT
1 TCGAGGTTAAAATATAATTTTGGAAAAGTT
* * *
27735761 T-TAGGGTCAAAATGTAATTTTGGAAAAGTT
1 TCGA-GGTTAAAATATAATTTTGGAAAAGTT
* * * * *
27735791 TTGGGGTCAAAACATAATTTTGTAAAAGTT
1 TCGAGGTTAAAATATAATTTTGGAAAAGTT
* * * * *
27735821 TAGTGGTAAAAATGTAATTTT-TAGAAAGTT
1 TCGAGGTTAAAATATAATTTTGGA-AAAGTT
* *
27735851 T-TAGGGTCAAAATATAATTTT
1 TCGA-GGTTAAAATATAATTTT
27735872 TGGATAGTTT
Statistics
Matches: 225, Mismatches: 37, Indels: 51
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.01
27 3 0.01
28 21 0.09
29 54 0.24
30 136 0.60
31 5 0.02
33 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (30 bp):
TCGAGGTTAAAATATAATTTTGGAAAAGTT
Found at i:27735782 original size:117 final size:115
Alignment explanation
Indices: 27735425--27735783 Score: 388
Period size: 117 Copynumber: 3.1 Consensus size: 115
27735415 GGCAAAATGA
* * * * *
27735425 TAATTTTTGTGAAATCGGTGCT-AAAATGGAATTTTGGAAAGTTCGGGGGGTAAAATGGTAAATT
1 TAATTTTGGTGAAATTGGAGTTAAAAATGGAATTTTGGAAAGTTC-GGGGGTAAAATGGTAATTT
* *
27735489 TGGCAAAATT-GAGGTCAAAA-ATGGAATTTTGGGAAGTTCGAGGGTAAAATAG
65 TGGC-AAATTCGAGGTTAAAATAT--AATTTTGGAAAGTTCGAGGGTAAAATAG
* * * *
27735541 TAAATTTGGTGAAA-TCGAGGTTAAAAATGGAATTTTGGAAGGTTCGAGGGTAAAATGGTAAATT
1 TAATTTTGGTGAAATTGGA-GTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGT-AATT
* * ** * *
27735605 TTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAGGTTCGGGGGTAAAATAG
64 TTGGCAAATTCGAGGTTAAAATATAATTTTGGAAAGTTCGAGGGTAAAATAG
*
27735657 TAATTTTTGGTGAAATTGGAGTTAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTT
1 TAA-TTTTGGTGAAATTGGAGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTT
* **
27735722 TTG-AAAGTTTCGAGGTTAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAAT-G
65 TGGCAAA--TTCGAGGTTAAAATATAATTTTGG-AAAGTTCGAGGGT-AAAATAG
27735775 TAATTTTGG
1 TAATTTTGG
27735784 AAAAGTTTTG
Statistics
Matches: 202, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
115 4 0.02
116 66 0.33
117 111 0.55
118 16 0.08
119 5 0.02
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (115 bp):
TAATTTTGGTGAAATTGGAGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTT
GGCAAATTCGAGGTTAAAATATAATTTTGGAAAGTTCGAGGGTAAAATAG
Found at i:27735839 original size:90 final size:88
Alignment explanation
Indices: 27735681--27735881 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 88
27735671 ATTGGAGTTA
* ** * * *
27735681 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTTAAAATAT
1 AAAATGTAATTTTGGAAAGTTTGGGGGTAAAATCATAATTTTTAAAAGTTTAGAGGTAAAAATAT
27735746 AATTTTG-GAAAAGTTTTAGGGTC
66 AATTTTGAG-AAAGTTTTAGGGTC
* *
27735769 AAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAA-CATAATTTTGTAAAAGTTTAGTGGTAAAAA
1 AAAATGTAATTTTGG-AAAGTTTGGGGGT-AAAATCATAATTTT-TAAAAGTTTAGAGGTAAAAA
* *
27735833 TGTAATTTTTAGAAAGTTTTAGGGTC
63 TATAATTTTGAGAAAGTTTTAGGGTC
* *
27735859 AAAATATAATTTTTGGATAGTTT
1 AAAATGTAA-TTTTGGAAAGTTT
27735882 AAGGACCTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 14 0.15
89 19 0.20
90 56 0.58
91 7 0.07
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.38
Consensus pattern (88 bp):
AAAATGTAATTTTGGAAAGTTTGGGGGTAAAATCATAATTTTTAAAAGTTTAGAGGTAAAAATAT
AATTTTGAGAAAGTTTTAGGGTC
Found at i:27735872 original size:30 final size:30
Alignment explanation
Indices: 27735690--27735881 Score: 164
Period size: 30 Copynumber: 6.4 Consensus size: 30
27735680 AAAAATGGAA
** *
27735690 TTTTGGAAAGTTTGGGGGT-AAAATGGTAAT
1 TTTTGGAAAGTTTTAGGGTCAAAAT-ATAAT
* *
27735720 TTTT-GAAAG-TTTCGAGGTTAAAATATAA-
1 TTTTGGAAAGTTTTAG-GGTCAAAATATAAT
*
27735748 TTTTGGAAAAGTTTTAGGGTCAAAATGTAA-
1 TTTTGG-AAAGTTTTAGGGTCAAAATATAAT
* *
27735778 TTTTGGAAAAGTTTTGGGGTCAAAACATAA-
1 TTTTGG-AAAGTTTTAGGGTCAAAATATAAT
* * *
27735808 TTTTGTAAAAG-TTTAGTGGTAAAAATGTAAT
1 TTTTG-GAAAGTTTTAG-GGTCAAAATATAAT
*
27735839 TTTTAGAAAGTTTTAGGGTCAAAATATAAT
1 TTTTGGAAAGTTTTAGGGTCAAAATATAAT
*
27735869 TTTTGGATAGTTT
1 TTTTGGAAAGTTT
27735882 AAGGACCTAT
Statistics
Matches: 133, Mismatches: 20, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
28 7 0.05
29 16 0.12
30 97 0.73
31 13 0.10
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
TTTTGGAAAGTTTTAGGGTCAAAATATAAT
Found at i:27735881 original size:60 final size:56
Alignment explanation
Indices: 27735688--27735882 Score: 203
Period size: 60 Copynumber: 3.3 Consensus size: 56
27735678 TTAAAAATGG
* * *
27735688 AATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGAAAG-TTTCGAGGTTAAAATAT
1 AATTTTGGAAAGTTT-AGGGTAAAAT-GTAATTTTTGAAAGTTTTAG-GGTCAAAATAT
* * *
27735746 AATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAACAT
1 AATTTTGG-AAAG-TTTAGGGT-AAAATGTAATTTTTG-AAAGTTTTAGGGTCAAAATAT
*
27735806 AATTTTGTAAAAGTTTAGTGGTAAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATAT
1 AATTTTG-GAAAGTTTAG-GGT-AAAATGTAATTTTT-GAAAGTTTTAGGGTCAAAATAT
*
27735866 AATTTTTGGATAGTTTA
1 AA-TTTTGGAAAGTTTA
27735883 AGGACCTATT
Statistics
Matches: 116, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
58 8 0.07
59 22 0.19
60 76 0.66
61 10 0.09
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (56 bp):
AATTTTGGAAAGTTTAGGGTAAAATGTAATTTTTGAAAGTTTTAGGGTCAAAATAT
Found at i:27737633 original size:6 final size:6
Alignment explanation
Indices: 27737624--27737697 Score: 59
Period size: 6 Copynumber: 13.2 Consensus size: 6
27737614 ATATGGACAT
* * * *
27737624 TTTAAA TTTAAG TTT-AA TTTAAA -ATCAT TTTAAA TTT-AA -TTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
27737668 TTTAAA TTCAAA -ATAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
27737698 AAATCTTAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
4 2 0.04
5 13 0.25
6 36 0.71
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:27737653 original size:28 final size:27
Alignment explanation
Indices: 27737621--27737673 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
27737611 TGGATATGGA
*
27737621 CATTTTAAATTTAAGTTTAATTTAAAAT
1 CATTTTAAATTTAA-TTAAATTTAAAAT
27737649 CATTTTAAATTTAATTAAATTTAAA
1 CATTTTAAATTTAATTAAATTTAAA
27737674 TTCAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (27 bp):
CATTTTAAATTTAATTAAATTTAAAAT
Found at i:27737659 original size:17 final size:17
Alignment explanation
Indices: 27737639--27737712 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
27737629 ATTTAAGTTT
* *
27737639 AATTTAAAATCATTTTA
1 AATTTAAAATAAATTTA
*
27737656 AATTT-AATTAAATTTA
1 AATTTAAAATAAATTTA
*
27737672 AATTCAAAATAAATTTA
1 AATTTAAAATAAATTTA
27737689 AATTT-AAATAAATCTTA
1 AATTTAAAATAAAT-TTA
*
27737706 AAATTAA
1 AATTTAA
27737713 TTCAAACTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
16 20 0.43
17 26 0.55
18 1 0.02
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:27737684 original size:27 final size:28
Alignment explanation
Indices: 27737626--27737689 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
27737616 ATGGACATTT
* ***
27737626 TAAATTTAAGTTTAATTTAAAATCATTT
1 TAAATTTAAGTTAAATTTAAAATCAAAA
*
27737654 TAAATTTAA-TTAAATTTAAATTCAAAA
1 TAAATTTAAGTTAAATTTAAAATCAAAA
27737681 TAAATTTAA
1 TAAATTTAA
27737690 ATTTAAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAATTTAAGTTAAATTTAAAATCAAAA
Found at i:27737722 original size:17 final size:17
Alignment explanation
Indices: 27737702--27737735 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27737692 TTAAATAAAT
*
27737702 CTTAAAATTAATTCAAA
1 CTTAAAATAAATTCAAA
*
27737719 CTTAATATAAATTCAAA
1 CTTAAAATAAATTCAAA
27737736 AATCTCAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTAAAATAAATTCAAA
Found at i:27738590 original size:19 final size:19
Alignment explanation
Indices: 27738545--27738590 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27738535 TATTAAAAAA
* *
27738545 AAAATTCATAAAAATATAT
1 AAAATTTATAAAAATACAT
**
27738564 AATTTTTATAAAAATACAT
1 AAAATTTATAAAAATACAT
27738583 AAAATTTA
1 AAAATTTA
27738591 AAAGCGAAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTTATAAAAATACAT
Found at i:27748020 original size:19 final size:19
Alignment explanation
Indices: 27747996--27748032 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27747986 AACAATTTTA
* *
27747996 AAAATCATTAAAATCCAAC
1 AAAATCATAAAAAACCAAC
27748015 AAAATCATAAAAAACCAA
1 AAAATCATAAAAAACCAA
27748033 AAACAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAATCATAAAAAACCAAC
Found at i:27751833 original size:59 final size:58
Alignment explanation
Indices: 27751725--27751977 Score: 183
Period size: 59 Copynumber: 4.3 Consensus size: 58
27751715 GACGTTTGAG
* * * *
27751725 GGGTAAAATGGTAATTTTGGGAAAATTCGAGGTTTAAAAAT-GAAATTTTGGACATCCAA
1 GGGTAAAATGGTAATTTTTGGAAAA-TCG-GGATCAAAAATAGAATTTTTGGACATCCAA
* * ** * *
27751784 GGGTAAAACGGTAATTTTTGGAAGAATCGGGATCAAAAATGGAATTTTTGGATGGTCGAG
1 GGGTAAAATGGTAATTTTTGGAA-AATCGGGATCAAAAATAGAATTTTTGGA-CATCCAA
* * *** * *
27751844 GGGCAAAATGGTAA-TTTTGG--ACTCTTAAAGGCAAAAATAGAATTTTCGGACATCCAA
1 GGGTAAAATGGTAATTTTTGGAAAATC-GGGA-TCAAAAATAGAATTTTTGGACATCCAA
* * * * ***
27751901 GGGTAAAATGGAAATTTTTAGAAAAAACCGGGATCAAAAATAGAATTATTGGACAT-TTG
1 GGGTAAAATGGTAATTTTT-G-GAAAATCGGGATCAAAAATAGAATTTTTGGACATCCAA
27751960 GGGTAAAATGGTAATTTT
1 GGGTAAAATGGTAATTTT
27751978 ATGAAGTTTC
Statistics
Matches: 147, Mismatches: 37, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
56 3 0.02
57 16 0.11
58 30 0.20
59 58 0.39
60 37 0.25
61 1 0.01
62 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGGAAAATCGGGATCAAAAATAGAATTTTTGGACATCCAA
Found at i:27752015 original size:30 final size:29
Alignment explanation
Indices: 27751959--27752198 Score: 145
Period size: 29 Copynumber: 8.1 Consensus size: 29
27751949 TTGGACATTT
27751959 GGGGT-AAAATGGTAATTTTATG-AAGTTTC
1 GGGGTAAAAATGG-AATTTT-TGAAAGTTTC
** *
27751988 AAGGTAAAAAATGGAATTTTTGAAAGTTTG
1 GGGGT-AAAAATGGAATTTTTGAAAGTTTC
* *
27752018 GGGGTAAAAAT-GTATTGTTTGGAAA-TTTT
1 GGGGTAAAAATGGAATT-TTT-GAAAGTTTC
* *
27752047 GGGGTAAAAATGTAA-TTTTGAGAAGTTTG
1 GGGGTAAAAATGGAATTTTTGA-AAGTTTC
* * *
27752076 GGGGCAAAAATGTAATTTTTGGAAGTTTC
1 GGGGTAAAAATGGAATTTTTGAAAGTTTC
