Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 111 of 163
Found at i:31240042 original size:3 final size:3
Alignment explanation
Indices: 31240036--31240089 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
31240026 GGAGGAGGAG
31240036 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
31240084 GAA GAA
1 GAA GAA
31240090 ATGACTCATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31242844 original size:25 final size:25
Alignment explanation
Indices: 31242805--31242893 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
31242795 CTTCCAAAAT
* * *
31242805 TTAGCTCATATGAGCTTAGACAGAA
1 TTAGCTCTTACGAGCTTAGAAAGAA
* * *
31242830 TTAGTTCTTACGAGCTTTGAAAG-G
1 TTAGCTCTTACGAGCTTAGAAAGAA
* *
31242854 TTCGCTCTTACGAGCCTAGAAAGAA
1 TTAGCTCTTACGAGCTTAGAAAGAA
*
31242879 TTAGCTATTACGAGC
1 TTAGCTCTTACGAGC
31242894 CAAAAAAGGT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 19 0.38
25 31 0.62
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (25 bp):
TTAGCTCTTACGAGCTTAGAAAGAA
Found at i:31242875 original size:24 final size:24
Alignment explanation
Indices: 31242830--31242905 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
31242820 TTAGACAGAA
* * *
31242830 TTAGTTCTTACGAGCTTTGAAAGG
1 TTAGCTCTTACGAGCCTAGAAAGG
* *
31242854 TTCGCTCTTACGAGCCTAGAAAGAA
1 TTAGCTCTTACGAGCCTAGAAAG-G
* * *
31242879 TTAGCTATTACGAGCCAAAAAAGG
1 TTAGCTCTTACGAGCCTAGAAAGG
31242903 TTA
1 TTA
31242906 ACCAGTATAC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 22 0.54
25 19 0.46
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCTAGAAAGG
Found at i:31247471 original size:18 final size:18
Alignment explanation
Indices: 31247450--31247502 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
31247440 GCATTCAAAC
*
31247450 ATGTGGTTGCATCTGATT
1 ATGTGATTGCATCTGATT
* **
31247468 ATGTGACTGCATCTGGGT
1 ATGTGATTGCATCTGATT
*
31247486 ATGTGATTGCCTCTGAT
1 ATGTGATTGCATCTGAT
31247503 CAGGCTGCGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.40
Consensus pattern (18 bp):
ATGTGATTGCATCTGATT
Found at i:31255237 original size:7 final size:7
Alignment explanation
Indices: 31255227--31255253 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31255217 TATTTTTATG
31255227 TTATTTT
1 TTATTTT
31255234 TTATTTT
1 TTATTTT
31255241 TTATTTT
1 TTATTTT
31255248 TTATTT
1 TTATTT
31255254 AATTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:31257431 original size:27 final size:27
Alignment explanation
Indices: 31257393--31257447 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
31257383 TGACTGAAGC
31257393 AAAGTCCCCAAAAT-GAATGATTAAAGA
1 AAAGTCCCCAAAATCG-ATGATTAAAGA
* *
31257420 AAAGTTCCCAAAATCGATGATTGAAGA
1 AAAGTCCCCAAAATCGATGATTAAAGA
31257447 A
1 A
31257448 TCCATATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (27 bp):
AAAGTCCCCAAAATCGATGATTAAAGA
Found at i:31259246 original size:14 final size:14
Alignment explanation
Indices: 31259229--31259261 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
31259219 ATCTCAGCCC
*
31259229 TTTTTCTTTTTCTT
1 TTTTTCTTCTTCTT
31259243 TTTTTCTTCTTCTT
1 TTTTTCTTCTTCTT
31259257 TTTTT
1 TTTTT
31259262 GACATCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTCTTCTTCTT
Found at i:31261295 original size:196 final size:195
Alignment explanation
Indices: 31260948--31261306 Score: 479
Period size: 196 Copynumber: 1.8 Consensus size: 195
31260938 GATGCTACTC
* * * *
31260948 ACATGAGTTGTCGAGGACTTGCAACATATGCGATACCCAGCCATCGGTACGGTGTCTATCTATAT
1 ACATGAGTTGTCAAGGACTTGCAACATATGCGATACCCAGCCATCGATACGGTATCTATCAATAT
* * * *
31261013 AACTGTCTCCTAACGATGCTGCTCACACGAGCTCTCGGGAATATGCACTTATGCATAAGTCTCAG
66 AACTGTCTCCTAACGATGCTACTCACACGAGCTCTCGAGAATATGCACTTATGCATAAATCTCAA
* *
31261078 CCATCGCAAGGCTTGTAATCCATTCTAGGATTCATATATTTTTTTTTCGACTCACGATGTTGCTT
131 CCATCGCAAGGCCTATAATCCATTCTAGGATTCATATATTTTTTTTTCGACTCACGATGTTGCTT
* * * * *
31261143 ACATGAGCTT-TCAAGGACTTGCAACATATGTGGTACCTCAGCCATTGATACGGTATCTGTGAAT
1 ACATGAG-TTGTCAAGGACTTGCAACATATGCGATACC-CAGCCATCGATACGGTATCTATCAAT
* * *
31261207 ATAACTGT-TCCCTAATGATGCTACTCACACGAGCTGTTGAGAATATGCACTTATGCATAAATCT
64 ATAACTGTCT-CCTAACGATGCTACTCACACGAGCTCTCGAGAATATGCACTTATGCATAAATCT
* * * *
31261271 CAACCATCGTAGGGCCTATAATCCATTTTTGGATTC
128 CAACCATCGCAAGGCCTATAATCCATTCTAGGATTC
31261307 TTTACTCATT
Statistics
Matches: 139, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
195 32 0.23
196 107 0.77
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (195 bp):
ACATGAGTTGTCAAGGACTTGCAACATATGCGATACCCAGCCATCGATACGGTATCTATCAATAT
AACTGTCTCCTAACGATGCTACTCACACGAGCTCTCGAGAATATGCACTTATGCATAAATCTCAA
CCATCGCAAGGCCTATAATCCATTCTAGGATTCATATATTTTTTTTTCGACTCACGATGTTGCTT
Found at i:31272226 original size:107 final size:109
Alignment explanation
Indices: 31272094--31272294 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 109
31272084 AACAAATAAC
*
31272094 ATTTATCGATTTTAAATAGGATATTCAATTACTTAGGCTT-AAA-AAAAACCATACCTAATACGT
1 ATTTATCGATTTTAAATAGGATATTCAATTACTTAGG-TTCAAAGAAAAACCATACCCAATACGT
* *
31272157 TAAGGCATAATTTCTCGAGT-TCCTAAAATAAAAGAACATTCAAT
65 TAAGGCACAATTTCTCGAGTACCCTAAAATAAAAGAACATTCAAT
*
31272201 ATTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAGTACGTT
1 ATTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTT
*
31272266 AGGGCACAATTTCTCGAGTACCCTAAAAT
66 AAGGCACAATTTCTCGAGTACCCTAAAAT
31272295 CAAGAATATT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
106 2 0.02
107 40 0.47
108 36 0.42
109 8 0.09
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (109 bp):
ATTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTT
AAGGCACAATTTCTCGAGTACCCTAAAATAAAAGAACATTCAAT
Found at i:31274765 original size:80 final size:80
Alignment explanation
Indices: 31274632--31274793 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
31274622 CATTCTAATA
31274632 TCCATCACATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTCTTCTTTAAATCCCC
1 TCCATCACATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTCTTCTTTAAATCCCC
31274697 TTTAAATAATACTTT
66 TTTAAATAATACTTT
31274712 TCCATCACATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTCTTCTTTAAATCCCC
1 TCCATCACATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTCTTCTTTAAATCCCC
31274777 TTTAAATAATACTTT
66 TTTAAATAATACTTT
31274792 TC
1 TC
31274794 TAAATACTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.25, C:0.28, G:0.01, T:0.46
Consensus pattern (80 bp):
TCCATCACATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTCTTCTTTAAATCCCC
TTTAAATAATACTTT
Found at i:31274767 original size:42 final size:42
Alignment explanation
Indices: 31274641--31274768 Score: 101
Period size: 42 Copynumber: 3.1 Consensus size: 42
31274631 ATCCATCACA
31274641 TTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTC
1 TTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTC
** * ** * *
31274683 TTCTTT--AAAT-CC--CCTTTAAATAAT-ACTTTTCCATCA--C
1 TTCTTTCCACTTACCATCCCTT-CTTTATGA-TTTTCAAT-ATTC
31274720 ATTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTC
1 -TTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTC
31274763 TTCTTT
1 TTCTTT
31274769 AAATCCCCTT
Statistics
Matches: 60, Mismatches: 14, Indels: 24
0.61 0.14 0.24
Matches are distributed among these distances:
37 6 0.10
38 16 0.27
39 3 0.05
40 4 0.07
41 3 0.05
42 22 0.37
43 6 0.10
ACGTcount: A:0.22, C:0.27, G:0.02, T:0.49
Consensus pattern (42 bp):
TTCTTTCCACTTACCATCCCTTCTTTATGATTTTCAATATTC
Found at i:31276470 original size:96 final size:96
Alignment explanation
Indices: 31276345--31276632 Score: 373
Period size: 96 Copynumber: 3.0 Consensus size: 96
31276335 TTCATATTAT
* * * * * * * * *
31276345 GAGCATACTAATTATTGATTGATAGCTCTTACAAGTATATTGTTCATAAATTGACAGCTCTTACG
1 GAGCATACTGATTATAGATTGACAACTCTTACGAGCATATTGTTCACAGATTGATAGCTCTTACG
* *
31276410 AGCATATTATTCACAGATTGACAGCTCTTAC
66 AGCATACTATTCACAGATTGAAAGCTCTTAC
* * *
31276441 GAGCATACTGATTACAGATTGACAACTCTTATGAGCATACTGATT-ACAGATTGATAGCTCTTAC
1 GAGCATACTGATTATAGATTGACAACTCTTACGAGCATATTG-TTCACAGATTGATAGCTCTTAC
*
31276505 GTGCATACTATTCACAGATTGAAAGCTCTTAC
65 GAGCATACTATTCACAGATTGAAAGCTCTTAC
* *
31276537 GAGCATACTG-TTCATAGATTGACAACTCTTACGAGCATATTGGTCACAGATTGATAGCTTTTAC
1 GAGCATACTGATT-ATAGATTGACAACTCTTACGAGCATATTGTTCACAGATTGATAGCTCTTAC
* *
31276601 AAGCATACTATTCACAGATTGATAGCTCTTAC
65 GAGCATACTATTCACAGATTGAAAGCTCTTAC
31276633 AATCCTATTG
Statistics
Matches: 166, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
95 3 0.02
96 161 0.97
97 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (96 bp):
GAGCATACTGATTATAGATTGACAACTCTTACGAGCATATTGTTCACAGATTGATAGCTCTTACG
AGCATACTATTCACAGATTGAAAGCTCTTAC
Found at i:31276634 original size:32 final size:32
Alignment explanation
Indices: 31276361--31276632 Score: 305
Period size: 32 Copynumber: 8.5 Consensus size: 32
31276351 ACTAATTATT
* * * * * *
31276361 GATTGATAGCTCTTACAAGTATATTGTTCATA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
* *
31276393 AATTGACAGCTCTTACGAGCATATTATTCACA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
31276425 GATTGACAGCTCTTACGAGCATACTGATT-ACA
1 GATTGACAGCTCTTACGAGCATACT-ATTCACA
* *
31276457 GATTGACAACTCTTATGAGCATACTGATT-ACA
1 GATTGACAGCTCTTACGAGCATACT-ATTCACA
* *
31276489 GATTGATAGCTCTTACGTGCATACTATTCACA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
* * *
31276521 GATTGAAAGCTCTTACGAGCATACTGTTCATA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
* * **
31276553 GATTGACAACTCTTACGAGCATATTGGTCACA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
* * *
31276585 GATTGATAGCTTTTACAAGCATACTATTCACA
1 GATTGACAGCTCTTACGAGCATACTATTCACA
*
31276617 GATTGATAGCTCTTAC
1 GATTGACAGCTCTTAC
31276633 AATCCTATTG
Statistics
Matches: 207, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
31 3 0.01
32 201 0.97
33 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (32 bp):
GATTGACAGCTCTTACGAGCATACTATTCACA
Found at i:31287398 original size:32 final size:32
Alignment explanation
Indices: 31287362--31287693 Score: 386
Period size: 32 Copynumber: 10.4 Consensus size: 32
31287352 GATTCATAGC
31287362 CTTACGAGCATACTATTCATAGATTGACAGCT
1 CTTACGAGCATACTATTCATAGATTGACAGCT
*
31287394 CTTACGAGCATACTGATT-AAAGATTGACAGCT
1 CTTACGAGCATACT-ATTCATAGATTGACAGCT
* *
31287426 CTTACGAGCATACTAATT-AAAGATTGACAGAT
1 CTTACGAGCATACT-ATTCATAGATTGACAGCT
* *
31287458 CTTACGAACATACTAATTGC--AGATTGATAGCT
1 CTTACGAGCATACT-ATT-CATAGATTGACAGCT
*
31287490 CTTACGAGCATACTATTCATAGATTGACAGCC
1 CTTACGAGCATACTATTCATAGATTGACAGCT
* *
31287522 CTTACGAGTATACTATTCAAAGATTGACAGCT