** * *
27752105 ATGGTCAAAAATGTAATTTTTGGAAATTTTC
1 GGGGT-AAAAATGGAATTTTT-GAAAGTTTC
* ***
27752136 GTGGTAAAAACATAA-TTTT-AAGATGTTTC
1 GGGGTAAAAATGGAATTTTTGAA-A-GTTTC
*
27752165 GGGGTCAAAAATGGAATTTTAGAGAAG-TTC
1 GGGGT-AAAAATGGAATTTTTGA-AAGTTTC
27752195 GGGG
1 GGGG
27752199 GTTAAAATAT
Statistics
Matches: 167, Mismatches: 27, Indels: 33
0.74 0.12 0.15
Matches are distributed among these distances:
27 4 0.02
28 10 0.06
29 66 0.40
30 62 0.37
31 22 0.13
32 2 0.01
33 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGAAAGTTTC
Found at i:27752027 original size:29 final size:29
Alignment explanation
Indices: 27751959--27752224 Score: 179
Period size: 30 Copynumber: 9.0 Consensus size: 29
27751949 TTGGACATTT
27751959 GGGGT-AAAATGGTAATTTTATG-AAGTTTC
1 GGGGTAAAAAT-GTAATTTT-TGAAAGTTTC
** * *
27751988 AAGGTAAAAAATGGAATTTTTGAAAGTTTG
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTC
*
27752018 GGGGTAAAAATGT-ATTGTTTGGAAA-TTTT
1 GGGGTAAAAATGTAATT-TTT-GAAAGTTTC
*
27752047 GGGGTAAAAATGTAA-TTTTGAGAAGTTTG
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTC
* *
27752076 GGGGCAAAAATGTAATTTTTGGAAGTTTC
1 GGGGTAAAAATGTAATTTTTGAAAGTTTC
** *
27752105 ATGGTCAAAAATGTAATTTTTGGAAATTTTC
1 GGGGT-AAAAATGTAATTTTT-GAAAGTTTC
* **
27752136 GTGGTAAAAACATAA-TTTT-AAGATGTTTC
1 GGGGTAAAAATGTAATTTTTGAA-A-GTTTC
* *
27752165 GGGGTCAAAAATGGAATTTTAGAGAAG-TTC
1 GGGGT-AAAAATGTAATTTTTGA-AAGTTTC
* * *
27752195 GGGGGTTAAAATATAATTTTTAGATAGTTT
1 -GGGGTAAAAATGTAATTTTT-GAAAGTTT
27752225 AGGGACCTCT
Statistics
Matches: 186, Mismatches: 31, Indels: 38
0.73 0.12 0.15
Matches are distributed among these distances:
27 4 0.02
28 9 0.05
29 69 0.37
30 72 0.39
31 29 0.16
32 2 0.01
33 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTC
Found at i:27754131 original size:11 final size:11
Alignment explanation
Indices: 27754115--27754194 Score: 99
Period size: 11 Copynumber: 7.1 Consensus size: 11
27754105 TTACAATGAT
27754115 ATTAAATTTAA
1 ATTAAATTTAA
*
27754126 ATTAAATTCAAA
1 ATTAAATT-TAA
27754138 ATTAAATTTAA
1 ATTAAATTTAA
27754149 ATTAAATTTAA
1 ATTAAATTTAA
27754160 ATTTAAA-TTAA
1 A-TTAAATTTAA
*
27754171 ATTTAATTTCAA
1 ATTAAATTT-AA
*
27754183 AGTAAATTTAA
1 ATTAAATTTAA
27754194 A
1 A
27754195 ATGGTTTGGG
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
10 4 0.07
11 32 0.53
12 24 0.40
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:27754141 original size:23 final size:23
Alignment explanation
Indices: 27754115--27754194 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
27754105 TTACAATGAT
27754115 ATTAAATTTAAATTAAATTCAAA
1 ATTAAATTTAAATTAAATTCAAA
*
27754138 ATTAAATTTAAATTAAATTTAAA
1 ATTAAATTTAAATTAAATTCAAA
* *
27754161 TTTAAA-TTAAATTTAATTTC-AA
1 ATTAAATTTAAA-TTAAATTCAAA
*
27754183 AGTAAATTTAAA
1 ATTAAATTTAAA
27754195 ATGGTTTGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.22
23 38 0.78
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (23 bp):
ATTAAATTTAAATTAAATTCAAA
Found at i:27754142 original size:17 final size:17
Alignment explanation
Indices: 27754115--27754194 Score: 90
Period size: 17 Copynumber: 4.7 Consensus size: 17
27754105 TTACAATGAT
27754115 ATTAAATTTAAATT-AA
1 ATTAAATTTAAATTAAA
* *
27754131 ATTCAAAATTAAATTTAA
1 ATT-AAATTTAAATTAAA
*
27754149 ATTAAATTTAAATTTAA
1 ATTAAATTTAAATTAAA
* *
27754166 ATTAAATTTAATTTCAA
1 ATTAAATTTAAATTAAA
*
27754183 AGTAAATTTAAA
1 ATTAAATTTAAA
27754195 ATGGTTTGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
16 3 0.05
17 48 0.86
18 5 0.09
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
ATTAAATTTAAATTAAA
Found at i:27754590 original size:92 final size:92
Alignment explanation
Indices: 27754450--27755600 Score: 1872
Period size: 92 Copynumber: 12.5 Consensus size: 92
27754440 GATGTCGAGG
* *
27754450 CTTCATCTTGCTCTTACAACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACAT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
**
27754515 CAAGAATATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * * *
27754542 CTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGGTATCCAACTTTGCTGCAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
27754607 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* *
27754634 CTTCATCTTGCTCTTACTACAACTTTAGAGAAATAAAGACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
*
27754699 CAAGAGGATAGGAAATGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* *
27754726 CTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTAGAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
27754791 CAAGAGGATAAGAAATGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
*
27754818 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGATTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* * *
27754883 TAAGAGGATA-GACATTGATTTTTAAAA
66 CAAGAGGATAGGA-ATTGATGTTTGAAA
* * * *
27754910 CTTCATCTTACTCTTACTACAACTTCAGAGGGATAAAAACTTGCTATCCAACTTTACTACCACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
27754975 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * * * *
27755002 CTTCATCTTGGTCTTACTACAATTTCAGAGAAATAAAGACTTGTTATCCATCTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
*
27755067 CAAGATGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
*
27755094 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
27755159 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
*
27755186 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTCACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
27755251 CAAGAGGATAGGCATTGATTTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * * *
27755278 CTTCATCTTACACTTTCTACAACTTCAGAGGGATAAAGACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
27755343 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * *
27755370 CTTCATCTTGCTCTTACTACAACTTCAGATAGATAAAGACTTGCTATCCATCTTTATTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
27755435 CAAGAGGATAGGAATTGATGATTGAAG
66 CAAGAGGATAGGAATTGATGTTTGAAA
* *
27755462 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
27755527 CAAGAGGATAGGAATTAATGTTTGAAC
66 CAAGAGGATAGGAATTGATGTTTGAAA
27755554 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTAT
27755601 TTTGATCTAA
Statistics
Matches: 982, Mismatches: 75, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
91 2 0.00
92 978 1.00
93 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (92 bp):
CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
CAAGAGGATAGGAATTGATGTTTGAAA
Found at i:27759390 original size:13 final size:13
Alignment explanation
Indices: 27759347--27759390 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
27759337 TTTACAAAGA
27759347 CCCAAATTGAAGG
1 CCCAAATTGAAGG
* *
27759360 CCCAATTTAAAAGG
1 CCCAAATT-GAAGG
*
27759374 CCCAAATTGAGGG
1 CCCAAATTGAAGG
27759387 CCCA
1 CCCA
27759391 TTTACAATGG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (13 bp):
CCCAAATTGAAGG
Found at i:27759402 original size:27 final size:27
Alignment explanation
Indices: 27759334--27759407 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
27759324 ATAGCCAAGT
*
27759334 CCATTTACAAAGACCCAAATTGAAGGC
1 CCATTTACAAAGGCCCAAATTGAAGGC
*
27759361 CCAATTTA-AAAGGCCCAAATTGAGGGC
1 CC-ATTTACAAAGGCCCAAATTGAAGGC
* *
27759388 CCATTTACAATGGCCTAAAT
1 CCATTTACAAAGGCCCAAAT
27759408 AGGCCCAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.12
27 31 0.76
28 5 0.12
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (27 bp):
CCATTTACAAAGGCCCAAATTGAAGGC
Found at i:27761265 original size:30 final size:30
Alignment explanation
Indices: 27761164--27761322 Score: 109
Period size: 29 Copynumber: 5.4 Consensus size: 30
27761154 ACTTATGGGT
* * *
27761164 CCCTAAACTGTCCAAAAATCACATTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
*
27761194 CCCAAAACTTT--AGAAAATTACATTTTAAC
1 CCCTAAACTTTCCA-AAAATTACATTTTAAC
* * *
27761223 CTCAAAAC-TTCCAAAAATTACATTTTTAC
1 CCCTAAACTTTCCAAAAATTACATTTTAAC
* * *
27761252 CCCTAAATTTTCC-AAAATGGAAATTTTAAC
1 CCCTAAACTTTCCAAAAAT-TACATTTTAAC
27761282 CCC--AA-TTTCACCAAAAATTACCATTTT-AC
1 CCCTAAACTTT--CCAAAAATTA-CATTTTAAC
**
27761311 CCCCGAACTTTC
1 CCCTAAACTTTC
27761323 TTAAATTCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
27 3 0.03
28 5 0.05
29 54 0.52
30 36 0.35
31 2 0.02
32 3 0.03
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACATTTTAAC
Found at i:27761383 original size:28 final size:28
Alignment explanation
Indices: 27761296--27761383 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
27761286 ATTTCACCAA
*
27761296 AAATTACCATTTTACCCCCGAA-CTTTC
1 AAATTACCATTTTACCCTCGAATCTTTC
*
27761323 TTAAATT-CCATTTTTAACCT-G-AT-TTTGCCC
1 --AAATTACCA-TTTTACCCTCGAATCTTT---C
27761353 AAATTACCATTTTACCCTCGAATCTTTC
1 AAATTACCATTTTACCCTCGAATCTTTC
27761381 AAA
1 AAA
27761384 ATTCTATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 19
0.68 0.04 0.28
Matches are distributed among these distances:
27 4 0.09
28 21 0.45
29 16 0.34
30 3 0.06
31 3 0.06
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.39
Consensus pattern (28 bp):
AAATTACCATTTTACCCTCGAATCTTTC
Found at i:27761385 original size:29 final size:29
Alignment explanation
Indices: 27761295--27761444 Score: 86
Period size: 29 Copynumber: 5.2 Consensus size: 29
27761285 AATTTCACCA
*
27761295 AAAATTACCATTTTACCCCCGAA-CTTTC
1 AAAATTACCATTTTACCCTCGAATCTTTC
* *
27761323 TTAAATT-CCATTTTTAACCT-G-AT-TTTGCC
1 -AAAATTACCA-TTTTACCCTCGAATCTTT--C
*
27761352 CAAATTACCATTTTACCCTCGAATCTTTC
1 AAAATTACCATTTTACCCTCGAATCTTTC
* *
27761381 AAAATT-CTATTTTTGA-CCTCG-AT-TTCACC
1 AAAATTACCA-TTTT-ACCCTCGAATCTT--TC
*
27761410 AAAATTACCATTTTACCAC-CGAATCTTCC
1 AAAATTACCATTTTACC-CTCGAATCTTTC
27761439 AAAATT
1 AAAATT
27761445 TCATTTTTAA
Statistics
Matches: 95, Mismatches: 9, Indels: 34
0.69 0.07 0.25
Matches are distributed among these distances:
27 6 0.06
28 22 0.23
29 54 0.57
30 8 0.08
31 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAATCTTTC
Found at i:27761418 original size:58 final size:57
Alignment explanation
Indices: 27761275--27761597 Score: 321
Period size: 58 Copynumber: 5.6 Consensus size: 57
27761265 AAAATGGAAA
* * * *
27761275 TTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCCGAACTTTCTTAAATTCCAT
1 TTTTAACCTCGATTTCACC-AAAATTACCATTTTACCCTCGAACTTTC-AAAATTCCAT
** * *
27761334 TTTTAACCT-GATTTTGCCCAAATTACCATTTTACCCTCGAATCTTTCAAAATTCTAT
1 TTTTAACCTCGATTTCACCAAAATTACCATTTTACCCTCGAA-CTTTCAAAATTCCAT
* * *
27761391 TTTTGACCTCGATTTCACCAAAATTACCATTTTACCAC-CGAATCTTCCAAAATTTCAT
1 TTTTAACCTCGATTTCACCAAAATTACCATTTTACC-CTCGAA-CTTTCAAAATTCCAT
* ** ** **
27761449 TTTTAACCCCGATTTCACCAAAATTATTATTTTACCCTCGAACTTTCTTAAGCCCAT
1 TTTTAACCTCGATTTCACCAAAATTACCATTTTACCCTCGAACTTTCAAAATTCCAT
* * * * *
27761506 TTTTAACCTCGTTTTCACTAAAAATTACCATTTTACCTTCGAACCTTCTAAAATCCCAT
1 TTTTAACCTCGATTTCAC-CAAAATTACCATTTTACCCTCGAACTTTC-AAAATTCCAT
*
27761565 TTTTAACCTCAAATTTTC-CCAAAATTA-CATTTT
1 TTTTAACCTC-GA-TTTCACCAAAATTACCATTTT
27761598 GCCCCCCCGA
Statistics
Matches: 218, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
57 63 0.29
58 117 0.54
59 33 0.15
60 1 0.00
61 4 0.02
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (57 bp):
TTTTAACCTCGATTTCACCAAAATTACCATTTTACCCTCGAACTTTCAAAATTCCAT
Found at i:27761460 original size:29 final size:28
Alignment explanation
Indices: 27761362--27761460 Score: 71
Period size: 29 Copynumber: 3.4 Consensus size: 28
27761352 CAAATTACCA
*
27761362 TTTTACCCTCGAATCTTTCAAAA-TTCTAT
1 TTTTACCC-CGAATCTTCCAAAATTTC-AT
* *
27761391 TTTTGACCTCG-AT-TTCACCAAAATTACCA-
1 TTTT-ACCCCGAATCTT--CCAAAATT-TCAT
27761420 TTTTACCACCGAATCTTCCAAAATTTCAT
1 TTTTACC-CCGAATCTTCCAAAATTTCAT
27761449 TTTTAACCCCGA
1 TTTT-ACCCCGA
27761461 TTTCACCAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
27 2 0.04
28 7 0.13
29 33 0.60
30 10 0.18
31 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTTACCCCGAATCTTCCAAAATTTCAT
Found at i:27761469 original size:29 final size:28
Alignment explanation
Indices: 27761380--27761473 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 28
27761370 TCGAATCTTT
*
27761380 CAAAA-TTCTATTTTTGACCTCGATTTCAC
1 CAAAATTTC-ATTTTT-ACCCCGATTTCAC
*
27761409 CAAAATTACCA-TTTTACCACCGAATCTT--C
1 CAAAATT-TCATTTTTACC-CCG-AT-TTCAC
27761438 CAAAATTTCATTTTTAACCCCGATTTCAC
1 CAAAATTTCATTTTT-ACCCCGATTTCAC
27761467 CAAAATT
1 CAAAATT
27761474 ATTATTTTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
27 2 0.04
28 7 0.13
29 34 0.64
30 7 0.13
31 3 0.06
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (28 bp):
CAAAATTTCATTTTTACCCCGATTTCAC
Found at i:27761481 original size:29 final size:29
Alignment explanation
Indices: 27761391--27761482 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
27761381 AAAATTCTAT
* * *
27761391 TTTTGACCTCGATTTCACCAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAATTATCA
27761420 TTTT-ACCACCGAATCTT--CCAAAATT-TCA
1 TTTTAACC-CCG-AT-TTCACCAAAATTATCA
*
27761448 TTTTTAACCCCGATTTCACCAAAATTATTA
1 -TTTTAACCCCGATTTCACCAAAATTATCA
27761478 TTTTA
1 TTTTA
27761483 CCCTCGAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
27 2 0.04
28 7 0.13
29 34 0.65
30 7 0.13
31 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTTAACCCCGATTTCACCAAAATTATCA
Found at i:27774125 original size:200 final size:200
Alignment explanation
Indices: 27773778--27774497 Score: 1095
Period size: 200 Copynumber: 3.6 Consensus size: 200
27773768 AGTAGTTCAA
* * * *
27773778 TAAAACAACCGAGGCGGTCATCTTCTTGATGAGATACAGAGAAGAATGCCAACTCAATGCTCAAC
1 TAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAC
* *
27773843 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGTAATAAAAAG
66 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCAATAAAAAG
** * *
27773908 GTTAGCTTCGAGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAAAGAAG
131 GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAG
27773973 C-AACT
196 CGAA-T
* *
27773978 TAAAACAACCGAGGCGGTCATCTTCCTGATGAGATATAGAGAAGAATACCAACTCAACGCTCAAC
1 TAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAC
27774043 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCAATAAAAAG
66 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCAATAAAAAG
* * *
27774108 GTTCGTTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCCAAAGAAG
131 GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAG
27774173 CGAAT
196 CGAAT
* * *
27774178 TGAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATGCCAACTCAACGCTCAAT
1 TAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAC
* * * *
27774243 GCGAGCAAATCTTCGAACCCAGCTTCCTAATGAGACA-TCGAGAAGCAAGTCGAAACAATAAAAA
66 GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACT-AAGAAGCAGGTCGAAGCAATAAAAA
* * * * *
27774307 GGTTAGCTTCTTGATGAGACACAGAGAAGTGGATCAAATTCATCTTCCTAAGGAGATCCAGAGAA
130 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAA
27774372 GCGAAT
195 GCGAAT
* * *
27774378 TGAAACAAACGAGGCGATCATCTTCCTGATGAGACACAGAGAAGAATACCAACTCAACGCTCAAC
1 TAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAC
* * *
27774443 ACGAGCAAATCTTCGTACCCAGCTT-CTTAGTGAGACACTAAGAAGCAGGTCGAAG
66 GCGAGCAAATCTTCGAACCCAGCTTCCTGA-TGAGACACTAAGAAGCAGGTCGAAG
27774498 TCAGCAAACT
Statistics
Matches: 476, Mismatches: 40, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
199 4 0.01
200 469 0.99
201 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (200 bp):
TAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAC
GCGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAGCAATAAAAAG
GTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAAAGAAG
CGAAT
Found at i:27775008 original size:27 final size:27
Alignment explanation
Indices: 27774940--27775013 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
27774930 ATAGCCAAGT
*
27774940 CCATTTACAAAGGCCCAATTTGAAAGC
1 CCATTTACAAAGGCCCAAATTGAAAGC
* **
27774967 CTAATTTA-AAAGGCCCAAATTGAGGGC
1 C-CATTTACAAAGGCCCAAATTGAAAGC
*
27774994 CCATTTACAATGGCCCAAAT
1 CCATTTACAAAGGCCCAAAT
27775014 AGGCCCAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.13
27 29 0.74
28 5 0.13
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (27 bp):
CCATTTACAAAGGCCCAAATTGAAAGC
Found at i:27776818 original size:29 final size:29
Alignment explanation
Indices: 27776781--27776908 Score: 118
Period size: 29 Copynumber: 4.4 Consensus size: 29
27776771 AACTATCCAG
*
27776781 AAATCACATTTTGACCCCAAAACTTT-AGA
1 AAATTACATTTTGACCCCAAAACTTTCA-A
*
27776810 AAATTACATTTTGACCCTAAAACTTTCAA
1 AAATTACATTTTGACCCCAAAACTTTCAA
** **
27776839 AAATTACATTTT-ACCCCCGAACTTTCCT
1 AAATTACATTTTGACCCCAAAACTTTCAA
* * **
27776867 AAATTCCATTTTAACCCC-AATTTTATCAA
1 AAATTACATTTTGACCCCAAAACTT-TCAA
27776896 AAATTACCATTTT
1 AAATTA-CATTTT
27776909 ACCTCTAAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
28 25 0.31
29 49 0.60
30 7 0.09
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTTCAA
Found at i:27776932 original size:58 final size:58
Alignment explanation
Indices: 27776836--27777089 Score: 214
Period size: 59 Copynumber: 4.4 Consensus size: 58
27776826 CTAAAACTTT
** * *
27776836 CAAAAATTA-CATTTTACCCCCGAACTTTCCTAAATTCCA-TTTTAACCCCAATTTTA
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTA
* *
27776892 TCAAAAATTACCATTTTACCTCTAAA-TCTTCCAAAATTCCATTTTTAACCCCAATTTTA
1 -CAAAAATTACCATTTTACCCCTAAACT-TTCCAAAATCCCATTTTTAACCCCAATTTTA
* ** ** * * * *
27776951 CCAATTTTACCAAAATTACCCTTAAACTTTCTAAAACCCCATTTTTAACCTCAATTTTA
1 CAAAAATTACC-ATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTA
* * * * *
27777010 CTAAAAATTACAATTTTACCCCTGAA-TCTTCTAAAATCCCA-TTTTAACCCTAAATTTTC
1 C-AAAAATTACCATTTTACCCCTAAACT-TTCCAAAATCCCATTTTTAACCC-CAATTTTA
*
27777069 CCAAAATTA-CATTTTTACCCC
1 CAAAAATTACCA-TTTTACCCC
27777090 CCCGAGAGTC
Statistics
Matches: 159, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
57 11 0.07
58 57 0.36
59 84 0.53
60 7 0.04
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTA
Found at i:27777081 original size:29 final size:28
Alignment explanation
Indices: 27776809--27777088 Score: 109
Period size: 29 Copynumber: 9.6 Consensus size: 28
27776799 AAAACTTTAG
* * *
27776809 AAAATTACATTTTGACCCTAAAACTTTCA
1 AAAATTACATTTTAACCCT-AAATTTTCC
* ** *
27776838 AAAATTACATTTTACCCCCGAACTTTCC
1 AAAATTACATTTTAACCCTAAATTTTCC
* * * * *
27776866 TAAATTCCATTTTAACCCCAATTTTATCA
1 AAAATTACATTTTAACCCTAAATTT-TCC
*
27776895 AAAATTACCATTTT-ACCTCTAAATCTTCC
1 AAAATTA-CATTTTAACC-CTAAATTTTCC
* *
27776924 AAAATTCCATTTTTAACCC-CAATTTTACC
1 AAAATTACA-TTTTAACCCTAAATTTT-CC
** ** * *
27776953 AATTTTACCAAAATT-ACCCTTAAACTTTCT
1 AAAATTA-C-ATTTTAACCC-TAAATTTTCC
*** * *
27776983 AAAACCCCATTTTTAA-CCTCAATTTTACTA
1 AAAATTACA-TTTTAACCCTAAATTTT-C-C
* * * *
27777013 AAAATTACAATTTTACCCCTGAATCTTCT
1 AAAATTAC-ATTTTAACCCTAAATTTTCC
**
27777042 AAAATCCCATTTTAACCCTAAATTTTCCC
1 AAAATTACATTTTAACCCTAAATTTT-CC
*
27777071 AAAATTACATTTTTACCC
1 AAAATTACATTTTAACCC
27777089 CCCCGAGAGT
Statistics
Matches: 179, Mismatches: 55, Indels: 34
0.67 0.21 0.13
Matches are distributed among these distances:
28 55 0.31
29 77 0.43
30 32 0.18
31 15 0.08
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.37
Consensus pattern (28 bp):
AAAATTACATTTTAACCCTAAATTTTCC
Found at i:27786791 original size:59 final size:58
Alignment explanation
Indices: 27786649--27786959 Score: 171
Period size: 59 Copynumber: 5.3 Consensus size: 58
27786639 ACCCGGGAGC
* * * *
27786649 AAAATGGTAA-TTTTGGACTCTCGAGGG-ATAAATGGTAATTTTGGGAA-AATTCGGGGTTTA
1 AAAATGG-AATTTTTGGA-TCTCGAGGGTA-AAATGGTAATTTT-TGAAGAA-TCGAGGATCA
* *
27786709 AAAAT-GAAATTATGGA-CGTTCGAGGGTAAAATGGTAATTTTTGGAAGAATC-AGGATCA
1 AAAATGGAATTTTTGGATC--TCGAGGGTAAAATGGTAATTTTT-GAAGAATCGAGGATCA
* ** *
27786767 AAAATGGAATTTTTGGATGCTCGAGGGGTAAAATGGTAA-TTTT--AGACTCTCGGAGGCA
1 AAAATGGAATTTTTGGAT-CTCGA-GGGTAAAATGGTAATTTTTGAAGAATCGAGGA-TCA
* ** * * * * *
27786825 AAAATAGAA-TTTTCAAACATCCAAGTGTAAAATGGTAATTTTTAGAAAAAT-TAGGATCA
1 AAAATGGAATTTTTGGATC-T-CGAGGGTAAAATGGTAATTTTT-GAAGAATCGAGGATCA
* * * **
27786884 AAAATAGAATTATTGGA-CATCCAGGGGTAAAATGGTAATTTTATGAAGTTTCGAGG-TCA