1 CTTACGAGCATACTATTCATAGATTGACAGCT
* *
31287554 CTTACGAGCATACTGATT-ACAGATTGATAGCT
1 CTTACGAGCATACT-ATTCATAGATTGACAGCT
* *
31287586 TTTACGAGCATACTGTTCATAGATTGACAGCT
1 CTTACGAGCATACTATTCATAGATTGACAGCT
* * * * * *
31287618 CTTACAAGGATATTATTCACAAATTGATAGCT
1 CTTACGAGCATACTATTCATAGATTGACAGCT
* * *
31287650 CTTACAAGCATACTGTTCATAGATTGATAGCT
1 CTTACGAGCATACTATTCATAGATTGACAGCT
*
31287682 TTTACGAGCATA
1 CTTACGAGCATA
31287694 TTGTTTACTA
Statistics
Matches: 259, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.00
31 5 0.02
32 247 0.95
33 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (32 bp):
CTTACGAGCATACTATTCATAGATTGACAGCT
Found at i:31294404 original size:2 final size:2
Alignment explanation
Indices: 31294397--31294430 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31294387 TTTGAGATAA
*
31294397 AT AT AT AT AC 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
31294431 GTTATTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31297362 original size:29 final size:29
Alignment explanation
Indices: 31297301--31297379 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
31297291 GAAGAAAAAA
* *
31297301 GGATTTAATTTAAAAAAAGCTAAAATAATGG
1 GGATTAAATTTAAAAAAA--TAAAATAACGG
** *
31297332 GG-TTATTTTTAAATAAAATAAAATAGCGG
1 GGATTAAATTTAAA-AAAATAAAATAACGG
31297361 GGATTAAATTTAAAAAAAT
1 GGATTAAATTTAAAAAAAT
31297380 GGAAATAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
29 16 0.41
30 17 0.44
31 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.32
Consensus pattern (29 bp):
GGATTAAATTTAAAAAAATAAAATAACGG
Found at i:31297476 original size:19 final size:19
Alignment explanation
Indices: 31297436--31297476 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31297426 AAATTGGAAC
* *
31297436 AAAATTAAAATTTAAAGTA
1 AAAATTAAAAATTAAAGAA
31297455 AAAATTAAAAATT-AAGAA
1 AAAATTAAAAATTAAAGAA
31297473 AAAA
1 AAAA
31297477 CGGGGGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAATTAAAAATTAAAGAA
Found at i:31298814 original size:19 final size:19
Alignment explanation
Indices: 31298777--31298812 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31298767 AGTTTGGGCC
31298777 ATTTGGGCTTTAGGTTTTA
1 ATTTGGGCTTTAGGTTTTA
*
31298796 ATTTGGG-TTTGGGTTTT
1 ATTTGGGCTTTAGGTTTT
31298813 TAGGGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.11, C:0.03, G:0.31, T:0.56
Consensus pattern (19 bp):
ATTTGGGCTTTAGGTTTTA
Found at i:31303388 original size:17 final size:17
Alignment explanation
Indices: 31303366--31303398 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31303356 ATAATTACAA
31303366 TATTAT-TATCTATATAC
1 TATTATATAT-TATATAC
31303383 TATTATATATTATATA
1 TATTATATATTATATA
31303399 GAACATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATATTATATAC
Found at i:31304239 original size:19 final size:18
Alignment explanation
Indices: 31304200--31304241 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
31304190 ATTTTATTTT
* *
31304200 TTTAATTATGTTATTACC
1 TTTAATTATGTTATCAAC
31304218 TTTAATATATGTTATCAAC
1 TTTAAT-TATGTTATCAAC
31304237 TTTAA
1 TTTAA
31304242 GCTTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (18 bp):
TTTAATTATGTTATCAAC
Found at i:31305927 original size:19 final size:19
Alignment explanation
Indices: 31305905--31305949 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
31305895 TTATATTAAG
31305905 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
31305924 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
31305943 ATTTAAT
1 ATTTAAT
31305950 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:31306768 original size:22 final size:22
Alignment explanation
Indices: 31306742--31306784 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
31306732 TCGACTTTCT
31306742 TATTTTCTATTT-CTTTTAATTA
1 TATTTTCT-TTTACTTTTAATTA
*
31306764 TATTTTCTTTTATTTTTAATT
1 TATTTTCTTTTACTTTTAATT
31306785 CTGTTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (22 bp):
TATTTTCTTTTACTTTTAATTA
Found at i:31308949 original size:59 final size:59
Alignment explanation
Indices: 31308876--31309241 Score: 206
Period size: 58 Copynumber: 6.3 Consensus size: 59
31308866 AATCGAGATA
* * * * *
31308876 AAAAACGGAGTTTTTGGACA-TCCAGGGGTAAAATTGTAATTTTT-GCAAGTTTCGGAGTC
1 AAAAATGGAATTTTTGGAAAGTCCAGGGATAAAAATGTAATTTTTAG-AAGTTTCGG-GTC
* * ** *
31308935 AAAAATGGGATTTTT-AAAAGTTTAGGGATAAAAATGTAATTTTTAGAAGTTTTGGGTC
1 AAAAATGGAATTTTTGGAAAGTCCAGGGATAAAAATGTAATTTTTAGAAGTTTCGGGTC
* ** * * * *
31308993 AAAAATGGAAGTTTTGGAATTTCGA-GG-TCAAGAATGGAATTTTTAGAAGTTTCAAGGTC
1 AAAAATGGAATTTTTGGAAAGTCCAGGGAT-AAAAATGTAATTTTTAGAAGTTTC-GGGTC
* * * * * *
31309052 -AAAATGTAATTTTTGG-AAGTTTCGAGGTA-AAAAATGAAATTTTTGGAAG-TTCGAGG-G
1 AAAAATGGAATTTTTGGAAAG--TCCAGGGATAAAAATGTAATTTTTAGAAGTTTCG-GGTC
* ** * * *
31309109 AAAAATGTAATTTTT-GAAAGTTTTAGGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGT-
1 AAAAATGGAATTTTTGGAAAG-TCCAGGGATAAAAATGTAATTTTTAGAAGTTT-CGGGTC
* * *
31309168 AAAGAAT--AATTTTT-GAAAGTTCAGGGGA-AAAAATGTAATTTTTTAGAAGTTTTGGGGTT
1 AAA-AATGGAATTTTTGGAAAGTCCA-GGGATAAAAATGTAA-TTTTTAGAAG-TTTCGGGTC
*
31309227 AAAAATAGAATTTTT
1 AAAAATGGAATTTTT
31309242 AGAGGTTCGA
Statistics
Matches: 243, Mismatches: 41, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
57 20 0.08
58 128 0.53
59 82 0.34
60 13 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAAAGTCCAGGGATAAAAATGTAATTTTTAGAAGTTTCGGGTC
Found at i:31309029 original size:87 final size:87
Alignment explanation
Indices: 31308932--31309260 Score: 285
Period size: 88 Copynumber: 3.7 Consensus size: 87
31308922 AAGTTTCGGA
* * *
31308932 GTCAAAAATGGGATTTTTAAAAGTTTAGGGATAAAAATGTAATTTTTAGAAGTTTTG-GGTCAAA
1 GTCAAAAATGGAATTTTTAAAAGTTTAGGG-TAAAAATGTAATTTTTAGAAGTTTCGAGGTAAAA
* *
31308996 AATGGAAGTTTTGGAATTTCGAG
65 AATGAAAGTTTTGGAAGTTCGAG
* * * * *
31309019 GTCAAGAATGGAATTTTTAGAAGTTTCAAGGTCAAAATGTAATTTTTGGAAGTTTCGAGGTAAAA
1 GTCAAAAATGGAATTTTTAAAAGTTT-AGGGTAAAAATGTAATTTTTAGAAGTTTCGAGGTAAAA
*
31309084 AATGAAATTTTTGGAAGTTCGAG
65 AATGAAAGTTTTGGAAGTTCGAG
* * * * * *
31309107 G-GAAAAATGTAATTTTTGAAAGTTTTAGGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGTAAA
1 GTCAAAAATGGAATTTTTAAAAG-TTTAGGG-TAAAAATGTAATTTTTAGAAGTTTCGAGGTAAA
* * *
31309171 GAAT--AATTTTTGAAAGTTC-AGG
64 AAATGAAAGTTTTGGAAGTTCGA-G
** * * * *
31309193 GGAAAAAATGTAATTTTTTAGAAGTTTTGGGGTTAAAAATAG-AATTTTTAG-AGGTTCGAGGGT
1 GTCAAAAATGGAA-TTTTTAAAAG-TTTAGGG-TAAAAAT-GTAATTTTTAGAAGTTTCGA-GGT
31309256 AAAAA
61 AAAAA
31309261 TGCAATCTCT
Statistics
Matches: 201, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
85 1 0.00
86 16 0.08
87 80 0.40
88 103 0.51
89 1 0.00
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (87 bp):
GTCAAAAATGGAATTTTTAAAAGTTTAGGGTAAAAATGTAATTTTTAGAAGTTTCGAGGTAAAAA
ATGAAAGTTTTGGAAGTTCGAG
Found at i:31309178 original size:58 final size:56
Alignment explanation
Indices: 31308944--31309233 Score: 221
Period size: 58 Copynumber: 5.0 Consensus size: 56
31308934 CAAAAATGGG
* * *
31308944 ATTTTTAAAAGTTTAGGG-ATAAAAATGTAATTTTTAGAAGTTT-TGGGTCAAAAATGGA
1 ATTTTTGAAAGTTTAGGGTA-AAAAATGGAATTTTTAGAAGTTTGAGGGT-AAAAAT--A
* * * * * * * *
31309002 AGTTTTGGAA-TTTCGAGGTCAAGAATGGAATTTTTAGAAGTTTCAAGGTCAAAATGTA
1 ATTTTTGAAAGTTTAG-GGTAAAAAATGGAATTTTTAGAAGTTTGAGGGT-AAAA-ATA
* * * * *
31309060 ATTTTTGGAAGTTTCGAGGTAAAAAATGAAATTTTTGGAAGTTCGAGGG-AAAAATGTA
1 ATTTTTGAAAGTTTAG-GGTAAAAAATGGAATTTTTAGAAGTTTGAGGGTAAAAA--TA
* *
31309118 ATTTTTGAAAGTTTTAGGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGTAAAGAATA
1 ATTTTTGAAAG-TTTAGGGTAAAAAATGGAATTTTTAGAAGTTTGAGGGTAAA-AATA
* * *
31309176 ATTTTTGAAAGTTCAGGGGAAAAAATGTAATTTTTTAGAAGTTTTG-GGGTTAAAAATA
1 ATTTTTGAAAGTTTAGGGTAAAAAATGGAA-TTTTTAGAAG-TTTGAGGG-TAAAAATA
31309234 GAATTTTTAG
Statistics
Matches: 189, Mismatches: 30, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
57 23 0.12
58 109 0.58
59 54 0.29
60 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (56 bp):
ATTTTTGAAAGTTTAGGGTAAAAAATGGAATTTTTAGAAGTTTGAGGGTAAAAATA
Found at i:31309218 original size:30 final size:29
Alignment explanation
Indices: 31309052--31309262 Score: 100
Period size: 30 Copynumber: 7.2 Consensus size: 29
31309042 TTTCAAGGTC
* *
31309052 AAAATGTAA-TTTTTGGAAGTTTCGAGGTAA
1 AAAATGTAATTTTTTAGAAG-TTCG-GGGAA
* *
31309082 AAAATG-AAATTTTTGGAAGTTCGAGGG-A
1 AAAATGTAATTTTTTAGAAGTTCG-GGGAA
* * **
31309110 AAAATGTAATTTTTGA-AAGTTTTAGGGTTA
1 AAAATGTAATTTTTTAGAAG--TTCGGGGAA
* *
31309140 AAAATGGAA-TTTTTAGAAGTTTGGGGGTAA
1 AAAATGTAATTTTTTAGAAG-TTCGGGG-AA
* *
31309170 AGAA--TAATTTTTGA-AAGTTCAGGGGAA
1 AAAATGTAATTTTTTAGAAGTTC-GGGGAA
* *
31309197 AAAATGTAATTTTTTAGAAGTTTTGGGGTTA
1 AAAATGTAATTTTTTAGAAG-TTCGGGG-AA
* *
31309228 AAAATAG-AA-TTTTTAGAGGTTCGAGGGTA
1 AAAAT-GTAATTTTTTAGAAGTTCG-GGGAA
31309257 AAAATG
1 AAAATG
31309263 CAATCTCTGG
Statistics
Matches: 144, Mismatches: 21, Indels: 34
0.72 0.11 0.17
Matches are distributed among these distances:
27 7 0.05
28 20 0.14
29 52 0.36
30 54 0.38
31 10 0.07
32 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTTAGAAGTTCGGGGAA
Found at i:31309259 original size:29 final size:30
Alignment explanation
Indices: 31308901--31309262 Score: 178
Period size: 29 Copynumber: 12.4 Consensus size: 30
31308891 GGACATCCAG
* *
31308901 GGGTAAAATTGTAATTTTT-GCAAGTTTCG-
1 GGGTAAAAATGTAATTTTTAGAAAG-TTCGA
* ** *
31308930 GAGTCAAAAATGGGATTTTTA-AAAGTT-TA
1 GGGT-AAAAATGTAATTTTTAGAAAGTTCGA
**
31308959 GGGATAAAAATGTAATTTTTAG-AAGTT-TT
1 GGG-TAAAAATGTAATTTTTAGAAAGTTCGA
* * * *
31308988 GGGTCAAAAATGGAAGTTTT-GGAATTTCGA
1 GGGT-AAAAATGTAATTTTTAGAAAGTTCGA
* *
31309018 -GGTCAAGAATGGAATTTTTAG-AAGTTTC-A
1 GGGT-AAAAATGTAATTTTTAGAAAG-TTCGA
* * *
31309047 AGGTCAAAATGTAATTTTT-GGAAGTTTCGA
1 GGGTAAAAATGTAATTTTTAGAAAG-TTCGA
* *
31309077 -GGTAAAAAATGAAATTTTT-GGAAGTTCGA
1 GGGT-AAAAATGTAATTTTTAGAAAGTTCGA
**
31309106 GGG-AAAAATGTAATTTTT-GAAAGTTTTA
1 GGGTAAAAATGTAATTTTTAGAAAGTTCGA
* * *
31309134 GGGTTAAAAATGGAATTTTTAG-AAGTTTGG
1 GGG-TAAAAATGTAATTTTTAGAAAGTTCGA
31309164 GGGTAAAGAA--TAATTTTT-GAAAGTTC-A
1 GGGTAAA-AATGTAATTTTTAGAAAGTTCGA
* *
31309191 GGGGAAAAAATGTAATTTTTTAG-AAGTTTTG-
1 -GGGTAAAAATGTAA-TTTTTAGAAAG-TTCGA
*
31309222 GGGTTAAAAATAG-AATTTTTAG-AGGTTCGA
1 GGG-TAAAAAT-GTAATTTTTAGAAAGTTCGA
31309252 GGGTAAAAATG
1 GGGTAAAAATG
31309263 CAATCTCTGG
Statistics
Matches: 265, Mismatches: 38, Indels: 61
0.73 0.10 0.17
Matches are distributed among these distances:
27 3 0.01
28 46 0.17
29 111 0.42
30 92 0.35
31 12 0.05
32 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (30 bp):
GGGTAAAAATGTAATTTTTAGAAAGTTCGA