1 AAAATGGAATTTTTGGATC-TCGA-GGGTAAAATGGTAATTTT-TGAAGAATCGAGGATCA
27786943 AAAATGGAATTTTTGGA
1 AAAATGGAATTTTTGGA
27786960 AGTTTAGGGG
Statistics
Matches: 198, Mismatches: 31, Indels: 45
0.72 0.11 0.16
Matches are distributed among these distances:
56 6 0.03
57 23 0.12
58 29 0.15
59 102 0.52
60 34 0.17
61 4 0.02
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (58 bp):
AAAATGGAATTTTTGGATCTCGAGGGTAAAATGGTAATTTTTGAAGAATCGAGGATCA
Found at i:27786808 original size:30 final size:30
Alignment explanation
Indices: 27786728--27786809 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
27786718 TTATGGACGT
27786728 TCGAGGGTAAAATGGTAATTTTTGGAAGAA
1 TCGAGGGTAAAATGGTAATTTTTGGAAGAA
* * *
27786758 TC-AGGATCAAAAATGG-AATTTTTGGATG-C
1 TCGAGGGT--AAAATGGTAATTTTTGGAAGAA
27786787 TCGAGGGGTAAAATGGTAATTTT
1 TCGA-GGGTAAAATGGTAATTTT
27786810 AGACTCTCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 13 0.30
30 20 0.47
31 10 0.23
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (30 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAGAA
Found at i:27786962 original size:30 final size:30
Alignment explanation
Indices: 27786912--27787232 Score: 241
Period size: 30 Copynumber: 10.7 Consensus size: 30
27786902 ATCCAGGGGT
27786912 AAAATGGTAATTTTAT-GAAGTTTCGAGGTCA
1 AAAAT-GTAATTTT-TGGAAGTTTCGAGGTCA
* * *
27786943 AAAATGGAATTTTTGGAAGTTTAG-GGGCA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCA
*
27786972 AAAATGTAATTTTTGGAAG-TTCGAGGGCA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCA
* * * *
27787001 AAAATATAATTTTTGGAAATTTTTGGGGT-A
1 AAAATGTAATTTTTGG-AAGTTTCGAGGTCA
* * * *
27787031 AAAATATAA-TTTTGGAAAGTTTTGGGGTTA
1 AAAATGTAATTTTTGG-AAGTTTCGAGGTCA
* * **
27787061 AAAATGGAATTTTTGGAA-ATTCGAGGGAA
1 AAAATGTAATTTTTGGAAGTTTCGAGGTCA
* *
27787090 AAAATGTATTTTTTGAAAGTTTC-ATGGTCA
1 AAAATGTAATTTTTGGAAGTTTCGA-GGTCA
* *
27787120 AAAATGTAATTTTTAGAAATTTTCGAGGT-A
1 AAAATGTAATTTTT-GGAAGTTTCGAGGTCA
*
27787150 AAAACT-TAATTTTGGGAAGTTTCGAGGTCA
1 AAAA-TGTAATTTTTGGAAGTTTCGAGGTCA
* * *
27787180 AAAATGGAATTTTAGAGAAG-TTCGAGGGT-T
1 AAAATGTAATTTTTG-GAAGTTTCGA-GGTCA
**
27787210 AAAATACAATTTTTGGACAGTTT
1 AAAATGTAATTTTTGGA-AGTTT
27787233 AGGGACCTCT
Statistics
Matches: 238, Mismatches: 35, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
28 3 0.01
29 98 0.41
30 99 0.42
31 37 0.16
32 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTCGAGGTCA
Found at i:27786969 original size:59 final size:58
Alignment explanation
Indices: 27786732--27787201 Score: 235
Period size: 59 Copynumber: 7.9 Consensus size: 58
27786722 GGACGTTCGA
** * **
27786732 GGGTAAAATGGTAATTTTTGGAAGAATC-AGGATCAAAAATGGAATTTTTGGATGCTCGAG
1 GGGTAAAATGGTAATTTTT-GAAGTTTCGAGG-TCAAAAATGGAATTTTTGGAAG-TTTAG
* * * * ** * ** *
27786792 GGGTAAAATGGTAATTTTAG-ACTCTCGGAGG-CAAAAATAGAA-TTTTCAAACATCCAA
1 GGGTAAAATGGTAATTTTTGAAGTTTC-GAGGTCAAAAATGGAATTTTTGGAA-GTTTAG
* ** * * **
27786849 GTGTAAAATGGTAATTTTTAGAAAAATT--AGGATCAAAAATAGAATTATTGGACA-TCCAG
1 GGGTAAAATGGTAATTTTT-G-AAGTTTCGAGG-TCAAAAATGGAATTTTTGGA-AGTTTAG
27786908 GGGTAAAATGGTAATTTTATGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTAG
1 GGGTAAAATGGTAATTTT-TGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTAG
* * ** * *
27786967 GGGCAAAAAT-GTAATTTTTGGAAG-TTCGAGGGCAAAAATATAATTTTTGGAAATTTTTG
1 GGG-TAAAATGGTAATTTTT-GAAGTTTCGAGGTCAAAAATGGAATTTTTGG-AAGTTTAG
* * * * * * *
27787026 GGGTAAAAAT-ATAATTTTGGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAATTCGAG
1 GGGT-AAAATGGTAATTTTTG-AAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTT-TAG
** * * * * *
27787086 GGAAAAAAT-GTATTTTTTGAAAGTTTC-ATGGTCAAAAATGTAATTTTTAGAAATTTTCG
1 GGGTAAAATGGTAATTTTTG-AAGTTTCGA-GGTCAAAAATGGAATTTTT-GGAAGTTTAG
* *** * *
27787145 AGGTAAAAACTTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTAGAGAAGTT
1 GGGTAAAATGGTAATTTT-TGAAGTTTCGAGGTCAAAAATGGAATTTTTG-GAAGTT
27787202 CGAGGGTTAA
Statistics
Matches: 314, Mismatches: 69, Indels: 54
0.72 0.16 0.12
Matches are distributed among these distances:
57 28 0.09
58 44 0.14
59 141 0.45
60 98 0.31
61 3 0.01
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (58 bp):
GGGTAAAATGGTAATTTTTGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTAG
Found at i:27787206 original size:59 final size:58
Alignment explanation
Indices: 27786912--27787206 Score: 245
Period size: 59 Copynumber: 5.0 Consensus size: 58
27786902 ATCCAGGGGT
** * * *
27786912 AAAATGGTAATTTTATGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGCA
1 AAAAT-GTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAG-TTCGAGGTA
* * ** * * *
27786972 AAAATGTAATTTTTGGAAG-TTCGAGGGCAAAAATATAATTTTTGGAAATTTTTGGGGTA
1 AAAATGTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTTGG-AA-GTTCGAGGTA
* * * * * * *
27787031 AAAATATAATTTTGGAAAGTTTTGGGGTTAAAAATGGAATTTTTGGAAATTCGAGGGAA
1 AAAATGTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGA-GGTA
* * * * * *
27787090 AAAATGTATTTTTTGAAAGTTTC-ATGGTCAAAAATGTAATTTTTAGAAATTTTCGAGGTA
1 AAAATGTAATTTTGGGAAGTTTCGA-GGTCAAAAATGGAATTTTT-GGAA-GTTCGAGGTA
*
27787150 AAAACT-TAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTAGAGAAGTTCGAGG
1 AAAA-TGTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTTG-GAAGTTCGAGG
27787207 GTTAAAATAC
Statistics
Matches: 187, Mismatches: 38, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
58 26 0.14
59 86 0.46
60 68 0.36
61 7 0.04
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (58 bp):
AAAATGTAATTTTGGGAAGTTTCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGTA
Found at i:27787710 original size:16 final size:16
Alignment explanation
Indices: 27787689--27787721 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27787679 CCCTCAAAAC
27787689 GGTGTCGTTTTAGAGG
1 GGTGTCGTTTTAGAGG
27787705 GGTGTCGTTTTAGAGG
1 GGTGTCGTTTTAGAGG
27787721 G
1 G
27787722 CTATAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.45, T:0.36
Consensus pattern (16 bp):
GGTGTCGTTTTAGAGG
Found at i:27789143 original size:6 final size:6
Alignment explanation
Indices: 27789132--27789186 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
27789122 TACAATGATA
* *
27789132 TTAAAT TTAAA- TTAAA- TTAAAA TTAAAA TTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
27789177 TTAAAT TTAA
1 TTAAAT TTAA
27789187 TTTCAAAGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
5 15 0.33
6 31 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:27789147 original size:11 final size:11
Alignment explanation
Indices: 27789131--27789186 Score: 85
Period size: 11 Copynumber: 5.0 Consensus size: 11
27789121 TTACAATGAT
27789131 ATTAAATTTAA
1 ATTAAATTTAA
*
27789142 ATTAAATTAAA
1 ATTAAATTTAA
*
27789153 ATTAAAATTAA
1 ATTAAATTTAA
27789164 ATTTAAATTTAA
1 A-TTAAATTTAA
27789176 ATTAAATTTAA
1 ATTAAATTTAA
27789187 TTTCAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 30 0.75
12 10 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:27789184 original size:17 final size:17
Alignment explanation
Indices: 27789132--27789186 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
27789122 TACAATGATA
27789132 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
* *
27789149 TAAAATTAAAATTAAAT
1 TTAAATTTAAATTAAAT
27789166 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
27789183 TTAA
1 TTAA
27789187 TTTCAAAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:27789198 original size:17 final size:16
Alignment explanation
Indices: 27789135--27789203 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
27789125 AATGATATTA
* *
27789135 AATTTAAATTAAATTAA
1 AATTTAAAGTAAATT-T
* *
27789152 AATTAAAATTAAATTT
1 AATTTAAAGTAAATTT
*
27789168 AAATTTAAATTAAATTT
1 -AATTTAAAGTAAATTT
*
27789185 AATTTCAAAGTAAAATT
1 AATTT-AAAGTAAATTT
27789202 AA
1 AA
27789204 GATGGTTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
16 5 0.11
17 40 0.89
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
AATTTAAAGTAAATTT
Found at i:27789316 original size:29 final size:30
Alignment explanation
Indices: 27789262--27789327 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
27789252 TTTTTTTATA
*
27789262 AAAATAATATTAAAAAATTAATTAATCGCG
1 AAAATAATATTAAAAAATTAATTAATCACG
* *
27789292 AAAATAATA-TGAAAAA-TAGATTAATTACG
1 AAAATAATATTAAAAAATTA-ATTAATCACG
27789321 AAAATAA
1 AAAATAA
27789328 GTTATTTTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 21 0.66
30 9 0.28
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAATAATATTAAAAAATTAATTAATCACG
Found at i:27797073 original size:21 final size:21
Alignment explanation
Indices: 27797021--27797074 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
27797011 ACCTACAAAA
*
27797021 CATTATGTTTGTAACTCTCCT
1 CATTATGTTTGTAACTCTCAT
*
27797042 CA-TAAGTTTTGTAACTCTCAT
1 CATTATG-TTTGTAACTCTCAT
27797063 CATTATGTTTGT
1 CATTATGTTTGT
27797075 TTTAAATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 22 0.79
22 3 0.11
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (21 bp):
CATTATGTTTGTAACTCTCAT
Found at i:27803256 original size:19 final size:19
Alignment explanation
Indices: 27803234--27803278 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27803224 TTATATTAGG
27803234 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
27803253 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
27803272 ATTTAAT
1 ATTTAAT
27803279 TTACGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:27804136 original size:21 final size:22
Alignment explanation
Indices: 27804090--27804136 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
27804080 TTTCTATTTC
*
27804090 TTTTAATTCTATTTTCTTTAAT
1 TTTTAAATCTATTTTCTTTAAT
* *
27804112 TTTTAAATCTGTTTT-TTTTAT
1 TTTTAAATCTATTTTCTTTAAT
27804133 TTTT
1 TTTT
27804137 CCTTAGATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTAAATCTATTTTCTTTAAT
Found at i:27805639 original size:21 final size:21
Alignment explanation
Indices: 27805615--27805657 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27805605 GTAATCTATA
*
27805615 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
27805636 GATTTTCAAAAGAAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
27805657 G
1 G
27805658 CATCTATTAA
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:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:27807122 original size:4 final size:4
Alignment explanation
Indices: 27807113--27807140 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
27807103 TTCTACCTGT
27807113 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
27807141 AGTATATTTT
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:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:27808431 original size:19 final size:19
Alignment explanation
Indices: 27808409--27808453 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27808399 TTATATTAGG
27808409 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
27808428 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
27808447 ATTTAAT
1 ATTTAAT
27808454 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:27809305 original size:21 final size:21
Alignment explanation
Indices: 27809251--27809310 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
27809241 TTCAACTTCA
*
27809251 CTATTTTCTATT-TCTTTTAATT
1 CTATTTTCT-TTAT-TTTTAAAT
27809273 CTATTTTCTTTAATTTTTAAAT
1 CTATTTTCTTT-ATTTTTAAAT
*
27809295 CTGTTTT-TTTATTTTT
1 CTATTTTCTTTATTTTT
27809311 CCTTAGATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.18
21 5 0.15
22 22 0.65
23 1 0.03
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (21 bp):
CTATTTTCTTTATTTTTAAAT
Found at i:27811650 original size:34 final size:35
Alignment explanation
Indices: 27811612--27811678 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
27811602 TTTTGCTAAT
*
27811612 GTCTGC-C-AATATGGCACGTTTTCTTTATTTTTTC
1 GTCTGCTCTAATATGGCACG-TTTCTTAATTTTTTC
* *
27811646 GTCTGCTCTATTGTGGCACGTTTCTTAATTTTT
1 GTCTGCTCTAATATGGCACGTTTCTTAATTTTT
27811679 AGATTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 6 0.21
35 13 0.46
36 9 0.32
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.51
Consensus pattern (35 bp):
GTCTGCTCTAATATGGCACGTTTCTTAATTTTTTC
Found at i:27814202 original size:41 final size:40
Alignment explanation
Indices: 27814154--27814254 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
27814144 TCGACCTCGA
** *
27814154 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
27814194 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
27814232 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
27814255 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:27817015 original size:24 final size:24
Alignment explanation
Indices: 27816987--27817043 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
27816977 TAGAGTAATA
*
27816987 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
27817011 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
27817035 AGAGTTTAA
1 AGAGTTTAA
27817044 TTGAAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:27817044 original size:24 final size:24
Alignment explanation
Indices: 27816999--27817049 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
27816989 AGTTTGACTC
27816999 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
27817023 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
27817047 AAA
1 AAA
27817050 GATTATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:27821168 original size:19 final size:20
Alignment explanation
Indices: 27821141--27821185 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
27821131 ATTTCAAGAA
* *
27821141 AATTCAATACTTAAT-TTTT
1 AATTTAATACTTAATATTTC
*
27821160 AATTTAATATTTAATATTTC
1 AATTTAATACTTAATATTTC
27821180 AATTTA
1 AATTTA
27821186 TCAAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTAATACTTAATATTTC
Found at i:27822565 original size:15 final size:15
Alignment explanation
Indices: 27822544--27822583 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
27822534 TAAATATTTA
27822544 AAAATTAT-AAATAT
1 AAAATTATAAAATAT
27822558 ATAAATTATTAAAATAT
1 A-AAATTA-TAAAATAT
27822575 AAAATTATA
1 AAAATTATA
27822584 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 8 0.35
16 7 0.30
17 7 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATAAAATAT
Found at i:27822579 original size:16 final size:15
Alignment explanation
Indices: 27822544--27822582 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
27822534 TAAATATTTA
27822544 AAAATTA-TAAATAT
1 AAAATTATTAAATAT
27822558 ATAAATTATTAAAATAT
1 A-AAATTATT-AAATAT
27822575 AAAATTAT
1 AAAATTAT
27822583 ATTTTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.05
15 6 0.27
16 8 0.36
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATTATTAAATAT
Found at i:27828601 original size:31 final size:29
Alignment explanation
Indices: 27828563--27828698 Score: 103
Period size: 31 Copynumber: 4.5 Consensus size: 29
27828553 TTAAGATAAC
* *
27828563 ATTTGGTATCTGAACTTGACACTTTTTTTTA
1 ATTTGGTA-CTAAACTTGACAC-TTTTTCTA
*** * *
27828594 ATTTGGTAACTAAACTT-TTTCTTTGTCCA
1 ATTTGGT-ACTAAACTTGACACTTTTTCTA
* *
27828623 ATTTGGTACTCGAACTTGACAATTTTTCCTA
1 ATTTGGTACT-AAACTTGACACTTTTT-CTA
*
27828654 ATTTGGTACCTAAACTTGACACTTTTTTTA
1 ATTTGGTA-CTAAACTTGACACTTTTTCTA
*
27828684 AGTTGGTACTTAAAC
1 ATTTGGTAC-TAAAC
27828699 ATTCCAGGGT
Statistics
Matches: 81, Mismatches: 18, Indels: 13
0.72 0.16 0.12
Matches are distributed among these distances:
28 3 0.04
29 18 0.22
30 19 0.23
31 38 0.47
32 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (29 bp):
ATTTGGTACTAAACTTGACACTTTTTCTA
Found at i:27828727 original size:89 final size:91
Alignment explanation
Indices: 27828563--27828755 Score: 241
Period size: 89 Copynumber: 2.1 Consensus size: 91
27828553 TTAAGATAAC
* * * * * ***
27828563 ATTTGGTATCTGAACTTGACACTTTTTTTTAATTTGGTAACTAAACTTTTTCTTTGTCCAATTTG
1 ATTTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTAACTAAACTATTCCAGGGTCCAATTTG
27828628 GTACTCGAACTTGACAATTTTTCCTA
66 GTACTCGAACTTGACAATTTTTCCTA
27828654 ATTTGGTACCTAAACTTGACAC-TTTTTTTAAGTTGGT-ACTTAAAC-ATTCCAGGGTCCAATTT
1 ATTTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTAAC-TAAACTATTCCAGGGTCCAATTT
**
27828716 GGTAC-CTGAACTTGACTCTTTTTCCTA
65 GGTACTC-GAACTTGACAATTTTTCCTA
*
27828743 ATTCGGTACCTAA
1 ATTTGGTACCTAA
27828756 TTCTTTTAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 1 0.01
89 49 0.55
90 19 0.21
91 20 0.22
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (91 bp):
ATTTGGTACCTAAACTTGACACTTTTTTTTAAGTTGGTAACTAAACTATTCCAGGGTCCAATTTG
GTACTCGAACTTGACAATTTTTCCTA
Found at i:27828834 original size:95 final size:95
Alignment explanation
Indices: 27828724--27828917 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
27828714 TTGGTACCTG
* *
27828724 AACTTGACTCTTTTTCCTAATTCGGTACCTAATTCTTTTAATATTAGTTCGTTAAGTATAGTTCA
1 AACTTGACTCTTTTTCCTAATTCGGTACCTAATTCTTTTAATATTAATTCGTTAAGTATAGCTCA
27828789 ATATCTATTTTTAACATGAATTTTCTCTAA
66 ATATCTATTTTTAACATGAATTTTCTCTAA
* *
27828819 AACTTGACTCTTTTTCCTAATTCGGTACTTAATTTTTTTAATATTAATTCGTTAAGTATAGCTCA
1 AACTTGACTCTTTTTCCTAATTCGGTACCTAATTCTTTTAATATTAATTCGTTAAGTATAGCTCA
27828884 ATATCTATTTTTAACATGAATTTTCTCTAA
66 ATATCTATTTTTAACATGAATTTTCTCTAA
27828914 AACT
1 AACT
27828918 AACAATATTT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.47
Consensus pattern (95 bp):
AACTTGACTCTTTTTCCTAATTCGGTACCTAATTCTTTTAATATTAATTCGTTAAGTATAGCTCA
ATATCTATTTTTAACATGAATTTTCTCTAA
Found at i:27832285 original size:2 final size:2
Alignment explanation
Indices: 27832272--27832329 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
27832262 TACCCTTTGC
* * *
27832272 GA GA GT GA GA GA GA GA GA GA GA GA GA GA CA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
27832314 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
27832330 ACGGAATCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.47, C:0.02, G:0.50, T:0.02
Consensus pattern (2 bp):
GA
Found at i:27832849 original size:25 final size:25
Alignment explanation
Indices: 27832788--27832849 Score: 65
Period size: 29 Copynumber: 2.4 Consensus size: 25
27832778 CTACACAATA
27832788 ATTAATA-ATAATTATTTGAAAAAT
1 ATTAATATATAATTATTTGAAAAAT
27832812 ACTTATTCATATATAA-TATTTTGAAAAAT
1 A-TTA---ATATATAATTA-TTTGAAAAAT
27832841 ATTAATATA
1 ATTAATATA
27832850 AGATGTGAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
24 1 0.03
25 8 0.25
28 8 0.25
29 15 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (25 bp):
ATTAATATATAATTATTTGAAAAAT
Found at i:27837215 original size:25 final size:23
Alignment explanation
Indices: 27837187--27837239 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
27837177 CGTGCTATCG
27837187 AGAGCAAAAAATCGTGTCAAAAGAC
1 AGAG-AAAAAATC-TGTCAAAAGAC
* *
27837212 AGAGAGAATATCTGTCAAAAGAC
1 AGAGAAAAAATCTGTCAAAAGAC
27837235 AGAGA
1 AGAGA
27837240 GAGAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 16 0.62
24 6 0.23
25 4 0.15
ACGTcount: A:0.51, C:0.13, G:0.23, T:0.13
Consensus pattern (23 bp):
AGAGAAAAAATCTGTCAAAAGAC
Found at i:27846533 original size:103 final size:102
Alignment explanation
Indices: 27846398--27846596 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 102
27846388 TTAAATTTTT
*
27846398 AGTTTATTAAACAACACTAAATTATAAAGTAAAATCTATTGAAAAATAAGGAATGATTTAGATGT
1 AGTTTATTAAACAACACTAAATTATAAAGTAAAATCTATTGAAAAATAAGGAATGATTGAGATGT
*
27846463 GCCTAAGGAAGTGCCCACTTCCTGAAGCATTATGATA
66 GCCTAAGGAAGTGCCCACTTCCCGAAGCATTATGATA
* *
27846500 AGTTTATTAAACAACAGCTAAATTGTAAAGTAAAATCTATTGAAAAATATGGAATGATTGAGATG
1 AGTTTATTAAACAACA-CTAAATTATAAAGTAAAATCTATTGAAAAATAAGGAATGATTGAGATG
** *
27846565 TGTTTGAGGAAGTGCCCACTTCCCGAAGCATT
65 TGCCTAAGGAAGTGCCCACTTCCCGAAGCATT
27846597 GCGACAGGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 16 0.18
103 73 0.82
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
AGTTTATTAAACAACACTAAATTATAAAGTAAAATCTATTGAAAAATAAGGAATGATTGAGATGT
GCCTAAGGAAGTGCCCACTTCCCGAAGCATTATGATA
Found at i:27848860 original size:28 final size:28