Found at i:31310341 original size:21 final size:20
Alignment explanation
Indices: 31310317--31310373 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
31310307 CATTTAATAC
*
31310317 TATTTTTAAAACATTGATTAT
1 TATTATTAAAACATTG-TTAT
*
31310338 TATTATTAAAACGTTTGTTAT
1 TATTATTAAAAC-ATTGTTAT
*
31310359 TATTATAAAAACATT
1 TATTATTAAAACATT
31310374 AATGTTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTATTAAAACATTGTTAT
Found at i:31311055 original size:14 final size:15
Alignment explanation
Indices: 31311031--31311066 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
31311021 AATTGGGCCT
31311031 TTGTAATTTGGACAC
1 TTGTAATTTGGACAC
31311046 TTGTAA-TTGGACA-
1 TTGTAATTTGGACAC
31311059 TT-TAATTT
1 TTGTAATTT
31311067 AATTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.15
13 4 0.20
14 7 0.35
15 6 0.30
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGTAATTTGGACAC
Found at i:31311092 original size:17 final size:17
Alignment explanation
Indices: 31311070--31311104 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31311060 TTAATTTAAT
31311070 TTTAATTTAAAAATAAA
1 TTTAATTTAAAAATAAA
* *
31311087 TTTAATTTTAAGATAAA
1 TTTAATTTAAAAATAAA
31311104 T
1 T
31311105 CCAAACTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTAATTTAAAAATAAA
Found at i:31318326 original size:20 final size:21
Alignment explanation
Indices: 31318303--31318347 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
31318293 TTTCTATTGA
*
31318303 TTTTAATTATATTT-TTTTAT
1 TTTTAATTATATTTCTTCTAT
*
31318323 TTTTAATTCTATTTCTTCTAT
1 TTTTAATTATATTTCTTCTAT
31318344 TTTT
1 TTTT
31318348 CCTCAGATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTAATTATATTTCTTCTAT
Found at i:31321225 original size:17 final size:17
Alignment explanation
Indices: 31321172--31321225 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
31321162 TTATTTGAAA
31321172 ATAC-ATTATATACTT-T
1 ATACTATTATATA-TTAT
*
31321188 ATAATATTAT-TATCTAT
1 ATACTATTATATAT-TAT
31321205 ATACTATTATATATTAT
1 ATACTATTATATATTAT
31321222 ATAC
1 ATAC
31321226 AGCTTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
15 1 0.03
16 6 0.19
17 22 0.69
18 3 0.09
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
ATACTATTATATATTAT
Found at i:31321762 original size:50 final size:51
Alignment explanation
Indices: 31321684--31321787 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 51
31321674 GAATTTCGAA
31321684 ACTTAAAAATTTTAAAAACTATA-TTTTTTAAATATTTTTCTAAAAAA-TTC
1 ACTTAAAAATTTTAAAAACTATATTTTTTTAAAT-TTTTTCTAAAAAATTTC
* *
31321734 ACTTAAAAA-TTTAAAAATTATATATTTTTTTAATTTTTTCTAAAAAATTTC
1 ACTTAAAAATTTTAAAAACTATAT-TTTTTTAAATTTTTTCTAAAAAATTTC
31321785 ACT
1 ACT
31321788 CGAATTGAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
49 12 0.24
50 22 0.45
51 15 0.31
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (51 bp):
ACTTAAAAATTTTAAAAACTATATTTTTTTAAATTTTTTCTAAAAAATTTC
Found at i:31324362 original size:30 final size:30
Alignment explanation
Indices: 31324328--31324443 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
31324318 TTTTTTTGGG
31324328 AAAGTTTAGGGGTCAAAATGTAATTTT-GAA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAG-A
* * *
31324358 AAAGTTTAAGGGTTAAAATGCAATTTTAGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGA
* * *
31324388 AAAGTTTA-AGGTTAAAATATAATTTTAGA
1 AAAGTTTAGGGGTCAAAATGTAATTTTAGA
*
31324417 AAAG-TTATGGGGTCAAAATGTGATTTT
1 AAAGTTTA-GGGGTCAAAATGTAATTTT
31324444 CAAAAAATAG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.04
29 22 0.30
30 47 0.64
31 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (30 bp):
AAAGTTTAGGGGTCAAAATGTAATTTTAGA
Found at i:31325224 original size:18 final size:18
Alignment explanation
Indices: 31325185--31325224 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31325175 ATAAATAAAC
***
31325185 GTATATATATATATAGGT
1 GTATATATATATATACAA
31325203 GTATATATATATATACAA
1 GTATATATATATATACAA
31325221 GTAT
1 GTAT
31325225 TAATATACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (18 bp):
GTATATATATATATACAA
Found at i:31326432 original size:30 final size:29
Alignment explanation
Indices: 31326396--31326454 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
31326386 TAAATAAATA
*
31326396 GAAAAAGAAATAAAAAATAGGATTTAATTTT
1 GAAAAGGAAA-AAAAAA-AGGATTTAATTTT
* *
31326427 GAAAAGGGAAGAAAAAAGGATTTAATTT
1 GAAAAGGAAAAAAAAAAGGATTTAATTT
31326455 AAAAAATCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 5 0.20
31 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (29 bp):
GAAAAGGAAAAAAAAAAGGATTTAATTTT
Found at i:31332302 original size:22 final size:21
Alignment explanation
Indices: 31332272--31332318 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
31332262 TAGAATACCA
31332272 AAAATTACATATGC-TTC-TTTT
1 AAAATTACA-AT-CATTCTTTTT
31332293 AAAATATACAATCATTCTTTTT
1 AAAAT-TACAATCATTCTTTTT
31332315 AAAA
1 AAAA
31332319 AATGGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATTACAATCATTCTTTTT
Found at i:31332720 original size:41 final size:41
Alignment explanation
Indices: 31332663--31332758 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
31332653 GAATTTTATT
*
31332663 TTAACAAGAATTCTAGTCACTCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
31332704 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
31332745 TTGACAAGAATTCT
1 TTAACAAGAATTCT
31332759 TTACGAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:31335731 original size:17 final size:18
Alignment explanation
Indices: 31335695--31335733 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31335685 TTACTTTTAC
* *
31335695 TTTATTTTACCACTGAAT
1 TTTATTTTAACACAGAAT
31335713 TTTATTTTAACA-AGAAT
1 TTTATTTTAACACAGAAT
31335730 TTTA
1 TTTA
31335734 ATCACCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTATTTTAACACAGAAT
Found at i:31335986 original size:17 final size:17
Alignment explanation
Indices: 31335964--31335996 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31335954 ATAATTACAA
31335964 TATTAT-TATCTATATAC
1 TATTATATAT-TATATAC
31335981 TATTATATATTATATA
1 TATTATATATTATATA
31335997 GAACATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATATTATATAC
Found at i:31339069 original size:19 final size:17
Alignment explanation
Indices: 31339032--31339094 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 17
31339022 TAAATTGATC
*
31339032 TAAATTTATTTTTAATT
1 TAAATTTATTTTAAATT
31339049 TAAATTTATGCTTTAAATT
1 TAAATTTAT--TTTAAATT
*
31339068 TAAATTTA-ATTAAATT
1 TAAATTTATTTTAAATT
* *
31339084 TGAATTAATTT
1 TAAATTTATTT
31339095 AAAACTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.34
17 10 0.26
19 15 0.39
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:31339096 original size:16 final size:17
Alignment explanation
Indices: 31339032--31339097 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 17
31339022 TAAATTGATC
* *
31339032 TAAATTTATTTTTAATT
1 TAAATTTAATTTAAATT
*
31339049 TAAATTTATGCTTTAAATT
1 TAAATTTA--ATTTAAATT
31339068 TAAATTTAA-TTAAATT
1 TAAATTTAATTTAAATT
*
31339084 TGAA-TTAATTTAAA
1 TAAATTTAATTTAAA
31339098 ACTTAATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 4 0.10
16 15 0.36
17 8 0.19
19 15 0.36
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAATTTAATTTAAATT
Found at i:31339806 original size:20 final size:20
Alignment explanation
Indices: 31339776--31339849 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
31339766 AACTATTTTG
*
31339776 ATAATAGTAATAAATG-TTT
1 ATAATAATAATAAATGCTTT
31339795 AGTAATAATAATAAATGCTTT
1 A-TAATAATAATAAATGCTTT
* *
31339816 AATAATATTAATAAATGTTTT
1 -ATAATAATAATAAATGCTTT
*
31339837 ATAATAATGATAA
1 ATAATAATAATAA
31339850 TCATTAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 25 0.53
21 20 0.43
22 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (20 bp):
ATAATAATAATAAATGCTTT
Found at i:31339808 original size:41 final size:41
Alignment explanation
Indices: 31339757--31339861 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 41
31339747 AATAATATTA
* * * *
31339757 AATATTAATAACTATTTTGATAATAGTAATAAATG-TTTAGT
1 AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTA-T
* *
31339798 AATAATAATAAATGCTTTAATAATATTAATAAATGTTTTAT
1 AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTAT
* *
31339839 AATAATGAT-AAT-CATTAATAATA
1 AATAATAATAAATACTTTAATAATA
31339862 TTTTTATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 10 0.18
40 3 0.05
41 38 0.69
42 4 0.07
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (41 bp):
AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTAT
Found at i:31339856 original size:30 final size:29
Alignment explanation
Indices: 31339817--31339873 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
31339807 AAATGCTTTA
31339817 ATAATATTAATAA-ATGTTTTATAATAATG
1 ATAATATTAATAATAT-TTTTATAATAATG
31339846 ATAATCATTAATAATATTTTTATAATAA
1 ATAAT-ATTAATAATATTTTTATAATAA
31339874 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 5 0.19
30 19 0.73
31 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (29 bp):
ATAATATTAATAATATTTTTATAATAATG
Found at i:31341010 original size:29 final size:30
Alignment explanation
Indices: 31340965--31341202 Score: 294
Period size: 30 Copynumber: 8.1 Consensus size: 30
31340955 CCCTGGAGGT
*
31340965 CCCTAAAA-TTCCAAAAATTACATTTCTGC
1 CCCTAAAACTTCCAAAAATTACATTTTTGC
31340994 CCCTAAAACTTCCAAAAATTACATTTTTGC
1 CCCTAAAACTTCCAAAAATTACATTTTTGC
* *
31341024 CCCTGAAACTTCCAAAAATTACATTTTT-A
1 CCCTAAAACTTCCAAAAATTACATTTTTGC
* * * *
31341053 TCCTCGAAACTTCCAAAAATTAAAATTTTG-
1 CCCT-AAAACTTCCAAAAATTACATTTTTGC
**
31341083 CCCTTGAACTTCCAAAAATTACATTTTTTGC
1 CCCTAAAACTTCCAAAAATTACA-TTTTTGC
*
31341114 CCC--AAACTTCCAAAAATTACATTTTTGA
1 CCCTAAAACTTCCAAAAATTACATTTTTGC
*
31341142 CCCTAAAACTTCC-AAAATTACATTTTTAC
1 CCCTAAAACTTCCAAAAATTACATTTTTGC
31341171 CCCTAAAA-TTCCAAAAATT-CTATTTTTGC
1 CCCTAAAACTTCCAAAAATTAC-ATTTTTGC
31341200 CCC
1 CCC
31341203 CGAAACTCCT
Statistics
Matches: 184, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
28 14 0.08
29 82 0.45
30 85 0.46
31 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (30 bp):
CCCTAAAACTTCCAAAAATTACATTTTTGC
Found at i:31341209 original size:58 final size:59
Alignment explanation
Indices: 31340965--31341233 Score: 300
Period size: 58 Copynumber: 4.6 Consensus size: 59
31340955 CCCTGGAGGT
* * *
31340965 CCCT-AAAATTCCAAAAATTACATTTCTGCCCCTAAAACTTCCAAAAATTACATTTTTGC
1 CCCTGAAACTTCCAAAAATTACATTTTTACCCCTAAAA-TTCCAAAAATTACATTTTTGC
* * * * *
31341024 CCCTGAAACTTCCAAAAATTACATTTTTATCCTCGAAACTTCCAAAAATTAAAATTTTGC