Alignment explanation
Indices: 27848822--27848878 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
27848812 AAAAAAACTC
*
27848822 ATCCATGTAACAAAAAAAATGGTATTGT
1 ATCCATGTAACAAAAAAAATGGCATTGT
27848850 ATCCATGTAACAAAAAAAATGGCATTGT
1 ATCCATGTAACAAAAAAAATGGCATTGT
27848878 A
1 A
27848879 ACTGACTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (28 bp):
ATCCATGTAACAAAAAAAATGGCATTGT
Found at i:27854138 original size:34 final size:34
Alignment explanation
Indices: 27854094--27854169 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
27854084 GCATATAAAA
*
27854094 AATCGATTCAAAATAAGAAGTATTCCAACATAAC
1 AATCGATTCAAAAGAAGAAGTATTCCAACATAAC
* * *
27854128 TATCGATTCAAAAGAAGTAGTATTCCAACATGAC
1 AATCGATTCAAAAGAAGAAGTATTCCAACATAAC
27854162 AATCGATT
1 AATCGATT
27854170 TAAATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (34 bp):
AATCGATTCAAAAGAAGAAGTATTCCAACATAAC
Found at i:27854458 original size:6 final size:6
Alignment explanation
Indices: 27854447--27854489 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
27854437 GTAACATCCA
* * *
27854447 TTTCAT TTTCAT TTCCAT TTTCA- TATCAT TCTCAT TTTCAT TT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TT
27854490 CATATTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.19, C:0.21, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTCAT
Found at i:27854475 original size:17 final size:18
Alignment explanation
Indices: 27854455--27854492 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
27854445 CATTTCATTT
27854455 TCATTTC-CATTTTCATA
1 TCATTTCTCATTTTCATA
*
27854472 TCA-TTCTCATTTTCATT
1 TCATTTCTCATTTTCATA
27854489 TCAT
1 TCAT
27854493 ATTCAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTTCTCATTTTCATA
Found at i:27855239 original size:65 final size:65
Alignment explanation
Indices: 27855157--27855287 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
27855147 AAGTTTGAAG
*
27855157 AAAAACATACTTTATGCTTAAAATTTGGAGAAAAATGATGGATTTTTTCTTCTTCTTTTCTTGCT
1 AAAAACATACCTTATGCTTAAAATTTGGAGAAAAATGATGGATTTTTTCTTCTTCTTTTCTTGCT
27855222 AAAAACATACCTTATGCTTAAAATTTGGAGAAAAATGATGGATTTTTTCTTCTTCTTTTCTTGCT
1 AAAAACATACCTTATGCTTAAAATTTGGAGAAAAATGATGGATTTTTTCTTCTTCTTTTCTTGCT
27855287 A
1 A
27855288 GGCACCAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (65 bp):
AAAAACATACCTTATGCTTAAAATTTGGAGAAAAATGATGGATTTTTTCTTCTTCTTTTCTTGCT
Found at i:27855814 original size:8 final size:8
Alignment explanation
Indices: 27855798--27855844 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
27855788 GGATAGAATG
27855798 AAAATAAA
1 AAAATAAA
*
27855806 AAAAGAAA
1 AAAATAAA
27855814 AAAATAAA
1 AAAATAAA
* *
27855822 ATAATTAA
1 AAAATAAA
*
27855830 TAAAT-AA
1 AAAATAAA
27855837 AAAATAAA
1 AAAATAAA
27855845 TGAATATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Found at i:27856266 original size:11 final size:11
Alignment explanation
Indices: 27856252--27856293 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
27856242 ATTATAATTT
27856252 TTTATTAAATA
1 TTTATTAAATA
27856263 TTTATTAAA-A
1 TTTATTAAATA
* *
27856273 TTTTAATATATA
1 -TTTATTAAATA
27856285 TTTATTAAA
1 TTTATTAAA
27856294 ATAATTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTATTAAATA
Found at i:27856285 original size:22 final size:22
Alignment explanation
Indices: 27856251--27856305 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
27856241 TATTATAATT
* *
27856251 TTTTATTAAATATTTATTAAAA
1 TTTTAATATATATTTATTAAAA
27856273 TTTTAATATATATTTATTAAAA
1 TTTTAATATATATTTATTAAAA
*
27856295 TAATTAATATA
1 T-TTTAATATA
27856306 GATTAAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAATATATATTTATTAAAA
Found at i:27856883 original size:17 final size:17
Alignment explanation
Indices: 27856863--27856896 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27856853 ATCTAATTCT
*
27856863 AAAATTATGTTAATATA
1 AAAATAATGTTAATATA
*
27856880 AAAATAATTTTAATATA
1 AAAATAATGTTAATATA
27856897 TTTTAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAATAATGTTAATATA
Found at i:27870132 original size:30 final size:30
Alignment explanation
Indices: 27870098--27870264 Score: 155
Period size: 30 Copynumber: 5.6 Consensus size: 30
27870088 CCCCAAACTT
*
27870098 TTTCAAAATTATATTTTAACCCCTAAATTC
1 TTTCAAAATTACATTTTAACCCCTAAATTC
*
27870128 TTTCAAAATTACATTTTAAGCCCC-AAACTC
1 TTTCAAAATTACATTTTAA-CCCCTAAATTC
* * *
27870158 TTTCAAAATTGCATTTTGACCCTTAAATT-
1 TTTCAAAATTACATTTTAACCCCTAAATTC
*
27870187 TTTCCAAAATTACATTTTGACCCCTAAACTT-
1 TTT-CAAAATTACATTTTAACCCCTAAA-TTC
* * * * *
27870218 TTCCAAAACTACATTTTGACTCCC-GAACT-
1 TTTCAAAATTACATTTTAAC-CCCTAAATTC
27870247 TTTCTAAAATTACATTTT
1 TTTC-AAAATTACATTTT
27870265 TGCCTCGAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
29 10 0.09
30 96 0.82
31 11 0.09
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (30 bp):
TTTCAAAATTACATTTTAACCCCTAAATTC
Found at i:27870185 original size:60 final size:58
Alignment explanation
Indices: 27870088--27870264 Score: 196
Period size: 60 Copynumber: 3.0 Consensus size: 58
27870078 CTTAAGAGGT
* *
27870088 CCCCAAACTTTTTCAAAATTATATTTTAACCCCTAAATTCTTT-CAAAATTACATTTTAA
1 CCCCAAAC-TTTTCAAAATTACATTTTGACCCCTAAATT-TTTCCAAAATTACATTTTAA
* * *
27870147 GCCCCAAACTCTTTCAAAATTGCATTTTGACCCTTAAATTTTTCCAAAATTACATTTTGA
1 -CCCCAAACT-TTTCAAAATTACATTTTGACCCCTAAATTTTTCCAAAATTACATTTTAA
* * * *
27870207 CCCCTAAACTTTTCCAAAACTACATTTTGACTCCC-GAACTTTTCTAAAATTACATTTT
1 CCCC-AAACTTTT-CAAAATTACATTTTGAC-CCCTAAATTTTTCCAAAATTACATTTT
27870265 TGCCTCGAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
59 11 0.11
60 88 0.87
61 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.39
Consensus pattern (58 bp):
CCCCAAACTTTTCAAAATTACATTTTGACCCCTAAATTTTTCCAAAATTACATTTTAA
Found at i:27870256 original size:90 final size:89
Alignment explanation
Indices: 27870096--27870264 Score: 218
Period size: 90 Copynumber: 1.9 Consensus size: 89
27870086 GTCCCCAAAC
* * *
27870096 TTTTTCAAAATTATATTTTAACCCCTAAATTCTTTCAAAATTACATTTTAAGCCCCAAACTCTTT
1 TTTTTCAAAATTACATTTTAACCCCTAAATTCTTCCAAAACTACATTTTAAGCCCCAAACTCTTT
*
27870161 CAAAATTGCATTTTGACCCTTAAA
66 CAAAATTACATTTTGACCCTTAAA
* * *
27870185 TTTTTCCAAAATTACATTTTGACCCCTAAACTT-TTCCAAAACTACATTTTGA-CTCCCGAACT-
1 TTTTT-CAAAATTACATTTTAACCCCTAAA-TTCTTCCAAAACTACATTTTAAGC-CCCAAACTC
27870247 TTTCTAAAATTACATTTT
63 TTTC-AAAATTACATTTT
27870265 TGCCTCGAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
89 10 0.14
90 57 0.83
91 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (89 bp):
TTTTTCAAAATTACATTTTAACCCCTAAATTCTTCCAAAACTACATTTTAAGCCCCAAACTCTTT
CAAAATTACATTTTGACCCTTAAA
Found at i:27874438 original size:15 final size:15
Alignment explanation
Indices: 27874415--27874450 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27874405 TATCAAAAAG
*
27874415 AAAATAAAAAAGAAA
1 AAAAGAAAAAAGAAA
*
27874430 AAAAGAAAAAAGAAG
1 AAAAGAAAAAAGAAA
27874445 AAAAGA
1 AAAAGA
27874451 TGGGTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:27876475 original size:99 final size:99
Alignment explanation
Indices: 27876304--27877035 Score: 615
Period size: 99 Copynumber: 7.4 Consensus size: 99
27876294 ACTATAAACC
* * *
27876304 TTTGAAGGGAAAGGTTGAGGCCACGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
*
27876369 TGAGGCTGCAACGACGAATCCAGTACCATGAAGA
66 TGAGGCTGCAACGGCGAATCCAGTACCATGAAGA
* * * ** * *
27876403 TTTGATGGGAAAGATTGAGTCTACGATGGCGAACCCGGTACCTCAAAAGATGTGATTGGAAAGAT
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
* * * *
27876468 TGAGGCTGCAATGGTGAATCCAATACCATG-ATA
66 TGAGGCTGCAACGGCGAATCCAGTACCATGAAGA
* * * ** * *
27876501 TGTGATGGGAAAGGTTGAGGCCGCAACGAG-GAACCCGGTA--T-AATGATTATTTGAAGGGAAA
1 TTTGAAGGGAAAGGTTGAGGCCGCGACG-GCGAACCCGGTACCTCAA--AAGATGTGATGGGAAA
* * * * *
27876562 GGTTAAGGCCGCAACGGCGAA-CCCGAAACCATGAAGA
63 GATTGAGGCTGCAACGGCGAATCCAG-TACCATGAAGA
* * * * * * *
27876599 TTTGAAGTGAAAGGTTGAGGCTGTGATGGCAAACCCGATACCTCAAAAGATGTGATGGGAAAGAC
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
* * * *
27876664 TAAGGCCGCAACGGCGAATTCGGTACCATGAAGA
66 TGAGGCTGCAACGGCGAATCCAGTACCATGAAGA
* * *
27876698 TTTGAAGGGAAAGGTTGAGGCTGCGACGGTGAACCCGGTACCTCAGAAGATGTGATGGGAAAGAT
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
* *
27876763 TGAGGCCGCAATGGCGAAT-CATGTACCATGAA-A
66 TGAGGCTGCAACGGCGAATCCA-GTACCATGAAGA
* * * * * * * * * * *
27876796 TGTGATGGGAAAGTTTGAGGCCGCAACAGCGAACCCGGTACCAC-GAATATTTGAAGGGAAAGGT
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
* * **
27876860 TAAGGCTGCAACGACGAA-CTTGGTACCATGAAGA
66 TGAGGCTGCAACGGCGAATC-CAGTACCATGAAGA
* * * * * * *
27876894 TTTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGT
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
* * * * *
27876959 TGAGG-TCGCAACGG-GAAACACGGTATCTTAAAAGA
66 TGAGGCT-GCAACGGCGAATC-CAGTACCAT-GAAGA
* * * * * *
27876994 TGTGATGGAAAAGGTTGAGGCCGCAACAGCGAACCCGATACC
1 TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACC
27877036 ATAAAGATAT
Statistics
Matches: 511, Mismatches: 104, Indels: 35
0.79 0.16 0.05
Matches are distributed among these distances:
95 2 0.00
96 3 0.01
97 74 0.14
98 142 0.28
99 245 0.48
100 43 0.08
101 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (99 bp):
TTTGAAGGGAAAGGTTGAGGCCGCGACGGCGAACCCGGTACCTCAAAAGATGTGATGGGAAAGAT
TGAGGCTGCAACGGCGAATCCAGTACCATGAAGA
Found at i:27876971 original size:295 final size:294
Alignment explanation
Indices: 27876304--27876972 Score: 912
Period size: 295 Copynumber: 2.3 Consensus size: 294
27876294 ACTATAAACC
* *
27876304 TTTGAAGGGAAAGGTTGAGGCCACGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
1 TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
* * * *
27876369 TGAGGCTGCAACGACGAATCCAGTACCATGAAGATTTGATGGGAAAGATTGAGTCTACGATGGCG
66 TGAGGC-GCAACGGCGAATCCAGTACCATGAAGATTTGAAGGGAAAGATTGAGGCTACGACGGCG
* * *
27876434 AACCCGGTACCTCAAAAGATGTGATTGGAAAGATTGAGGCTGCAATGGTGAATCCAATACCATGA
130 AACCCGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAATACCATGA
* * * *