1 CCCTGAAACTTCCAAAAATTACATTTTTA-CCCCTAAAATTCCAAAAATTACATTTTTGC
* * * *
31341084 CCTTG-AACTTCCAAAAATTACATTTTTTGCCCC-AAACTTCCAAAAATTACATTTTTGA
1 CCCTGAAACTTCCAAAAATTACA-TTTTTACCCCTAAAATTCCAAAAATTACATTTTTGC
*
31341142 CCCTAAAACTTCC-AAAATTACATTTTTACCCCTAAAATTCCAAAAATT-CTATTTTTGC
1 CCCTGAAACTTCCAAAAATTACATTTTTACCCCTAAAATTCCAAAAATTAC-ATTTTTGC
* **
31341200 CCCCGAAAC-TCCTTAAATTACCA-TTTTACCCCTA
1 CCCTGAAACTTCCAAAAATTA-CATTTTTACCCCTA
31341234 TATGCCCAAA
Statistics
Matches: 180, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
57 13 0.07
58 79 0.44
59 33 0.18
60 49 0.27
61 6 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (59 bp):
CCCTGAAACTTCCAAAAATTACATTTTTACCCCTAAAATTCCAAAAATTACATTTTTGC
Found at i:31353729 original size:6 final size:6
Alignment explanation
Indices: 31353709--31353784 Score: 52
Period size: 6 Copynumber: 13.0 Consensus size: 6
31353699 TAAATTGATC
* ** **
31353709 TAAATT T-ATTT TAAATT TAAATT TATCTTTT TAAATT TAAATT T-GCTT
1 TAAATT TAAATT TAAATT TAAATT TA--AATT TAAATT TAAATT TAAATT
*
31353757 TAAATT TAAATT T-AA-T TAAATT TGAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT
31353785 AATATAAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
4 2 0.04
5 11 0.21
6 36 0.68
8 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (6 bp):
TAAATT
Found at i:31353731 original size:17 final size:17
Alignment explanation
Indices: 31353709--31353784 Score: 82
Period size: 17 Copynumber: 4.4 Consensus size: 17
31353699 TAAATTGATC
31353709 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAATT
31353726 TAAATTTATCTTTTTAAATT
1 TAAATTTA---TTTTAAATT
**
31353746 TAAATTTGCTTTAAATT
1 TAAATTTATTTTAAATT
*
31353763 TAAATTTA-ATTAAATT
1 TAAATTTATTTTAAATT
*
31353779 TGAATT
1 TAAATT
31353785 AATATAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
16 12 0.24
17 23 0.45
20 16 0.31
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:31353773 original size:11 final size:12
Alignment explanation
Indices: 31353709--31353784 Score: 52
Period size: 11 Copynumber: 6.5 Consensus size: 12
31353699 TAAATTGATC
*
31353709 TAAATTT-ATTT
1 TAAATTTAAATT
31353720 TAAATTTAAATT
1 TAAATTTAAATT
**
31353732 TATCTTTTTAAATT
1 TA--AATTTAAATT
**
31353746 TAAATTT-GCTT
1 TAAATTTAAATT
31353757 TAAATTTAAATT
1 TAAATTTAAATT
31353769 T-AA-TTAAATT
1 TAAATTTAAATT
*
31353779 TGAATT
1 TAAATT
31353785 AATATAAAAC
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
10 8 0.16
11 20 0.40
12 12 0.24
14 10 0.20
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:31354487 original size:21 final size:21
Alignment explanation
Indices: 31354458--31354543 Score: 86
Period size: 21 Copynumber: 4.2 Consensus size: 21
31354448 AATAATATTA
*
31354458 AATATTAATAACTATTTTGAT
1 AATATTAATAAATATTTTGAT
* * *
31354479 AATAGTAATAAATGTTTAG-T
1 AATATTAATAAATATTTTGAT
* * *
31354499 AATAATAATAAATACTTTAAT
1 AATATTAATAAATATTTTGAT
*
31354520 AATATTAATAAATGTTTT-AT
1 AATATTAATAAATATTTTGAT
31354540 AATA
1 AATA
31354544 ATGATAATCA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 21 0.40
21 31 0.60
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
AATATTAATAAATATTTTGAT
Found at i:31354507 original size:20 final size:19
Alignment explanation
Indices: 31354477--31354550 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
31354467 AACTATTTTG
*
31354477 ATAATAGTAATAAATGTTT
1 ATAATAATAATAAATGTTT
*
31354496 AGTAATAATAATAAATACTTT
1 A-TAATAATAATAAAT-GTTT
*
31354517 AATAATATTAATAAATGTTTT
1 -ATAATAATAATAAATG-TTT
*
31354538 ATAATAATGATAA
1 ATAATAATAATAA
31354551 TCATTAATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
20 24 0.53
21 19 0.42
22 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (19 bp):
ATAATAATAATAAATGTTT
Found at i:31354509 original size:41 final size:41
Alignment explanation
Indices: 31354458--31354562 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
31354448 AATAATATTA
* * * *
31354458 AATATTAATAACTATTTTGATAATAGTAATAAATG-TTTAGT
1 AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTA-T
*
31354499 AATAATAATAAATACTTTAATAATATTAATAAATGTTTTAT
1 AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTAT
* *
31354540 AATAATGAT-AAT-CATTAATAATA
1 AATAATAATAAATACTTTAATAATA
31354563 TTTTTAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 10 0.18
40 3 0.05
41 39 0.70
42 4 0.07
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (41 bp):
AATAATAATAAATACTTTAATAATAGTAATAAATGTTTTAT
Found at i:31354557 original size:30 final size:30
Alignment explanation
Indices: 31354518--31354575 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
31354508 AAATACTTTA
31354518 ATAATATTAATAA-ATGTTTT-ATAATAATG
1 ATAATATTAATAATAT-TTTTAATAATAATG
31354547 ATAATCATTAATAATATTTTTAATAATAA
1 ATAAT-ATTAATAATATTTTTAATAATAA
31354576 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 12 0.46
31 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
ATAATATTAATAATATTTTTAATAATAATG
Found at i:31355725 original size:29 final size:29
Alignment explanation
Indices: 31355663--31355888 Score: 219
Period size: 29 Copynumber: 7.8 Consensus size: 29
31355653 GAAGGTCCCT
31355663 AAACTATCC-AAAATTACATTTTTGCCCCC
1 AAACT-TCCAAAAATTACATTTTTGCCCCC
*
31355692 AAAACTT-CAAAGCATTACATTTTTGCCCCC
1 -AAACTTCCAAA-AATTACATTTTTGCCCCC
* *
31355722 AAACTTCTAAAAATTACATTTTT-TCCCC
1 AAACTTCCAAAAATTACATTTTTGCCCCC
* * *
31355750 AAACTTCCTAAAATTCCATTTTTGCCCTC
1 AAACTTCCAAAAATTACATTTTTGCCCCC
* * **
31355779 GAACTTCC-AAAATTCCATTTTTGACCCAA
1 AAACTTCCAAAAATTACATTTTTG-CCCCC
*
31355808 AAACTTCCAAAAAATACATTTTTGCCCCC
1 AAACTTCCAAAAATTACATTTTTGCCCCC
* * * *
31355837 GAACTTCCAAAAATTCCATTTTTGACCTCA
1 AAACTTCCAAAAATTACATTTTTG-CCCCC
*
31355867 AAAC-TCCCAAAATTACCATTTT
1 AAACTTCCAAAAATTA-CATTTT
31355889 ACCTTCGGAT
Statistics
Matches: 163, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
28 40 0.25
29 73 0.45
30 50 0.31
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTGCCCCC
Found at i:31355821 original size:87 final size:85
Alignment explanation
Indices: 31355657--31355888 Score: 254
Period size: 87 Copynumber: 2.7 Consensus size: 85
31355647 TGCCCCGAAG
* * * * *
31355657 GTCCCTAAACTATCCAAAATTACATTTTTGCCCCCAAAACTT-CAAAGCATTACATTTTTGCCCC
1 GTCCCCAAACT-TCCAAAATTCCATTTTTGCCCTCAAAACTTCCAAA--ATTCCATTTTTGCCCA
* *
31355721 CAAACTTCTAAAAATTACATTTTT
63 AAAACTTC-AAAAAATACATTTTT
*
31355745 -TCCCCAAACTTCCTAAAATTCCATTTTTGCCCTC-GAACTTCCAAAATTCCATTTTTGACCCAA
1 GTCCCCAAACTTCC-AAAATTCCATTTTTGCCCTCAAAACTTCCAAAATTCCATTTTTG-CCCAA
31355808 AAACTTCCAAAAAATACATTTTT
64 AAACTT-CAAAAAATACATTTTT
* * * *
31355831 GCCCCCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACTCCCAAAATTACCATTTT
1 GTCCCCAAACTTCC-AAAATTCCATTTTTGCCCTCAAAACTTCCAAAATT-CCATTTT
31355889 ACCTTCGGAT
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
85 11 0.09
86 31 0.25
87 62 0.50
88 12 0.10
89 7 0.06
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (85 bp):
GTCCCCAAACTTCCAAAATTCCATTTTTGCCCTCAAAACTTCCAAAATTCCATTTTTGCCCAAAA
ACTTCAAAAAATACATTTTT
Found at i:31356053 original size:28 final size:28
Alignment explanation
Indices: 31355991--31356211 Score: 82
Period size: 28 Copynumber: 7.8 Consensus size: 28
31355981 CCTAAATTTT
* *
31355991 TCCAAAATTACCATTTTGCCCTCGAAAG
1 TCCAAAATTACCATTTTACCCTCGAAAA
*
31356019 TCCAAAATTACTATTTTACCCTC-AAACA
1 TCCAAAATTACCATTTTACCCTCGAAA-A
* * * ***
31356047 TCTAAAAAGT-CTCATTTTGATCC-CGATTCT
1 TC-CAAAATTAC-CATTTT-ACCCTCGA-AAA
* *
31356077 TCCAAAATTACCATTTTACCCT-TAAGTA
1 TCCAAAATTACCATTTTACCCTCGAA-AA
* * *
31356105 TCTAAAA-TATCATTTTTAACCCT--AAATTTT
1 TCCAAAATTACCA-TTTT-ACCCTCGAAA---A
* * *
31356135 TCCAAAATTACCATTTTGCTCC-CGAGAG
1 TCCAAAATTACCATTTTAC-CCTCGAAAA
* * *
31356163 TCCAAAATTACCATTTTGCTCC-CGAGAG
1 TCCAAAATTACCATTTTAC-CCTCGAAAA
31356191 TCCAAAATTACCATTTTACCC
1 TCCAAAATTACCATTTTACCC
31356212 CCAGGCATCC
Statistics
Matches: 148, Mismatches: 27, Indels: 37
0.70 0.13 0.17
Matches are distributed among these distances:
27 9 0.06
28 86 0.58
29 28 0.19
30 19 0.13
31 6 0.04
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCCTCGAAAA
Found at i:31356108 original size:58 final size:57
Alignment explanation
Indices: 31356019--31356151 Score: 151
Period size: 58 Copynumber: 2.3 Consensus size: 57
31356009 CCCTCGAAAG
* * * *
31356019 TCCAAAATTACTATTTTACCCTCAAACATCTAAAAAGTCTCATTTTGATCCC-GATTCT
1 TCCAAAATTACCATTTTACCCTCAAACATCT-AAAA-TATCATTTTGAACCCAAATTCT
* ** * *
31356077 TCCAAAATTACCATTTTACCCTTAAGTATCTAAAATATCATTTTTAACCCTAAATTTT
1 TCCAAAATTACCATTTTACCCTCAAACATCTAAAATATCATTTTGAACCC-AAATTCT
31356135 TCCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
31356152 GCTCCCGAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
56 12 0.19
57 4 0.06
58 48 0.75
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (57 bp):
TCCAAAATTACCATTTTACCCTCAAACATCTAAAATATCATTTTGAACCCAAATTCT
Found at i:31356224 original size:28 final size:28
Alignment explanation
Indices: 31356135--31356207 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
31356125 CCTAAATTTT
31356135 TCCAAAATTACCATTTTGCTCCCGAGAG
1 TCCAAAATTACCATTTTGCTCCCGAGAG
31356163 TCCAAAATTACCATTTTGCTCCCGAGAG
1 TCCAAAATTACCATTTTGCTCCCGAGAG
31356191 TCCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
31356208 ACCCCCAGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
TCCAAAATTACCATTTTGCTCCCGAGAG
Found at i:31359164 original size:17 final size:17
Alignment explanation
Indices: 31359139--31359177 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
31359129 TTGTATACTT
*
31359139 TATAATATTAT-TATCTA
1 TATACTATTATATAT-TA
31359156 TATACTATTATATATTA
1 TATACTATTATATATTA
31359173 TATAC
1 TATAC
31359178 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (17 bp):
TATACTATTATATATTA
Found at i:31359703 original size:50 final size:51
Alignment explanation
Indices: 31359625--31359728 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 51
31359615 TAATTTCGAA
31359625 ACTTAAAAATTTTAAAAACTATATTTTTTAA-ATATTTTTCTAAAA-AATTC
1 ACTTAAAAATTTTAAAAACTATATTTTTTAATA-ATTTTTCTAAAATAATTC
**
31359675 ACTTAAAAATTTT-AAAACTATATATTTTTTTTAATTTTTCTAAAATAATTC
1 ACTTAAAAATTTTAAAAACTATAT-TTTTTAATAATTTTTCTAAAATAATTC
31359726 ACT
1 ACT
31359729 CAGATTGAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
49 10 0.20
50 30 0.61
51 9 0.18
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (51 bp):
ACTTAAAAATTTTAAAAACTATATTTTTTAATAATTTTTCTAAAATAATTC
Found at i:31361798 original size:23 final size:22
Alignment explanation
Indices: 31361764--31361813 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
31361754 AAGGCAAATT
* *
31361764 TATTTTTTCAATAATTACAAAC
1 TATTTTTCCAATAATTAAAAAC
*
31361786 TATTATTTCCAATAGTTAAAAAC
1 TATT-TTTCCAATAATTAAAAAC
*
31361809 CATTT
1 TATTT
31361814 CTTATAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (22 bp):
TATTTTTCCAATAATTAAAAAC
Found at i:31364268 original size:14 final size:15
Alignment explanation
Indices: 31364249--31364296 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
31364239 GAAAATACTT
*
31364249 TATATAATA-TATAA
1 TATATAATACTATTA
31364263 TATATAATACTATTA
1 TATATAATACTATTA
*
31364278 TCTAT-ATACTATTA
1 TATATAATACTATTA
31364292 TATAT
1 TATAT
31364297 TATATACAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TATATAATACTATTA
Found at i:31364300 original size:17 final size:17
Alignment explanation
Indices: 31364256--31364303 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
31364246 CTTTATATAA
* *
31364256 TATATAATATATAATAC
1 TATATATTATATACTAC
*
31364273 TAT-TATCTATATACTAT
1 TATATAT-TATATACTAC
31364290 TATATATTATATAC
1 TATATATTATATAC
31364304 AACATCTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATTATATACTAC
Found at i:31364375 original size:21 final size:20
Alignment explanation
Indices: 31364343--31364381 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31364333 ATTTTTATAA
*
31364343 TTTATAATTTTTAATATTCT
1 TTTAAAATTTTTAATATTCT
*
31364363 TTTAAAATATTTTATTATT
1 TTTAAAAT-TTTTAATATT
31364382 TTGTAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAAAATTTTTAATATTCT
Found at i:31365536 original size:21 final size:21
Alignment explanation
Indices: 31365498--31365538 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31365488 GATATTGTGA
*
31365498 CGATTAATTTTAATTTCAATT
1 CGATTAATATTAATTTCAATT
31365519 CGATTAATAATTAA-TTCAAT
1 CGATTAAT-ATTAATTTCAAT
31365539 AATTATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
CGATTAATATTAATTTCAATT
Found at i:31366591 original size:41 final size:41
Alignment explanation
Indices: 31366546--31366637 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
31366536 CAGTCATGTC
*
31366546 ACAGATACAGTTACAGATGCAGACATTATACAAATACAATT
1 ACAGATACAGTTACAGATGCAGACATGATACAAATACAATT
* * * * *
31366587 ACAGATATAATTATAGATGCAGACATGATACAGATACAGTT
1 ACAGATACAGTTACAGATGCAGACATGATACAAATACAATT
31366628 ACAGATACAG
1 ACAGATACAG
31366638 ACATGATACC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (41 bp):
ACAGATACAGTTACAGATGCAGACATGATACAAATACAATT
Found at i:31366618 original size:29 final size:29
Alignment explanation
Indices: 31366586--31366646 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
31366576 CAAATACAAT
* * *
31366586 TACAGATATAATTATAGATGCAGACATGA
1 TACAGATACAATTACAGATACAGACATGA
*
31366615 TACAGATACAGTTACAGATACAGACATGA
1 TACAGATACAATTACAGATACAGACATGA
31366644 TAC
1 TAC
31366647 CCCCATCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (29 bp):
TACAGATACAATTACAGATACAGACATGA
Found at i:31367280 original size:53 final size:53
Alignment explanation
Indices: 31367196--31367340 Score: 177
Period size: 53 Copynumber: 2.7 Consensus size: 53
31367186 GACCTTGTGT
** * *
31367196 CTAAAACAATATACACACACCCAAACGCACGCCCATGTGTCAGCCTATGTA-GCC
1 CTAAAACAATATACACACACCCTGACACACGCCCATGTGTCAGCC--CGTATGCC
*
31367250 C-AGAACAATATACACACACCCTGACACACGCCCATGTGTCAGCCCGTATGCC
1 CTAAAACAATATACACACACCCTGACACACGCCCATGTGTCAGCCCGTATGCC
* ** *
31367302 CTAAAACAGTATACACACACTTTGACACACGCCCGTGTG
1 CTAAAACAATATACACACACCCTGACACACGCCCATGTG
31367341 CCTCCAAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 3 0.04
52 4 0.05
53 71 0.90
54 1 0.01
ACGTcount: A:0.33, C:0.35, G:0.14, T:0.17
Consensus pattern (53 bp):
CTAAAACAATATACACACACCCTGACACACGCCCATGTGTCAGCCCGTATGCC
Found at i:31367336 original size:41 final size:43
Alignment explanation
Indices: 31367291--31367385 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
31367281 CCATGTGTCA
* *
31367291 GCCCGTATGCCCT-AAAACAGTATAC-ACACACTTTGACACAC
1 GCCCGTGTGCCCTCAAAACAGTATACAACACACCTTGACACAC
* *
31367332 GCCCGTGTG-CCTCCAAATAGTATACATACACACCTTGACACAC
1 GCCCGTGTGCCCTCAAAACAGTATACA-ACACACCTTGACACAC
*
31367375 GCTCGTGTGCC
1 GCCCGTGTGCC
31367386 TCCTATAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.07
41 18 0.40
43 23 0.51
44 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.21
Consensus pattern (43 bp):
GCCCGTGTGCCCTCAAAACAGTATACAACACACCTTGACACAC
Found at i:31367363 original size:43 final size:41
Alignment explanation
Indices: 31367309--31367388 Score: 124
Period size: 43 Copynumber: 1.9 Consensus size: 41
31367299 GCCCTAAAAC
*
31367309 AGTATACACACACTTTGACACACGCCCGTGTGCCTCCAAAT
1 AGTATACACACACCTTGACACACGCCCGTGTGCCTCCAAAT
*
31367350 AGTATACATACACACCTTGACACACGCTCGTGTGCCTCC
1 AGTATAC--ACACACCTTGACACACGCCCGTGTGCCTCC
31367389 TATAGCCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 7 0.20
43 28 0.80
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (41 bp):
AGTATACACACACCTTGACACACGCCCGTGTGCCTCCAAAT
Found at i:31369478 original size:21 final size:22
Alignment explanation
Indices: 31369441--31369488 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
31369431 TTCCAACAAA
*
31369441 AAAAAACCTTGAGTTTTA-TAG
1 AAAAAACCTCGAGTTTTACTAG
31369462 AAAAAACC-CGAGTTTTTACCTAG
1 AAAAAACCTCGAG-TTTTA-CTAG
31369485 AAAA
1 AAAA
31369489 CCATATCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
23 7 0.30
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (22 bp):
AAAAAACCTCGAGTTTTACTAG
Found at i:31370770 original size:27 final size:27
Alignment explanation
Indices: 31370729--31370839 Score: 186
Period size: 27 Copynumber: 4.1 Consensus size: 27
31370719 ATTTTGAGCA
31370729 TCTCTAACTCCAATCTCAGCTTCTCAT
1 TCTCTAACTCCAATCTCAGCTTCTCAT
*
31370756 TCCCTAACTCCAATCTCAGCTTCTCAT
1 TCTCTAACTCCAATCTCAGCTTCTCAT
* *
31370783 TCTCTAACTCCAGTCTCAGCATCTCAT
1 TCTCTAACTCCAATCTCAGCTTCTCAT
*
31370810 TCTCTAACTCCAATCTCAGCCTCTCAT
1 TCTCTAACTCCAATCTCAGCTTCTCAT
31370837 TCT
1 TCT
31370840 GGTGCAACAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.22, C:0.39, G:0.05, T:0.35
Consensus pattern (27 bp):
TCTCTAACTCCAATCTCAGCTTCTCAT
Found at i:31370974 original size:93 final size:93
Alignment explanation
Indices: 31370815--31371024 Score: 357
Period size: 93 Copynumber: 2.3 Consensus size: 93
31370805 CTCATTCTCT
* *
31370815 AACTCCAATCTCAGCCTCTCATTCTGGTGCAACAATTGATCTCCTTTGTTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTCTCATTCCGGTGCAACAATTGATCTCCTTCGTTGATCACTTGAATCAA
*
31370880 TTTCAAGTTCTGTTCCCTTTCACGTTCA
66 TTTCAAGTTCTGTTCCCTTTCACGCTCA
* *
31370908 AACTCCAATCTCAGCCTTTCATTCCGGTGCAACAATTGATCTTCTTCGTTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTCTCATTCCGGTGCAACAATTGATCTCCTTCGTTGATCACTTGAATCAA
*
31370973 TTTCAAGTTCTGTTCCCTTTCACGCTCT
66 TTTCAAGTTCTGTTCCCTTTCACGCTCA
*
31371001 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTCTCATTC
31371025 TCCTTCTCCA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 109 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.36
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTCTCATTCCGGTGCAACAATTGATCTCCTTCGTTGATCACTTGAATCAA
TTTCAAGTTCTGTTCCCTTTCACGCTCA
Found at i:31372377 original size:20 final size:21
Alignment explanation
Indices: 31372339--31372421 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 21
31372329 AGGTTAATAT
31372339 TATTTTATGTATATCTTTATG
1 TATTTTATGTATATCTTTATG
31372360 TATTTT-TGTATA-CATTTA-G
1 TATTTTATGTATATC-TTTATG
* * *
31372379 T-TATTTATGCATAATCCTGTATA
1 TAT-TTTATGTAT-AT-CTTTATG
31372402 TATTTTATGTATTAT-TTTAT
1 TATTTTATGTA-TATCTTTAT
31372422 AATATTGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
18 1 0.02
19 6 0.12
20 14 0.29
21 11 0.23
22 3 0.06
23 11 0.23
24 2 0.04
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (21 bp):
TATTTTATGTATATCTTTATG
Found at i:31373874 original size:27 final size:25
Alignment explanation
Indices: 31373843--31373893 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
31373833 TGTTAAACAC
*
31373843 AATTATATGAAAAAGTAAAATTAAATA
1 AATTAGAT-AAAAAGTAAAA-TAAATA
*
31373870 AATTAGATTAAAAGTAAAATAAAT
1 AATTAGATAAAAAGTAAAATAAAT
31373894 TCAAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 10 0.45
27 7 0.32
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTAGATAAAAAGTAAAATAAATA
Found at i:31376166 original size:80 final size:80
Alignment explanation
Indices: 31376033--31376186 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 80
31376023 TCATAATTTT
* *
31376033 CGTCAATTCATGGCACCCGGTGCCTAGCAATTAAACCGTGATAAGTGAGCCCAGCTCTAGTTGGA
1 CGTCAATTCATGGCACCCAGTGCCTAGCAATTAAACCGCGATAAGTGAGCCCAGCTCTAGTTGGA
*
31376098 TTAACCAACAAAGTC
66 TGAACCAACAAAGTC
* * *
31376113 CGTCAATTCATGGCACCTAGTGCCTAGCCGA-TAAACTGCGATAAGTGAGCCCAGCTCTAGTTGG
1 CGTCAATTCATGGCACCCAGTGCCTAG-CAATTAAACCGCGATAAGTGAGCCCAGCTCTAGTTGG
31376177 ATGAACCAAC
65 ATGAACCAAC
31376187 GGTTTGTGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 65 0.97
81 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (80 bp):
CGTCAATTCATGGCACCCAGTGCCTAGCAATTAAACCGCGATAAGTGAGCCCAGCTCTAGTTGGA
TGAACCAACAAAGTC
Found at i:31376947 original size:2 final size:2
Alignment explanation
Indices: 31376890--31376933 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
31376880 AACCATTTAA
31376890 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31376932 AT
1 AT
31376934 CTTCAATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31379348 original size:10 final size:10
Alignment explanation
Indices: 31379332--31379362 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
31379322 TTGAAAATCA
31379332 AGTATATTTT
1 AGTATATTTT
*
31379342 GGTATATTTT
1 AGTATATTTT
31379352 AGTATATTTT
1 AGTATATTTT
31379362 A
1 A
31379363 TTATGATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (10 bp):
AGTATATTTT
Found at i:31379652 original size:46 final size:45
Alignment explanation
Indices: 31379614--31379751 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 45
31379604 AGATATAAAA
31379614 GTGGCTTCAATTTTTCCCTCTGGATTTAGGGTTAAAAGATTGGATG
1 GTGGCTTCAATTTTTCCCTCTGGATTTAGGG-TAAAAGATTGGATG
* *
31379660 GTGGCTTCAA-TCTACTCCTCTGGATTTAGGGATAAAAGATTGGATG
1 GTGGCTTCAATTTTTC-CCTCTGGATTTAGGG-TAAAAGATTGGATG
* * *
31379706 GTGGCTTCAATCTGTCCCTTTGGATTTAGGCGTAAAAGATTGGATG
1 GTGGCTTCAATTTTTCCCTCTGGATTTAGG-GTAAAAGATTGGATG
31379752 CTTCAGTTTG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
45 3 0.04
46 76 0.94
47 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (45 bp):
GTGGCTTCAATTTTTCCCTCTGGATTTAGGGTAAAAGATTGGATG