27876499 TATGTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTATAATGATTATTTGAAGGGAAAGG
195 AATGTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTACAACGAATATTTGAAGGGAAAGG
*
27876564 TTAAGGCCGCAACGGCGAACCCGAAACCATGAAGA
260 TTAAGGCCGCAACGACGAACCCGAAACCATGAAGA
* * *
27876599 TTTG-AAGTGAAAGGTTGAGGCTGTGATGGCAAACCCGATACCTCAAAAGATGTGATGGGAAAGA
1 TTTGAAAG-GAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGA
* * * * * * *
27876663 CTAAGGCCGCAACGGCGAATTCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCTGCGACGGT
65 TTGAGG-CGCAACGGCGAATCCAGTACCATGAAGATTTGAAGGGAAAGATTGAGGCTACGACGGC
* *
27876728 GAACCCGGTACCTCAGAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAAT-CATGTACCAT
129 GAACCCGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCA-ATACCAT
* *
27876792 GAAATGTGATGGGAAAGTTTGAGGCCGCAAC-AGCGAACCCGGTACCACGAATATTTGAAGGGAA
193 GAAATGTGATGGGAAAGGTTGAGGCCGCAACGAG-GAACCCGGTACAACGAATATTTGAAGGGAA
* ** **
27876856 AGGTTAAGGCTGCAACGACGAACTTGGTACCATGAAGA
257 AGGTTAAGGCCGCAACGACGAACCCGAAACCATGAAGA
* * * * * *
27876894 TTTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGT
1 TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
27876959 TGAGGTCGCAACGG
66 TGAGG-CGCAACGG
27876973 GAAACACGGT
Statistics
Matches: 324, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
294 6 0.02
295 314 0.97
296 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (294 bp):
TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
TGAGGCGCAACGGCGAATCCAGTACCATGAAGATTTGAAGGGAAAGATTGAGGCTACGACGGCGA
ACCCGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAATACCATGAA
ATGTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTACAACGAATATTTGAAGGGAAAGGT
TAAGGCCGCAACGACGAACCCGAAACCATGAAGA
Found at i:27877020 original size:50 final size:50
Alignment explanation
Indices: 27876634--27877040 Score: 184
Period size: 50 Copynumber: 8.2 Consensus size: 50
27876624 ATGGCAAACC
* * ** * * **
27876634 CGATACCTCAAAAGATGTGATGGGAAAGACTAAGGCCGCAACGGCGAATT
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
* * * * * * * * *
27876684 CGGTACCAT-GAAGATTTGAAGGGAAAGGTTGAGGCTGCGACGGTGAACC
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
* * * * * * *
27876733 CGGTACCTCAGAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCA
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAA-CA
* * * * * * * *
27876784 TG-TACCAT-GAA-ATGTGATGGGAAAGTTTGAGGCCGCAACAGCGAACC
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
* * * * * * * * ** *
27876831 CGGTACC--ACGAATATTTGAAGGGAAAGGTTAAGGCTGCAACGACGAACT
1 CGATACCTTA-AAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
* * * * * * *
27876880 TGGTACCAT-GAAGATTTGAAAGG-AAAGGTTGAGGCCGCAACGGTGAACC
1 CGATACCTTAAAAGATGTG-ATGGAAAAGGTTGAGGCCGCAACGGTGAACA
* * *
27876929 CGATACCTTAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGG-GAAACA
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTG-AACA
* * * * *
27876979 CGGTATCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACAGCGAACC
1 CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
*
27877029 CGATACCATAAA
1 CGATACCTTAAA
27877041 GATATGAAAG
Statistics
Matches: 280, Mismatches: 64, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
47 2 0.01
48 38 0.14
49 112 0.40
50 125 0.45
51 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (50 bp):
CGATACCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACGGTGAACA
Found at i:27877062 original size:49 final size:49
Alignment explanation
Indices: 27876306--27877085 Score: 516
Period size: 49 Copynumber: 15.8 Consensus size: 49
27876296 TATAAACCTT
* * * * *
27876306 TGAAGGGAAAGGTTGAGGCCACGATGGCGAACCCGATACC-TCAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT--GAAGATG
* * * * * * *
27876356 TGATGGGAAAGATTGAGGCTGCAACGACGAATCCAGTACCATGAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * * ** * * *
27876405 TGATGGGAAAGATTGAGTCTACGATGGCGAACCCGGTACC-TCAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT--GAAGATG
** * * * * * ** *
27876455 TGATTGGAAAGATTGAGGCTGCAATGGTGAATCCAATACCATG-ATATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* ** ** *
27876503 TGATGGGAAAGGTTGAGGCCGCAACGAG-GAACCCGGTATAATGATTATT
1 TGAAGGGAAAGGTTGAGGCCGCAACG-GCGAACCCGGTACCATGAAGATG
* ** *
27876552 TGAAGGGAAAGGTTAAGGCCGCAACGGCGAACCCGAAACCATGAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * ** * * * *
27876601 TGAAGTGAAAGGTTGAGGCTGTGATGGCAAACCCGATACC-TCAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT--GAAGATG
* ** * ** *
27876651 TGATGGGAAAGACTAAGGCCGCAACGGCGAATTCGGTACCATGAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * *
27876700 TGAAGGGAAAGGTTGAGGCTGCGACGGTGAACCCGGTACC-TCAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT--GAAGATG
* * * * **
27876750 TGATGGGAAAGATTGAGGCCGCAATGGCGAATCATGTACCATGAA-ATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * * * * *
27876798 TGATGGGAAAGTTTGAGGCCGCAACAGCGAACCCGGTACCACGAATATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * * ** *
27876847 TGAAGGGAAAGGTTAAGGCTGCAACGACGAACTTGGTACCATGAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * * *
27876896 TGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT-GAAGATG
* * * * * *
27876946 TGATGGGAAAGGTTGAGGTCGCAACGG-GAAACACGGTATCTTAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCG-AACCCGGTACCAT-GAAGATG
* * * * * *
27876996 TGATGGAAAAGGTTGAGGCCGCAACAGCGAACCCGATACCATAAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
* * **
27877045 TGAAAGGAAAGGCTGAGGCC-CTAACGATGAACCCGGTACCA
1 TGAAGGGAAAGGTTGAGGCCGC-AACGGCGAACCCGGTACCA
27877086 ATCCCTTACC
Statistics
Matches: 567, Mismatches: 145, Indels: 37
0.76 0.19 0.05
Matches are distributed among these distances:
48 82 0.14
49 264 0.47
50 216 0.38
51 5 0.01
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.18
Consensus pattern (49 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATG
Found at i:27877064 original size:295 final size:292
Alignment explanation
Indices: 27876304--27877064 Score: 891
Period size: 295 Copynumber: 2.6 Consensus size: 292
27876294 ACTATAAACC
* *
27876304 TTTGAAGGGAAAGGTTGAGGCCACGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
1 TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
* * * * * * *
27876369 TGAGGCTGCAACGACGAATCCAGTACCATGAAGATTTGATGGGAAAGATTGAGTCTACGATGGCG
66 TGAGGC-GCAACG-GGAAACCGGTACCATGAAGATTTGATGGGAAAGGTTGAGGCTGCGACGGCG
* * *
27876434 AACCCGGTACCTCAAAAGATGTGATTGGAAAGATTGAGGCTGCAATGGTGAATCCAATACCATGA
129 AACCCGGTACCTC-AAAGATGTGATAGGAAAGATTGAGGCCGCAATGGCGAATCCAATACCATGA
* * * *
27876499 TATGTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTATAATGATTATTTGAAGGGAAAGG
193 AATGTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTACAACGAATATTTGAAGGGAAAGG
*
27876564 TTAAGGCCGCAACGGCGAACCCGAAACCATGAAGA
258 TTAAGGCCGCAACGACGAACCCGAAACCATGAAGA
* * *
27876599 TTTG-AAGTGAAAGGTTGAGGCTGTGATGGCAAACCCGATACCTCAAAAGATGTGATGGGAAAGA
1 TTTGAAAG-GAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGA
* * ** * *
27876663 CTAAGGCCGCAACGGCGAATTCGGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCTGCGACGGT
65 TTGAGG-CGCAACGG-GAAACCGGTACCATGAAGATTTGATGGGAAAGGTTGAGGCTGCGACGGC
* *
27876728 GAACCCGGTACCTCAGAAGATGTGATGGGAAAGATTGAGGCCGCAATGGCGAAT-CATGTACCAT
128 GAACCCGGTACCTCA-AAGATGTGATAGGAAAGATTGAGGCCGCAATGGCGAATCCA-ATACCAT
* *
27876792 GAAATGTGATGGGAAAGTTTGAGGCCGCAAC-AGCGAACCCGGTACCACGAATATTTGAAGGGAA
191 GAAATGTGATGGGAAAGGTTGAGGCCGCAACGAG-GAACCCGGTACAACGAATATTTGAAGGGAA
* ** **
27876856 AGGTTAAGGCTGCAACGACGAACTTGGTACCATGAAGA
255 AGGTTAAGGCCGCAACGACGAACCCGAAACCATGAAGA
* * * * * *
27876894 TTTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGATGGGAAAGGT
1 TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
* * * * * * * *
27876959 TGAGGTCGCAACGGGAAACACGGTATCTTAAAAGATGTGATGGAAAAGGTTGAGGCCGCAACAGC
66 TGAGG-CGCAACGGGAAAC-CGGTACCAT-GAAGATTTGATGGGAAAGGTTGAGGCTGCGACGGC
* * * **
27877024 GAACCCGATACCAT-AAAGATATGAAAGGAAAGGCTGAGGCC
128 GAACCCGGTACC-TCAAAGATGTGATAGGAAAGATTGAGGCC
27877065 CTAACGATGA
Statistics
Matches: 394, Mismatches: 62, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
294 10 0.03
295 340 0.86
296 43 0.11
297 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (292 bp):
TTTGAAAGGAAAGGTTGAGGCCGCGATGGCGAACCCGATACCTCAAAAGATGTGATGGGAAAGAT
TGAGGCGCAACGGGAAACCGGTACCATGAAGATTTGATGGGAAAGGTTGAGGCTGCGACGGCGAA
CCCGGTACCTCAAAGATGTGATAGGAAAGATTGAGGCCGCAATGGCGAATCCAATACCATGAAAT
GTGATGGGAAAGGTTGAGGCCGCAACGAGGAACCCGGTACAACGAATATTTGAAGGGAAAGGTTA
AGGCCGCAACGACGAACCCGAAACCATGAAGA
Found at i:27877447 original size:85 final size:85
Alignment explanation
Indices: 27877302--27877469 Score: 230
Period size: 85 Copynumber: 2.0 Consensus size: 85
27877292 CAAACACCTA
* * * * * *
27877302 TCTTCCTGATGAGTTACTGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCAGTCATCTTCCTAATGAGATAC
*
27877367 AGAGAAGTGGACCAAATTCG
66 AGAGAAGTAGACCAAATTCG
* * *
27877387 TCTTCCTGATGAGATACAGAGAAGTGGATTAAAATAATGAAGC-GATCATCTTCCTAATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCAG-TCATCTTCCTAATGAGATA
27877451 CAGAGAAGTAGACCAAATT
65 CAGAGAAGTAGACCAAATT
27877470 AATTCAGCGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 71 0.99
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCAGTCATCTTCCTAATGAGATAC
AGAGAAGTAGACCAAATTCG
Found at i:27877484 original size:209 final size:208
Alignment explanation
Indices: 27877124--27877622 Score: 709
Period size: 209 Copynumber: 2.4 Consensus size: 208
27877114 CAGTCATCTG
** * * * * *
27877124 AAGCAATAAAGTGGTCATCTTCTTGATGAAATGTAGAGAAGCGAACCAAA-TCTGTCTTCCTGAT
1 AAGCAATAAAGCAGTCATCTTCATGATGAGATATAGAGAAGTGGACCAAATTC-GTCTTCCTGAT
* * *
27877188 GAGATACAGAGAAGTGGATTAAATAAATAAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTAG
65 GAGATACAGAGAAGTGGATTAAATAAATAAGGCGATCATCTTCCTAATGAGATACAGAGAAGTAG
* * *
27877253 ACCAAATCAATGAAGTGAAGCTCAATACGAATGAGACTTCAAACACCTATCTTCCTGATGAGTTA