Found at i:31379872 original size:33 final size:33
Alignment explanation
Indices: 31379830--31379900 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
31379820 TTGGAGTATA
* *
31379830 AGATTGGATGTGGTGGCTTCAATCTGCCCCTCT
1 AGATTGGATGTGATGGCTTCAATCTACCCCTCT
31379863 AGATTGGATGTGATGGCTTCAATCTACCCCTCT
1 AGATTGGATGTGATGGCTTCAATCTACCCCTCT
31379896 AGATT
1 AGATT
31379901 TAGGGTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (33 bp):
AGATTGGATGTGATGGCTTCAATCTACCCCTCT
Found at i:31379942 original size:41 final size:41
Alignment explanation
Indices: 31379897--31380045 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
31379887 TACCCCTCTA
*
31379897 GATTTAGGGTATAAGATTGGATGCTTTAATCTGCCCTTTTG
1 GATTTAGGGTATAAGATTGGATGCTTTAATTTGCCCTTTTG
* * * *
31379938 GATTTGGGGTATAAAATTGAATTCTTTAATTTGCCCTTTTG
1 GATTTAGGGTATAAGATTGGATGCTTTAATTTGCCCTTTTG
* * *
31379979 GATTTAGGG-ATAAGACTTGAAGGTGGCTTTAATTTGCCCCTCTG
1 GATTTAGGGTATAAGA-TTG--GAT-GCTTTAATTTGCCCTTTTG
31380023 GATTTAGGGTATAAGATTGGATG
1 GATTTAGGGTATAAGATTGGATG
31380046 GTCACTAGTC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
40 5 0.06
41 48 0.53
42 2 0.02
43 1 0.01
44 28 0.31
45 6 0.07
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.40
Consensus pattern (41 bp):
GATTTAGGGTATAAGATTGGATGCTTTAATTTGCCCTTTTG
Found at i:31380902 original size:17 final size:17
Alignment explanation
Indices: 31380874--31380913 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
31380864 GACCTCTCCT
31380874 TCTTTTCTTTTTCTTTC
1 TCTTTTCTTTTTCTTTC
*
31380891 T-TTTTCCTTTTTTTTTC
1 TCTTTT-CTTTTTCTTTC
31380908 TCTTTT
1 TCTTTT
31380914 TTTGGGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 12 0.60
18 4 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TCTTTTCTTTTTCTTTC
Found at i:31381869 original size:14 final size:14
Alignment explanation
Indices: 31381837--31381877 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31381827 CATCTAGACT
*
31381837 TTTTCCTTCTTTTTA
1 TTTTCTTTC-TTTTA
*
31381852 TTTTCTTTCTTTTC
1 TTTTCTTTCTTTTA
31381866 TTTTCTTTCTTT
1 TTTTCTTTCTTT
31381878 GGATTCCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTTTCTTTTA
Found at i:31382418 original size:37 final size:37
Alignment explanation
Indices: 31382367--31382495 Score: 118
Period size: 37 Copynumber: 3.4 Consensus size: 37
31382357 GGTATGGACA
**
31382367 AAACGAATTTAAAGAATGAATGATTGATTATAGTATG
1 AAACGAATGGAAAGAATGAATGATTGATTATAGTATG
* * ** **
31382404 AAACGAATGGAAAGAA-GAGTAAGA-TGTTTGCCAGATACA
1 AAACGAATGGAAAGAATGA--ATGATTGATT-ATAG-TATG
**
31382443 AAACGAATTTAAAGAATGAATGATTGATTATAGTATG
1 AAACGAATGGAAAGAATGAATGATTGATTATAGTATG
31382480 AAACGAATGGAAAGAA
1 AAACGAATGGAAAGAA
31382496 GAGTAAGATG
Statistics
Matches: 68, Mismatches: 18, Indels: 12
0.69 0.18 0.12
Matches are distributed among these distances:
36 2 0.03
37 34 0.50
38 10 0.15
39 20 0.29
40 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.22, T:0.25
Consensus pattern (37 bp):
AAACGAATGGAAAGAATGAATGATTGATTATAGTATG
Found at i:31382465 original size:76 final size:76
Alignment explanation
Indices: 31382364--31382515 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
31382354 CGAGGTATGG
31382364 ACAAAACGAATTTAAAGAATGAATGATTGATTATAGTATGAAACGAATGGAAAGAAGAGTAAGAT
1 ACAAAACGAATTTAAAGAATGAATGATTGATTATAGTATGAAACGAATGGAAAGAAGAGTAAGAT
31382429 GTTTGCCAGAT
66 GTTTGCCAGAT
31382440 ACAAAACGAATTTAAAGAATGAATGATTGATTATAGTATGAAACGAATGGAAAGAAGAGTAAGAT
1 ACAAAACGAATTTAAAGAATGAATGATTGATTATAGTATGAAACGAATGGAAAGAAGAGTAAGAT
31382505 GTTTGCCAGAT
66 GTTTGCCAGAT
31382516 TTGATAAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.25
Consensus pattern (76 bp):
ACAAAACGAATTTAAAGAATGAATGATTGATTATAGTATGAAACGAATGGAAAGAAGAGTAAGAT
GTTTGCCAGAT
Found at i:31386912 original size:17 final size:17
Alignment explanation
Indices: 31386890--31386923 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31386880 CCAACATATG
31386890 ATATTTGGATGATTAAA
1 ATATTTGGATGATTAAA
*
31386907 ATATTTTGATGATTAAA
1 ATATTTGGATGATTAAA
31386924 TTATAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
ATATTTGGATGATTAAA
Found at i:31390147 original size:19 final size:19
Alignment explanation
Indices: 31390125--31390190 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
31390115 GTCAAAGCAA
31390125 TAATGTAAAATTAAAGAAG
1 TAATGTAAAATTAAAGAAG
* * *
31390144 TAATTTGAATTGTCAAAGCAA-
1 TAATGTAAAAT-T-AAAG-AAG
*
31390165 AAATGTAAAATTAAAGAAG
1 TAATGTAAAATTAAAGAAG
31390184 TAATGTA
1 TAATGTA
31390191 GTAATAATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.51
20 2 0.06
21 11 0.31
22 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (19 bp):
TAATGTAAAATTAAAGAAG
Found at i:31390152 original size:40 final size:40
Alignment explanation
Indices: 31390108--31390187 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
31390098 AATTGTGAGA
*
31390108 TTGAATTGTCAAAGCAATAATGTAAAATTAAAGAAGTAAT
1 TTGAATTGTCAAAGCAAAAATGTAAAATTAAAGAAGTAAT
31390148 TTGAATTGTCAAAGCAAAAATGTAAAATTAAAGAAGTAAT
1 TTGAATTGTCAAAGCAAAAATGTAAAATTAAAGAAGTAAT
31390188 GTAGTAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (40 bp):
TTGAATTGTCAAAGCAAAAATGTAAAATTAAAGAAGTAAT
Found at i:31390176 original size:22 final size:22
Alignment explanation
Indices: 31390111--31390176 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 22
31390101 TGTGAGATTG
31390111 AATTGTCAAAGCAATAATGTAA
1 AATTGTCAAAGCAATAATGTAA
**
31390133 AA-T-T-AAAG-AAGTAAT-TTG
1 AATTGTCAAAGCAA-TAATGTAA
*
31390151 AATTGTCAAAGCAAAAATGTAA
1 AATTGTCAAAGCAATAATGTAA
31390173 AATT
1 AATT
31390177 AAAGAAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
18 5 0.15
19 9 0.27
20 2 0.06
21 8 0.24
22 9 0.27
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.29
Consensus pattern (22 bp):
AATTGTCAAAGCAATAATGTAA
Found at i:31396716 original size:48 final size:48
Alignment explanation
Indices: 31396660--31396771 Score: 215
Period size: 48 Copynumber: 2.3 Consensus size: 48
31396650 AATAATACAA
31396660 AATTGTTATTCTCTTATGGGACCCACTTGATGTTTGAGATGTGTTCAC
1 AATTGTTATTCTCTTATGGGACCCACTTGATGTTTGAGATGTGTTCAC
*
31396708 AATTGTTATTCTCTTATGGGACCTACTTGATGTTTGAGATGTGTTCAC
1 AATTGTTATTCTCTTATGGGACCCACTTGATGTTTGAGATGTGTTCAC
31396756 AATTGTTATTCTCTTA
1 AATTGTTATTCTCTTA
31396772 AACACTATTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (48 bp):
AATTGTTATTCTCTTATGGGACCCACTTGATGTTTGAGATGTGTTCAC
Found at i:31399454 original size:11 final size:11
Alignment explanation
Indices: 31399438--31399462 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31399428 ATGAGGAGAG
31399438 AAAATAAAATA
1 AAAATAAAATA
31399449 AAAATAAAATA
1 AAAATAAAATA
31399460 AAA
1 AAA
31399463 TGGATTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:31399747 original size:26 final size:24
Alignment explanation
Indices: 31399713--31399787 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 24
31399703 TTAAAAATAC
31399713 TAATTTTTAATAATTTTAATGATTTT
1 TAATTTTTAA-AATTTTAAT-ATTTT
31399739 TAATTTTTAAAAAATTTT-ATATTTT
1 TAATTTTT--AAAATTTTAATATTTT
*
31399764 TGAATTTTTAAATTTTTAAATATT
1 T-AATTTTTAAAATTTT-AATATT
31399788 AATTAAATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
24 7 0.16
25 6 0.14
26 22 0.51
27 6 0.14
28 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (24 bp):
TAATTTTTAAAATTTTAATATTTT
Found at i:31399783 original size:8 final size:8
Alignment explanation
Indices: 31399714--31399784 Score: 54
Period size: 8 Copynumber: 8.4 Consensus size: 8
31399704 TAAAAATACT
31399714 AATTTTTA
1 AATTTTTA
*
31399722 ATAATTTTA
1 A-ATTTTTA
31399731 ATGATTTTT-
1 A--ATTTTTA
31399740 AATTTTTAAA
1 AATTTTT--A
*
31399750 AAATTTTA
1 AATTTTTA
* *
31399758 TATTTTTG
1 AATTTTTA
31399766 AATTTTTA
1 AATTTTTA
31399774 AATTTTTA
1 AATTTTTA
31399782 AAT
1 AAT
31399785 ATTAATTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.12
8 24 0.49
9 8 0.16
10 11 0.22
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (8 bp):
AATTTTTA
Found at i:31400342 original size:33 final size:33
Alignment explanation
Indices: 31400305--31400370 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
31400295 TAGCGGCACT
31400305 TATGGAAAAGCGCCACTAAAGGTCAGAGCAATA
1 TATGGAAAAGCGCCACTAAAGGTCAGAGCAATA
* * * *
31400338 TATGGGAAAGCGCCGCTAAATGTTAGAGCAATA
1 TATGGAAAAGCGCCACTAAAGGTCAGAGCAATA
31400371 AAAGCGCCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (33 bp):
TATGGAAAAGCGCCACTAAAGGTCAGAGCAATA
Found at i:31405037 original size:19 final size:18
Alignment explanation
Indices: 31405009--31405070 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
31404999 TAAAATAGAG
*
31405009 AAAATTATAAAAATAATAA
1 AAAATCATAAAAAT-ATAA
*
31405028 AAAATCATAAATATATACA
1 AAAATCATAAAAATATA-A
31405047 TAAAA-CATAAAAAATTATAA
1 -AAAATCAT-AAAAA-TATAA
31405067 AAAA
1 AAAA
31405071 ATTAACAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 20 0.56
20 9 0.25
21 4 0.11
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATCATAAAAATATAA
Found at i:31407238 original size:100 final size:100
Alignment explanation
Indices: 31407128--31407309 Score: 346
Period size: 100 Copynumber: 1.8 Consensus size: 100
31407118 CTTACAATCT
*
31407128 CAATAAAATAATAATCGATAAAATATAATGAAATTCCCAAAATAGCTTATATACATATTAATAAA
1 CAATAAAATAATAATCGATAAAATATAATGAAATCCCCAAAATAGCTTATATACATATTAATAAA
31407193 TAATAGAATAAAATAAAGAAACTATAAATATGCCC
66 TAATAGAATAAAATAAAGAAACTATAAATATGCCC
*
31407228 CAATAAAATAATAATCGATAAAATATAATGAAATCCCCAAAGTAGCTTATATACATATTAATAAA
1 CAATAAAATAATAATCGATAAAATATAATGAAATCCCCAAAATAGCTTATATACATATTAATAAA
31407293 TAATAGAATAAAATAAA
66 TAATAGAATAAAATAAA
31407310 ATAAAGAAAC
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (100 bp):
CAATAAAATAATAATCGATAAAATATAATGAAATCCCCAAAATAGCTTATATACATATTAATAAA
TAATAGAATAAAATAAAGAAACTATAAATATGCCC
Found at i:31407290 original size:50 final size:49
Alignment explanation
Indices: 31407136--31407291 Score: 117
Period size: 46 Copynumber: 3.1 Consensus size: 49
31407126 CTCAATAAAA
*
31407136 TAATAATCGATAAAATATAATGAAATTCCCAAAATAGCTTATATACATATT
1 TAATAATCGATAAAATATAATGAAA-TCCCCAAATAGCTTATATACATA-T
* *** ** *
31407187 AATAAATAATAGAATAAAATA-AA-GAAA-CTATAAATATGCCCCA-ATA-A-AA
1 --T-AATAATCG-ATAAAATATAATGAAATCCCCAAATA-G-CTTATATACATAT
31407236 TAATAATCGATAAAATATAATGAAATCCCCAAAGTAGCTTATATACATAT
1 TAATAATCGATAAAATATAATGAAATCCCCAAA-TAGCTTATATACATAT
31407286 TAATAA
1 TAATAA
31407292 ATAATAGAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
45 8 0.10
46 9 0.12
47 7 0.09
48 8 0.10
49 3 0.04
50 8 0.10
51 7 0.09
52 4 0.05
53 7 0.09
54 9 0.12
55 8 0.10