130 ACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAAC-CCTATCTTCCTGATGAGATA
27877318 CT-GAGAAGTGGGTCA
194 -TAGAGAAGTGGGTCA
*
27877333 AAGCAATAAAGCAGTCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATG
1 AAGCAATAAAGCAGTCATCTTCATGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATG
27877398 AGATACAGAGAAGTGGATTAAA-ATAATGAA-GCGATCATCTTCCTAATGAGATACAGAGAAGTA
66 AGATACAGAGAAGTGGATTAAATA-AAT-AAGGCGATCATCTTCCTAATGAGATACAGAGAAGTA
* ** *
27877461 GACCAAATTAATTCAGCGAAGCTCAATATGAATGAAACTTCAAACCCTATCTTCCTGATGAGATA
129 GACCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCTATCTTCCTGATGAGATA
27877526 TAGAGAAGTGGGTCA
194 TAGAGAAGTGGGTCA
* * * * * *
27877541 AAGCAATAAAACAGTTATCTTCATGATGAGATACAAAGAAGTGGACCAAATTTGTCTTCTTGATG
1 AAGCAATAAAGCAGTCATCTTCATGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATG
27877606 AGATACAGAGAAGTGGA
66 AGATACAGAGAAGTGGA
27877623 CCAAATCCGT
Statistics
Matches: 262, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
207 1 0.00
208 108 0.41
209 149 0.57
210 4 0.02
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (208 bp):
AAGCAATAAAGCAGTCATCTTCATGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATG
AGATACAGAGAAGTGGATTAAATAAATAAGGCGATCATCTTCCTAATGAGATACAGAGAAGTAGA
CCAAATCAATGAAGCGAAGCTCAATACGAATGAAACTTCAAACCCTATCTTCCTGATGAGATATA
GAGAAGTGGGTCA
Found at i:27877599 original size:37 final size:37
Alignment explanation
Indices: 27877558--27877659 Score: 150
Period size: 37 Copynumber: 2.8 Consensus size: 37
27877548 AAAACAGTTA
* **
27877558 TCTTCATGATGAGATACAAAGAAGTGGACCAAATTTG
1 TCTTCATGATGAGATACAGAGAAGTGGACCAAATCCG
*
27877595 TCTTCTTGATGAGATACAGAGAAGTGGACCAAATCCG
1 TCTTCATGATGAGATACAGAGAAGTGGACCAAATCCG
* *
27877632 TCTTCCTGATAAGATACAGAGAAGTGGA
1 TCTTCATGATGAGATACAGAGAAGTGGA
27877660 TTGAAGCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (37 bp):
TCTTCATGATGAGATACAGAGAAGTGGACCAAATCCG
Found at i:27877705 original size:48 final size:48
Alignment explanation
Indices: 27877632--27877745 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
27877622 ACCAAATCCG
* * *
27877632 TCTTCCTGATAAGATACAGAGAAGTGGATTGAAGCAATAAAGC-AGTCA
1 TCTTCCTGATGAGATACAGAGAAGTGAATTAAAGCAATAAAGCGA-TCA
* * * *
27877680 TCTTCCTGATGAGATACAGATAAGTGAATTAAATCAATGAGGCGATCA
1 TCTTCCTGATGAGATACAGAGAAGTGAATTAAAGCAATAAAGCGATCA
*
27877728 TCTTTCTGATGAGATACA
1 TCTTCCTGATGAGATACA
27877746 ATGTAGTAGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 56 0.98
49 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAGAGAAGTGAATTAAAGCAATAAAGCGATCA
Found at i:27877902 original size:37 final size:37
Alignment explanation
Indices: 27877850--27878086 Score: 132
Period size: 37 Copynumber: 5.8 Consensus size: 37
27877840 ATAAAGCGGT
*
27877850 CATCTTCCTAATGAGATACAGAGAAGTGGACCAAATC
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
* * * **
27877887 CGTCTTCCTGATGAGATACAAAAAAGTGGATTAAAATAATGAAGC
1 CATCTTCCTGATGAGATACAGAGAAGTGG---ACCA-AAT----C
* *
27877932 GATCATCTTCTTGATGAGATACAGAGAAGTGAACCAAATC
1 ---CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
* * * * *
27877972 CGTCTTCCTGATAAGATACAGATAAGTGGATTGAAGCAATAAAGTGAT
1 CATCTTCCTGATGAGATACAGAGAAGT-G---G-A-C--CAAA-T--C
*
27878020 CATCTTCCTGATGAGATACAGAGAAGTGGAGCAAATC
1 CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
* *
27878057 CATCTTCTTGATGAGATATAGAGAAGTGGA
1 CATCTTCCTGATGAGATACAGAGAAGTGGA
27878087 TTGAAACAAT
Statistics
Matches: 150, Mismatches: 28, Indels: 44
0.68 0.13 0.20
Matches are distributed among these distances:
37 76 0.51
38 1 0.01
39 1 0.01
40 6 0.04
41 3 0.02
42 1 0.01
43 2 0.01
44 4 0.03
45 6 0.04
46 1 0.01
47 1 0.01
48 48 0.32
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
Found at i:27877949 original size:85 final size:85
Alignment explanation
Indices: 27877806--27878141 Score: 415
Period size: 85 Copynumber: 4.0 Consensus size: 85
27877796 AACACCCATA
* * * * * *
27877806 TTCCTAATGAGATACAGAGAAGT-GAGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACA
1 TTCCTGATGAGATACAGAAAAGTGGATTGAAA-CAATGAAGCGATCATCTTCCTAATGAGATACA
27877870 GAGAAGTGGACCAAATCCGTC
65 GAGAAGTGGACCAAATCCGTC
* * * * *
27877891 TTCCTGATGAGATACAAAAAAGTGGATTAAAATAATGAAGCGATCATCTTCTTGATGAGATACAG
1 TTCCTGATGAGATACAGAAAAGTGGATTGAAACAATGAAGCGATCATCTTCCTAATGAGATACAG
*
27877956 AGAAGTGAACCAAATCCGTC
66 AGAAGTGGACCAAATCCGTC
* * * * * *
27877976 TTCCTGATAAGATACAGATAAGTGGATTGAAGCAATAAAGTGATCATCTTCCTGATGAGATACAG
1 TTCCTGATGAGATACAGAAAAGTGGATTGAAACAATGAAGCGATCATCTTCCTAATGAGATACAG
* *
27878041 AGAAGTGGAGCAAATCCATC
66 AGAAGTGGACCAAATCCGTC
* * * *
27878061 TTCTTGATGAGATATAGAGAAGTGGATTGAAACAATGAGGC-AGTCATCTTCCTAATGAGATACA
1 TTCCTGATGAGATACAGAAAAGTGGATTGAAACAATGAAGCGA-TCATCTTCCTAATGAGATACA
*
27878125 GAGAAGTAGACCAAATC
65 GAGAAGTGGACCAAATC
27878142 AATAAAGCGA
Statistics
Matches: 215, Mismatches: 34, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
84 1 0.00
85 208 0.97
86 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (85 bp):
TTCCTGATGAGATACAGAAAAGTGGATTGAAACAATGAAGCGATCATCTTCCTAATGAGATACAG
AGAAGTGGACCAAATCCGTC
Found at i:27877980 original size:294 final size:283
Alignment explanation
Indices: 27877347--27878056 Score: 760
Period size: 294 Copynumber: 2.4 Consensus size: 283
27877337 AATAAAGCAG
* * * *
27877347 TCATCTTCCTGATGAGATATAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGT
1 TCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGATAAGT
* * **
27877412 GGATTAAAAT-AATGAAGCGATCATCTTCCTAATGAGATACAGAGAAGTAGACCAAATTAATTCA
66 GGATT-AAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAA
* * * * * *
27877476 GCGAAGCTCAATATGAATGAAACTTCAAACCCTATCTTCCTGATGAGATATAGAGAAGTGGGTCA
130 GCGAAGCTCAATACGAATGAAACTTCAAACCCCATATTCCTAATGAGATACAGAGAAGTGAGTCA
* * ** *
27877541 AAGCAATAAAACAGTTATCTTCATGATGAGATACAAAGAAGTGGACCAAATTTGTCTTCTTGATG
195 AAGCAATAAAACAGTCATCTTCATAATGAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGATG
* * **
27877606 AGATACAGAGAAGTGGACCAAATC
260 AGATACAAAAAAGTGGAAAAAATC
* * * * *
27877630 -CGTCTTCCTGATAAGATACAGAGAAGTGGATTGAAGCAATAAAGCAGTCATCTTCCTGATGAGA
1 TCATCTTCCTGATGAGATACAGAGAA---G--TGAA-C--CAAATC---CGTCTTCCTGATGAGA
* * * *
27877694 TACAGATAAGTGAATTAAATCAATGAGGCGATCATCTTTCTGATGAGATACA-ATGTAGTAGACC
55 TACAGATAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGA-GAAGTAGACC
* * *
27877758 AAATCAATAAAGTGAAGCTCAATACGGATGAGACTTCAAACACCCATATTCCTAATGAGATACAG
119 AAATCAATAAAGCGAAGCTCAATACGAATGAAACTTCAAAC-CCCATATTCCTAATGAGATACAG
* * * *
27877823 AGAAGTGAGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAGAGAAGTGGACCAAATCC
183 AGAAGTGAGTCAAAGCAATAAAACAGTCATCTTCATAATGAGATACAAAGAAGTGGACCAAATCC
27877888 GTCTTCCTGATGAGATACAAAAAAGTGGATTAAAATAATGAAGC
248 GTCTTCCTGATGAGATACAAAAAAGTGG---AAAA-AAT----C
* *
27877932 GATCATCTTCTTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATAAGATACAGATAA
1 --TCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGATAA
* * * * * *
27877997 GTGGATTGAAGCAATAAAGTGATCATCTTCCTGATGAGATACAGAGAAGTGGAGCAAATC
64 GTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATC
27878057 CATCTTCTTG
Statistics
Matches: 345, Mismatches: 56, Indels: 41
0.78 0.13 0.09
Matches are distributed among these distances:
282 22 0.06
285 1 0.00
287 3 0.01
288 1 0.00
290 3 0.01
292 5 0.01
293 100 0.29
294 171 0.50
295 1 0.00
297 6 0.02
298 3 0.01
299 1 0.00
300 4 0.01
302 2 0.01
305 22 0.06
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (283 bp):
TCATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGATAAGT
GGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATAAAG
CGAAGCTCAATACGAATGAAACTTCAAACCCCATATTCCTAATGAGATACAGAGAAGTGAGTCAA
AGCAATAAAACAGTCATCTTCATAATGAGATACAAAGAAGTGGACCAAATCCGTCTTCCTGATGA
GATACAAAAAAGTGGAAAAAATC
Found at i:27878243 original size:207 final size:207
Alignment explanation
Indices: 27877976--27878468 Score: 648
Period size: 207 Copynumber: 2.4 Consensus size: 207
27877966 CAAATCCGTC
* * * *
27877976 TTCCTGATAAGATACAGATAAGTGGATTGAAGCAATAAAGTGATCATCTTCCTGATGAGATACAG
1 TTCCTGATGAGATACAGAGAAGTGGATT-AAGCAATAAAGCGATCATCTTCCTAATGAGATACAG
* ** *
27878041 AGAAGTGGAGCAAATCCATCTTCTTGATGAGATATAGAGAAGTGGATTGAAACAATGAGGCAGTC
65 AGAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCAGTC
* *
27878106 ATCTTCCTAATGAGATACAGAGAAGTAGACCAAATCAATAAAGCGAAGCTT-AATACGAATGAGA
130 ATCTTCCTAATGAGATACAGAAAAGTAGACCAAATCAATAAAGCAAAG-TTCAATACGAATGAGA
27878170 CTTCAAA-CCCATA
194 CTTCAAACCCCATA
* * * * *
27878183 TTCCTTATGAGATACAGAGAAGTGGGTTAAAGCAATAAAGCGATCATCTTCTTCATGAGATACAA
1 TTCCTGATGAGATACAGAGAAGTGGATT-AAGCAATAAAGCGATCATCTTCCTAATGAGATACAG
* * * * *
27878248 AGAAGTGGACCAAATCCATTTTCCCGATGAGATACAGAGAATTGGATTGACACAATGTGGCGGTC
65 AGAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCAGTC
* * ** *
27878313 ATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAGTTCAATGTGAGTGAGAC
130 ATCTTCCTAATGAGATACAGAAAAGTAGACCAAATCAATAAAGCAAAGTTCAATACGAATGAGAC
*
27878378 TTCAAACCCCATC
195 TTCAAACCCCATA
* * * * *
27878391 TTCCTGATGAGATACAGAGAAGTAGATCTAAGCAACAAAACGGTCATCTTCCTAATGAGCTACAG
1 TTCCTGATGAGATACAGAGAAGTGGAT-TAAGCAATAAAGCGATCATCTTCCTAATGAGATACAG
*
27878456 AGAAGTAGACCAA
65 AGAAGTGGACCAA
27878469 GAGATGAAGC
Statistics
Matches: 246, Mismatches: 37, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
206 2 0.01
207 173 0.70
208 70 0.28
209 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (207 bp):
TTCCTGATGAGATACAGAGAAGTGGATTAAGCAATAAAGCGATCATCTTCCTAATGAGATACAGA
GAAGTGGACCAAATCCATCTTCCCGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCAGTCA
TCTTCCTAATGAGATACAGAAAAGTAGACCAAATCAATAAAGCAAAGTTCAATACGAATGAGACT
TCAAACCCCATA
Found at i:27879701 original size:12 final size:12
Alignment explanation
Indices: 27879684--27879713 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27879674 TTGGTGTTTT
27879684 TGAAAAAATGAA
1 TGAAAAAATGAA
27879696 TGAAAAAATGAA
1 TGAAAAAATGAA
27879708 -GAAAAA
1 TGAAAAA
27879714 TAGGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (12 bp):
TGAAAAAATGAA
Done.