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (49 bp):
TAATAATCGATAAAATATAATGAAATCCCCAAATAGCTTATATACATAT
Found at i:31411569 original size:22 final size:21
Alignment explanation
Indices: 31411507--31411570 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
31411497 TTTTAATTTT
* *
31411507 TTTTATAATTATTTTAAAAATG
1 TTTTATAATT-TTTTAATAATA
*
31411529 TTTTATGA-TTTTTAGATAATA
1 TTTTATAATTTTTTA-ATAATA
31411550 TTTTAATAATTTTTTAATAAT
1 TTTT-ATAATTTTTTAATAAT
31411571 CACATCCGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.14
21 9 0.26
22 15 0.43
23 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTATAATTTTTTAATAATA
Found at i:31423452 original size:40 final size:40
Alignment explanation
Indices: 31423406--31423497 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
31423396 TAGTGTCGCA
*
31423406 GCTAGTTTGGTAGTAATACTGTAGTGTTTACAATGTCACT
1 GCTAGTTTAGTAGTAATACTGTAGTGTTTACAATGTCACT
* * *
31423446 GTTAGTTTAGTAGTAATATTGTAGTGTTTACAGTGTCACT
1 GCTAGTTTAGTAGTAATACTGTAGTGTTTACAATGTCACT
*
31423486 GCTAGTTCAGTA
1 GCTAGTTTAGTA
31423498 TAGCATTGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (40 bp):
GCTAGTTTAGTAGTAATACTGTAGTGTTTACAATGTCACT
Found at i:31423524 original size:39 final size:40
Alignment explanation
Indices: 31423389--31423526 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
31423379 TAGCTTAGCT
* * * ** * * *
31423389 GTGTTTATAGTGTCGCAGCTAGTTTGGTAGTAATACTGTA
1 GTGTTTACAGTGTCACTGCTAGTTCAGTAGTAACATTGCA
* * * * *
31423429 GTGTTTACAATGTCACTGTTAGTTTAGTAGTAATATTGTA
1 GTGTTTACAGTGTCACTGCTAGTTCAGTAGTAACATTGCA
*
31423469 GTGTTTACAGTGTCACTGCTAGTTCAGTA-TAGCATTGCA
1 GTGTTTACAGTGTCACTGCTAGTTCAGTAGTAACATTGCA
*
31423508 GTGTTTACAGTATCACTGC
1 GTGTTTACAGTGTCACTGC
31423527 CAATTCATAA
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 25 0.30
40 59 0.70
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (40 bp):
GTGTTTACAGTGTCACTGCTAGTTCAGTAGTAACATTGCA
Found at i:31426997 original size:27 final size:27
Alignment explanation
Indices: 31426951--31427058 Score: 121
Period size: 27 Copynumber: 4.1 Consensus size: 27
31426941 AAAGATATTA
31426951 TGATTTTGGCTCGTAAGAGCGTAATTC
1 TGATTTTGGCTCGTAAGAGCGTAATTC
* * *
31426978 TGATTTTGGCTTGTAGGAGCGTAATTT
1 TGATTTTGGCTCGTAAGAGCGTAATTC
* * * *
31427005 TGATTCTGGCTCATAAGAGCATAATTT
1 TGATTTTGGCTCGTAAGAGCGTAATTC
* *
31427032 TG--TTGGGCTTGTAAGAGCGTAATTC
1 TGATTTTGGCTCGTAAGAGCGTAATTC
31427057 TG
1 TG
31427059 TCTTGCTCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
25 19 0.28
27 48 0.72
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (27 bp):
TGATTTTGGCTCGTAAGAGCGTAATTC
Found at i:31427129 original size:26 final size:26
Alignment explanation
Indices: 31427080--31427129 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
31427070 AAACTGATAT
*
31427080 TCTATCTGGGCTCGTAATACCTAAAC
1 TCTATCTGGGCTCGTAATAACTAAAC
31427106 TCTATCTGGGCTCGT-ATGAACTAA
1 TCTATCTGGGCTCGTAAT-AACTAA
31427130 TTTTTAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (26 bp):
TCTATCTGGGCTCGTAATAACTAAAC
Found at i:31433839 original size:27 final size:27
Alignment explanation
Indices: 31433796--31434076 Score: 328
Period size: 27 Copynumber: 10.7 Consensus size: 27
31433786 GAAGATATTT
*
31433796 TGATTCTGGCTCATAAGAGCGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* * *
31433823 TAATTCTGGTTCGTAAGAGTGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* * *
31433850 TGATTCTGGCTCATAAGAGCATAATTT
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* *
31433877 TGATTTTGGCTCGTAAGAGTGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* * *
31433904 TGATTCTGGCTCATAAAAGCATAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
*
31433931 TGATTCTGGCTCGTAAGAGCATAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
31433958 TGATTCTGTG-TCGTAAGAGCGTAATTC
1 TGATTCTG-GCTCGTAAGAGCGTAATTC
* *
31433985 TG--TCTAGCTCGTAAGATCGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
31434010 TG-TT-TGGCTCGTAAGAGCGTAATTC
1 TGATTCTGGCTCGTAAGAGCGTAATTC
* * *
31434035 TG--TCTAGCTCGTAAGAGTGTAATTA
1 TGATTCTGGCTCGTAAGAGCGTAATTC
31434060 T-ATT-TGGCTCGTAAGAG
1 TGATTCTGGCTCGTAAGAG
31434077 TTAAACTCTA
Statistics
Matches: 217, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
24 2 0.01
25 73 0.34
26 2 0.01
27 139 0.64
28 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
TGATTCTGGCTCGTAAGAGCGTAATTC
Found at i:31434088 original size:25 final size:26
Alignment explanation
Indices: 31434041--31434098 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
31434031 ATTCTGTCTA
*
31434041 GCTCGTAAGAGTGTAATTATATTT-G
1 GCTCGTAAGAGTGTAACTATATTTGG
*
31434066 GCTCGTAAGAGT-TAAACTCTATTTGG
1 GCTCGTAAGAGTGT-AACTATATTTGG
31434092 GCTCGTA
1 GCTCGTA
31434099 TGAGCTGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.03
25 20 0.69
26 8 0.28
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (26 bp):
GCTCGTAAGAGTGTAACTATATTTGG
Found at i:31444071 original size:495 final size:498
Alignment explanation
Indices: 31443135--31444130 Score: 1791
Period size: 495 Copynumber: 2.0 Consensus size: 498
31443125 AGAGTTTGAA
*
31443135 AATGGTCTCATAAAGTCGATACCCCAAATGTCAAAAAACTCTACCTCCATGATGGGTTGTTGATG
1 AATGGTCTCATAAAGTCGATACCCCAAATATCAAAAAACTCTACCTCCATGATGGGTTGTTGATG
* * * *
31443200 CATGTCATTGCGTCGAGATATGGAACTAGTGTGTTGACAATGAACATATTGTTGCGCAAAATTGT
66 CATCTCATTGCGTCGAGATATGGAAATAGTGTGTTGACAACGAACATATTGTTACGCAAAATTGT
31443265 GGGCGTCTCAAAACAAACTGGGCCAATAAAATCCTAATTGTAGGACCTTTGCAGCAGTCCTTGTT
131 GGGCGTCTCAAAACAAACTGGGCCAATAAAATCCTAA---TAGGACCTTTGCAGCAGTCCTTGTT
*
31443330 TCACCGAAATGACCTCCATAAGGGGCATCATGGCAATGTCATAGGATTGATATCATTTCTTCTTC
193 CCACCGAAATGACCTCCATAAGGGGCATCATGGCAATGTCATAGGATTGATATCATTTCTTCTTC
* *
31443395 AGGAACACAGCGACCAATGATATTATCAATGCATACCTTAAATAGGTATGGCTCGTTCCAATGGT
258 AGGAACACAGCGACCAATGATATTATCAATGCATACCTTAAATAGGAATGACTCGTTCCAATGGT
*
31443460 ATTTAGCAGCATCGCGTAAGAACCTGATCTTCTTGTGACCAGTCGCACTCATAGGTAGCTTTCCA
323 ATTTAGCAGCATCACGTAAGAACCTGATCTTCTTGTGACCAGTCGCACTCATAGGTAGCTTTCCA
*
31443525 CAATAAGGTAGTTGACGACATCGGCATACCATGGTGATGTGTCGATAGTGAATAATTGCTCGTCA
388 CAATAAGGTAATTGACGACATCGGCATACCATGGTGATGTGTCGATAGTGAATAATTGCTCGTCA
31443590 AGAAATGCCTCGACAATCTGGGTCGTTTACCCGTTTTCACTCCCAG
453 AGAAATGCCTCGACAATCTGGGTCGTTTACCCGTTTTCACTCCCAG
31443636 AATGGTCTCATAAAGTCGATACCCCAAATATCAAAAAACTCTACCTCCATGATGGGTTGTTGATG
1 AATGGTCTCATAAAGTCGATACCCCAAATATCAAAAAACTCTACCTCCATGATGGGTTGTTGATG
31443701 CATCTCATTGCGTCGAGATATGGAAATAGTGTGTTGACAACGAACATATTGTTACGCAAAATTGT
66 CATCTCATTGCGTCGAGATATGGAAATAGTGTGTTGACAACGAACATATTGTTACGCAAAATTGT
* *
31443766 GGGTGTCTCAAAACAAATTGGGCCAATAAAATCCT-A-A-GACCTTTGCAGCAGTCCTTGTTCCA
131 GGGCGTCTCAAAACAAACTGGGCCAATAAAATCCTAATAGGACCTTTGCAGCAGTCCTTGTTCCA
31443828 CCGAAATGACCTCCATAAGGGGCATCATGGCAATGTCATAGGATTGATATCATTTCTTCTTCAGG
196 CCGAAATGACCTCCATAAGGGGCATCATGGCAATGTCATAGGATTGATATCATTTCTTCTTCAGG
* **
31443893 AACACAGCGACCAATGATATTGTCGGTGCATACCTTAAATAGGAATGACTCGTTCCAATGGTATT
261 AACACAGCGACCAATGATATTATCAATGCATACCTTAAATAGGAATGACTCGTTCCAATGGTATT
*
31443958 TGGCAGCATCACGTAAGAACCTGATCTTCTTGTGACCAGTCGCACTCATAGGTAGCTTTCCACAA
326 TAGCAGCATCACGTAAGAACCTGATCTTCTTGTGACCAGTCGCACTCATAGGTAGCTTTCCACAA
*
31444023 TAAGGTAATTGACGACATCGGTATACCATGGTGATGTGTCGATAGTGAATAATTGCTCGTCAAGA
391 TAAGGTAATTGACGACATCGGCATACCATGGTGATGTGTCGATAGTGAATAATTGCTCGTCAAGA
31444088 AATGCCTCGACAATCTGGGTCGTTTACCCGTTTTCACTCCCAG
456 AATGCCTCGACAATCTGGGTCGTTTACCCGTTTTCACTCCCAG
31444131 TTTCCAACCG
Statistics
Matches: 478, Mismatches: 17, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
495 318 0.67
496 1 0.00
500 1 0.00
501 158 0.33
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (498 bp):
AATGGTCTCATAAAGTCGATACCCCAAATATCAAAAAACTCTACCTCCATGATGGGTTGTTGATG
CATCTCATTGCGTCGAGATATGGAAATAGTGTGTTGACAACGAACATATTGTTACGCAAAATTGT
GGGCGTCTCAAAACAAACTGGGCCAATAAAATCCTAATAGGACCTTTGCAGCAGTCCTTGTTCCA
CCGAAATGACCTCCATAAGGGGCATCATGGCAATGTCATAGGATTGATATCATTTCTTCTTCAGG
AACACAGCGACCAATGATATTATCAATGCATACCTTAAATAGGAATGACTCGTTCCAATGGTATT
TAGCAGCATCACGTAAGAACCTGATCTTCTTGTGACCAGTCGCACTCATAGGTAGCTTTCCACAA
TAAGGTAATTGACGACATCGGCATACCATGGTGATGTGTCGATAGTGAATAATTGCTCGTCAAGA
AATGCCTCGACAATCTGGGTCGTTTACCCGTTTTCACTCCCAG
Found at i:31464123 original size:40 final size:40
Alignment explanation
Indices: 31464059--31464147 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
31464049 TAGCTTAGCT
**
31464059 GTGTTTACAGTGTCATAGCTAGTTCGGTAGTAATACTGCA
1 GTGTTTACAGTGTCATAGCTAGTTCAATAGTAATACTGCA
*
31464099 GTGTTTACAGTGTCACT-G-TCAGTTCAATAGTAATATTGCA
1 GTGTTTACAGTGTCA-TAGCT-AGTTCAATAGTAATACTGCA
31464139 GTGTTTACA
1 GTGTTTACA
31464148 ATGTGACTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (40 bp):
GTGTTTACAGTGTCATAGCTAGTTCAATAGTAATACTGCA
Found at i:31466866 original size:19 final size:19
Alignment explanation
Indices: 31466842--31466881 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
31466832 ATTAAGCACG
*
31466842 TAACAT-AATTAAAATAAAA
1 TAACATAAAATAAAA-AAAA
31466861 TAACATAAAATAAAAAAAA
1 TAACATAAAATAAAAAAAA
31466880 TA
1 TA
31466882 CTTGGGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
TAACATAAAATAAAAAAAA
Found at i:31470420 original size:29 final size:29
Alignment explanation
Indices: 31470388--31470443 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
31470378 TGAAGTTTCA
31470388 AAAAATAT-GGGGTCAAAATATAATTTTGG
1 AAAAATATAGGGGT-AAAATATAATTTTGG
* * *
31470417 AAAACTTTAGGGGTAAAATGTAATTTT
1 AAAAATATAGGGGTAAAATATAATTTT
31470444 AAGAAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.34
Consensus pattern (29 bp):
AAAAATATAGGGGTAAAATATAATTTTGG
Found at i:31470463 original size:29 final size:29
Alignment explanation
Indices: 31470395--31470493 Score: 96
Period size: 29 Copynumber: 3.4 Consensus size: 29
31470385 TCAAAAAATA
* *
31470395 TGGGGTCAAAATATAATTTT-GGAAAACTT
1 TGGGGTCAAAATATAATTTTAAG-AAAGTT
*
31470424 TAGGGGT-AAAATGTAATTTTAAGAAAGTT
1 T-GGGGTCAAAATATAATTTTAAGAAAGTT
* *
31470453 TGGGGTCAAAAAATTATTTTAA-AGAAGTT
1 TGGGGTCAAAATATAATTTTAAGA-AAGTT
*
31470482 TAGGGTCAAAAT
1 TGGGGTCAAAAT
31470494 GTGATGTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
28 6 0.10
29 46 0.79
30 6 0.10
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (29 bp):
TGGGGTCAAAATATAATTTTAAGAAAGTT
Found at i:31470504 original size:20 final size:21
Alignment explanation
Indices: 31470479--31470519 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31470469 TTTTAAAGAA
*
31470479 GTTTAGGG-TCAAAATGTGAT
1 GTTTAGGGCTCAAAACGTGAT
31470499 GTTTAGGGCTCAAAACGTGAT
1 GTTTAGGGCTCAAAACGTGAT
31470520 TTTGGAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (21 bp):
GTTTAGGGCTCAAAACGTGAT
Found at i:31470582 original size:30 final size:30
Alignment explanation
Indices: 31470544--31470614 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
31470534 AGGGTCAAAA
* *
31470544 TTAG-GGTTAAAATATGATTTTAGAGAAGT
1 TTAGAGGTTAAAATATAATTTTAGAAAAGT
* *
31470573 TTAGAGGTTAAAATGTAATTTTGGAAAAGT
1 TTAGAGGTTAAAATATAATTTTAGAAAAGT
31470603 TTA-AGGGTTAAA
1 TTAGA-GGTTAAA
31470615 GTTTAAGGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (30 bp):
TTAGAGGTTAAAATATAATTTTAGAAAAGT
Found at i:31470617 original size:14 final size:14
Alignment explanation
Indices: 31470598--31470624 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31470588 TAATTTTGGA
31470598 AAAGTTTAAGGGTT
1 AAAGTTTAAGGGTT
31470612 AAAGTTTAAGGGT
1 AAAGTTTAAGGGT
31470625 CAAAATGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (14 bp):
AAAGTTTAAGGGTT
Found at i:31470657 original size:43 final size:44
Alignment explanation
Indices: 31470569--31470657 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
31470559 GATTTTAGAG
* *
31470569 AAGTTTAGAGGTTAAAATGTAATTTTGGAAAAGTTTAAGGGTTA
1 AAGTTTAGAGGTCAAAATGCAATTTTGGAAAAGTTTAAGGGTTA
*
31470613 AAGTTTA-AGGGTCAAAATGCAATTTT-GAAAAGTTTTAGGGTTA
1 AAGTTTAGA-GGTCAAAATGCAATTTTGGAAAAGTTTAAGGGTTA
31470656 AA
1 AA
31470658 ATGTAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 19 0.46
44 22 0.54
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (44 bp):
AAGTTTAGAGGTCAAAATGCAATTTTGGAAAAGTTTAAGGGTTA
Found at i:31470683 original size:31 final size:30
Alignment explanation
Indices: 31470612--31470737 Score: 166
Period size: 31 Copynumber: 4.2 Consensus size: 30
31470602 TTTAAGGGTT
* * *
31470612 AAAGTTTAAGGGTCAAAATGCAATTTT-GA
1 AAAGTTTTAGGGTTAAAATGTAATTTTAGA
*
31470641 AAAGTTTTAGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTAGGGTTAAAATGTAATTTTAGA
31470671 AAAGTTTTTAGGGTTAAAATGTAATTTTAGA
1 AAAG-TTTTAGGGTTAAAATGTAATTTTAGA
*
31470702 AAAG-TTTAGAGGTTAAAATGAAATTTTAGA
1 AAAGTTTTAG-GGTTAAAATGTAATTTTAGA
*
31470732 GAAGTT
1 AAAGTT
31470738 CGGGGTCACA
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
29 29 0.33
30 28 0.32
31 30 0.34
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (30 bp):
AAAGTTTTAGGGTTAAAATGTAATTTTAGA
Found at i:31470727 original size:61 final size:60
Alignment explanation
Indices: 31470612--31470737 Score: 166
Period size: 61 Copynumber: 2.1 Consensus size: 60
31470602 TTTAAGGGTT
* *
31470612 AAAG-TTTAAGGGTCAAAATGCAATTTTGAAAAGTTTTAGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTAAGGGTCAAAATGCAATTTTGAAAAGTTTTAGGGTTAAAATGAAATTTTAGA
* * *
31470671 AAAGTTTTTAGGGTTAAAATGTAATTTTAGAAAAG-TTTAGAGGTTAAAATGAAATTTTAGA
1 AAAGTTTTAAGGGTCAAAATGCAATTTT-GAAAAGTTTTAG-GGTTAAAATGAAATTTTAGA
*
31470732 GAAGTT
1 AAAGTT
31470738 CGGGGTCACA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 4 0.07
60 25 0.43
61 29 0.50
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (60 bp):
AAAGTTTTAAGGGTCAAAATGCAATTTTGAAAAGTTTTAGGGTTAAAATGAAATTTTAGA
Found at i:31471457 original size:3 final size:3
Alignment explanation
Indices: 31471451--31471481 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
31471441 CTACTACTAC
31471451 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
31471482 TAAAAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:31473146 original size:85 final size:85
Alignment explanation
Indices: 31473001--31473168 Score: 252
Period size: 85 Copynumber: 2.0 Consensus size: 85
31472991 CCGCTTCATT
*
31473001 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGTTTAATTGTTTCAATCCACTTCAC
1 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGTTTAATTGTTTCAACCCACTTCAC
31473066 TATATCTTATCAGGAAGACA
66 TATATCTTATCAGGAAGACA
*
31473086 GATTTGGT-TCACTTCTCTGTATCTCATCAGGAAGATGACCAGTTT-ATTGCTTT-GACCCACTT
1 GATTTGGTCT-ACTTCTCTGTATCTCATCAGGAAGATGACC-GTTTAATTG-TTTCAACCCACTT
* *
31473148 CTCTGTATCTTATCAGGAAGA
63 CACTATATCTTATCAGGAAGA
31473169 TGGGGTTTGG
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
84 1 0.01
85 68 0.89
86 7 0.09
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGTTTAATTGTTTCAACCCACTTCAC
TATATCTTATCAGGAAGACA
Found at i:31473366 original size:210 final size:209
Alignment explanation
Indices: 31472678--31473603 Score: 1058
Period size: 210 Copynumber: 4.4 Consensus size: 209
31472668 TTTATCACTC
* * ** * *
31472678 GGTCTACTTCTCTGTATTTCATCAGGAAGATGACTGCTTCATTGCTTCGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
*** *
31472743 CTCATCAGGAAGATGGGGTTTGAAG-TT---TCACATTGAGCTTTGTTTTATTGATTTGGTCT-C
66 CTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTAC
* * * *
31472803 TTCTCTGTATCTCATCAGGAAGAGGACCGCCTCACTTGTTTTAATCCACTTCTCTATAGCTCATC
131 TTCTCTGTATCTCATCAGGAAGATGACCGCTTCACCTGTTTTAATCCACTTCTCTATATCTCATC
*
31472868 AAGAAGACGGATTT
196 AAGAAGACAGATTT
* * * * *
31472882 GATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
** * * * *
31472947 CTCATCAGGAAGATAAGGCTTGAGAGTTTCACTCTCATTGAGCTCCGCTTCATTGATTTGGTCTA
66 CTCATCAGGAAGATGGGGTTTGA-AGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTA
* ** * * *
31473012 CTTCTCTGTATCTCATCAGGAAGATGACCG-TTTAATTGTTTCAATCCACTTCACTATATCTTAT
130 CTTCTCTGTATCTCATCAGGAAGATGACCGCTTCACCTGTTTTAATCCACTTCTCTATATCTCAT
*
31473076 CAGGAAGACAGATTT
195 CAAGAAGACAGATTT
* *
31473091 GGTTCACTTCTCTGTATCTCATCAGGAAGATGACCAGTTTATTGCTTTGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
* * * * *
31473156 CTTATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAACTTTACTT-AGTTGAATTAGTCT
66 CTCATCAGGAAGATGGGGTTT-GAAGTTTCACTCACATTGAGCTTCACTTCA-TTGATTTGGTCT
* * ** * *
31473220 ACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCACCTATTTTAATCTGCTTCTTTGTATCTCA
129 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCACCTGTTTTAATCCACTTCTCTATATCTCA
*
31473285 TCAGGAAGACAGATTT
194 TCAAGAAGACAGATTT
* * * *
31473301 GGTCCACTTCTTTATATCTCATCAGGAAGACGACCACTTTATTTCTTTGACCCACTTCTCTGTAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
** * * * *
31473366 CTCATCAAAAAGATGGAGTATGGAAGTTTCACTCACACTGAGCTTCACTTCATCGATTTGGTCTA
66 CTCATCAGGAAGATGGGGT-TTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTA
* * * * ** * *
31473431 CTTCTCTGTATCTCATTAAGAAGATAACCGCATT-ACCTCTTTTAATCTGCTTCTTTGTATCTCA
130 CTTCTCTGTATCTCATCAGGAAGATGACCGC-TTCACCTGTTTTAATCCACTTCTCTATATCTCA
**
31473495 TCAAGAAGATGGATTT
194 TCAAGAAGACAGATTT
* * * ** * *
31473511 GGTCCACTTCTATGTATCCCATCAGAAAGATGGTCTCTTTATTGCTTTGACCCACTTCTCTATAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
* * *
31473576 CTCATTAGGAAGATGGAGCTTGAAGTTT
66 CTCATCAGGAAGATGGGGTTTGAAGTTT
31473604 TAATTTTTTC
Statistics
Matches: 615, Mismatches: 95, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
204 78 0.13
205 2 0.00
206 2 0.00
208 1 0.00
209 211 0.34
210 317 0.52
211 4 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
GGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTAT
CTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGATTTGGTCTAC
TTCTCTGTATCTCATCAGGAAGATGACCGCTTCACCTGTTTTAATCCACTTCTCTATATCTCATC
AAGAAGACAGATTT
Found at i:31473603 original size:419 final size:414
Alignment explanation
Indices: 31472678--31473604 Score: 1119
Period size: 419 Copynumber: 2.2 Consensus size: 414
31472668 TTTATCACTC
* * * *
31472678 GGTCTACTTCTCTGTATTTCATCAGGAAGAT-GACTGCTTCATTGCTTCGACCCACTTCTCTGTA
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGGACT-CTTTATTGCTTTGACCCACTTCTCTGTA
* ** * *
31472742 TCTCATCAGGAAGATGGGGTTTGAAG-TTTCACATTGAGCTTTGTTTTATTGATTTGGTCTCTTC
65 TCTCATCAGGAAGATGGGGTTTGAAGTTTTCACATTGAACTTTGACTTATTGAATTAGTCTCTTC
* *
31472806 TCTGTATCTCATCAGGAAGAGGACCGCCTCACTTGTTTTAATCCACTTCTCTATAGCTCATCAAG
130 TCTGTATCTCATCAGGAAGAGGACCGCCTCACCTATTTTAATCCACTTCTCTATAGCTCATCAAG
* * * *
31472871 AAGACGGATTTGATCCACTTCTCTGTATCTCATCAGGAAGACGATCGCTTTATTGCTTCGACCCA
195 AAGACAGATTTGATCCACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCCA
** * * * * * *
31472936 CTTCTCTGTATCTCATCAGGAAGATAAGGCTTGAGAGTTTCACTCTCATTGAGCTCCGCTTCATT
260 CTTCTCTGTATCTCATCAAAAAGATAAGGATGGAGAGTTTCACTCACACTGAGCTCCACTTCATC
* * * * *
31473001 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGTTTAATTGTTTCAATCCACTTCAC
325 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGATTAACTCTTTCAATCCACTTCAC
* *
31473066 TATATCTTATCAGGAAGACAGATTT
390 TATATCTCATCAAGAAGACAGATTT
*
31473091 GGTTCACTTCTCTGTATCTCATCAGGAAGAT-GAC-CAGTTTATTGCTTTGACCCACTTCTCTGT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGGACTC--TTTATTGCTTTGACCCACTTCTCTGT
*
31473154 ATCTTATCAGGAAGATGGGGTTTGGAAGTTTCACTCACATTGAACTTT-ACTTAGTTGAATTAGT
64 ATCTCATCAGGAAGATGGGGTTT-GAAGTTT---TCACATTGAACTTTGACTTA-TTGAATTAGT
* * * ** * * *
31473218 CTACTTCTCTGTATCTCATCAGGAAGATGATCGCTTCACCTATTTTAATCTGCTTCTTTGTATCT
124 CT-CTTCTCTGTATCTCATCAGGAAGAGGACCGCCTCACCTATTTTAATCCACTTCTCTATAGCT
* * * *
31473283 CATCAGGAAGACAGATTTGGTCCACTTCTTTATATCTCATCAGGAAGACGACCACTTTATTTCTT
188 CATCAAGAAGACAGATTTGATCCACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTT
* * * *
31473348 TGACCCACTTCTCTGTATCTCATCAAAAAGATGGAGTATGGA-AGTTTCACTCACACTGAGCTTC
253 CGACCCACTTCTCTGTATCTCATCAAAAAGAT-AAGGATGGAGAGTTTCACTCACACTGAGCTCC
* * *
31473412 ACTTCATCGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATAACCGCATTACCTCTTTTAAT
317 ACTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCG-ATTAACTCTTTCAAT
** ** * **
31473477 CTGCTTCTTTGTATCTCATCAAGAAGATGGATTT
381 CCACTTCACTATATCTCATCAAGAAGACAGATTT
* * * * *
31473511 GGTCCACTTCTATGTATCCCATCAGAAAGATGGTCTCTTTATTGCTTTGACCCACTTCTCTATAT
1 GGTCCACTTCTCTGTATCTCATCAGGAAGATGGACTCTTTATTGCTTTGACCCACTTCTCTGTAT
* * *
31473576 CTCATTAGGAAGATGGAGCTTGAAGTTTT
66 CTCATCAGGAAGATGGGGTTTGAAGTTTT
31473605 AATTTTTTCC
Statistics
Matches: 433, Mismatches: 68, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
411 1 0.00
413 77 0.18
414 4 0.01
415 2 0.00
416 1 0.00
417 3 0.01
418 23 0.05
419 208 0.48
420 111 0.26
421 2 0.00
422 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (414 bp):
GGTCCACTTCTCTGTATCTCATCAGGAAGATGGACTCTTTATTGCTTTGACCCACTTCTCTGTAT
CTCATCAGGAAGATGGGGTTTGAAGTTTTCACATTGAACTTTGACTTATTGAATTAGTCTCTTCT
CTGTATCTCATCAGGAAGAGGACCGCCTCACCTATTTTAATCCACTTCTCTATAGCTCATCAAGA
AGACAGATTTGATCCACTTCTCTATATCTCATCAGGAAGACGACCACTTTATTGCTTCGACCCAC
TTCTCTGTATCTCATCAAAAAGATAAGGATGGAGAGTTTCACTCACACTGAGCTCCACTTCATCG
ATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATAACCGATTAACTCTTTCAATCCACTTCACT
ATATCTCATCAAGAAGACAGATTT
Done.