Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 136 of 172
Found at i:44761952 original size:164 final size:164
Alignment explanation
Indices: 44761681--44762008 Score: 629
Period size: 164 Copynumber: 2.0 Consensus size: 164
44761671 TTTAATATTT
44761681 CCTCTCTCTTTTTACTTTGTTATTAGTTAATATAACATTCTTAGAAAATTCGTAAATAAATATAA
1 CCTCTCTCTTTTTACTTTGTTATTAGTTAATATAACATTCTTAGAAAATTCGTAAATAAATATAA
44761746 GAATAATTAATGATTATAAAAGTTGTGTTCTCATATCATATTAATAAAAGTTCATAAGTGTTAGA
66 GAATAATTAATGATTATAAAAGTTGTGTTCTCATATCATATTAATAAAAGTTCATAAGTGTTAGA
*
44761811 AAACACTCTAAAAATCATTAAAAGTGACTTTTTA
131 AAACACACTAAAAATCATTAAAAGTGACTTTTTA
44761845 CCTCTCTCTTTTTACTTTGTTATTAGTTAATATAACATTCTTAGAAAATTCGTAAATAAATATAA
1 CCTCTCTCTTTTTACTTTGTTATTAGTTAATATAACATTCTTAGAAAATTCGTAAATAAATATAA
*
44761910 GAATAATTAATGATTATAAAAGTTGTGTTCTCATATCATATTAATAAAGGTTCATAAGTGTTAGA
66 GAATAATTAATGATTATAAAAGTTGTGTTCTCATATCATATTAATAAAAGTTCATAAGTGTTAGA
*
44761975 AAACACACTATAAATCATTAAAAGTGACTTTTTA
131 AAACACACTAAAAATCATTAAAAGTGACTTTTTA
44762009 TAATTATAAT
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 161 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (164 bp):
CCTCTCTCTTTTTACTTTGTTATTAGTTAATATAACATTCTTAGAAAATTCGTAAATAAATATAA
GAATAATTAATGATTATAAAAGTTGTGTTCTCATATCATATTAATAAAAGTTCATAAGTGTTAGA
AAACACACTAAAAATCATTAAAAGTGACTTTTTA
Found at i:44763813 original size:20 final size:20
Alignment explanation
Indices: 44763785--44763823 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44763775 CCGTATATGT
44763785 AATTCGTTTT-TATGTAAAGA
1 AATTCGTTTTCTA-GTAAAGA
*
44763805 AATTTGTTTTCTAGTAAAG
1 AATTCGTTTTCTAGTAAAG
44763824 TTGTTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
AATTCGTTTTCTAGTAAAGA
Found at i:44772877 original size:3 final size:3
Alignment explanation
Indices: 44772869--44772920 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
44772859 AATGCATAAC
*
44772869 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44772917 ATA A
1 ATA A
44772921 CAACAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:44777694 original size:3 final size:3
Alignment explanation
Indices: 44777686--44777737 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
44777676 AATGCATAAC
*
44777686 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44777734 ATA A
1 ATA A
44777738 CAACAACAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:44782408 original size:30 final size:30
Alignment explanation
Indices: 44782373--44782429 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
44782363 TACAACCATG
44782373 ACACACGGACGTGTGGCCTACCCGTGTTTC
1 ACACACGGACGTGTGGCCTACCCGTGTTTC
** **
44782403 ACACACGGGTGTGTGGGTTACCCGTGT
1 ACACACGGACGTGTGGCCTACCCGTGT
44782430 GGAAGTGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACACGGACGTGTGGCCTACCCGTGTTTC
Found at i:44784212 original size:11 final size:11
Alignment explanation
Indices: 44784196--44784220 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44784186 TTATATATAC
44784196 TAATAAAATAA
1 TAATAAAATAA
44784207 TAATAAAATAA
1 TAATAAAATAA
44784218 TAA
1 TAA
44784221 AATATCATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:44785483 original size:43 final size:42
Alignment explanation
Indices: 44785378--44785483 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
44785368 AGATATTTAT
* *
44785378 GTGTAAGACCATGTCTGGGACATAGGCATCGTATCTGATTGC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGTATCTGATTAC
* * *
44785420 ATGTAAAACCCTGTCTGGGACAGAGGCATCG-ATACTGAATTAC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGTAT-CTG-ATTAC
*
44785463 GTGTAAGACCATGTCCGGGAC
1 GTGTAAGACCATGTCTGGGAC
44785484 GTCAACATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.04
42 30 0.57
43 21 0.40
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACAGAGGCATCGTATCTGATTAC
Found at i:44792555 original size:30 final size:30
Alignment explanation
Indices: 44792521--44792581 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44792511 TCCTTAACTC
44792521 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44792551 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44792581 A
1 A
44792582 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44793844 original size:44 final size:44
Alignment explanation
Indices: 44793780--44794178 Score: 345
Period size: 44 Copynumber: 8.9 Consensus size: 44
44793770 TGAAGAATTG
* * * *
44793780 TATCTCCTTGAAATTGCAGTGGAGTAGATTAAAGCCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * *
44793824 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCAAATAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCT
* * * * *
44793869 TATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * *
44793913 TATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTTACAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * * * *
44793957 TATCCCCCCTGAAGTT---GTGGAGTAGGTTAAAGTTCCAAATTT
1 TAT-CTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * *
44793999 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
* * * * * *
44794043 TATCTCCTTGAAGTTACAATGGAGCAAATTAAAGATAGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCT
* * * *
44794088 TATTTTCCTGAAGTTGAAGTGGAACAGATTAAAGCTGCAAACCGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT----A---CAAATCT
* *
44794139 TATCTTCCTGGAGTTGCAGTGGAGCAGATTAAAGCTACAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
44794179 GCCTAATCCC
Statistics
Matches: 286, Mismatches: 57, Indels: 24
0.78 0.16 0.07
Matches are distributed among these distances:
41 11 0.04
42 25 0.09
44 129 0.45
45 80 0.28
47 1 0.00
49 1 0.00
51 39 0.14
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCT
Found at i:44793919 original size:89 final size:84
Alignment explanation
Indices: 44793798--44794110 Score: 302
Period size: 89 Copynumber: 3.6 Consensus size: 84
44793788 TGAAATTGCA
* * * * *
44793798 GTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-C
*
44793863 AAATATTATCTCTCTGAAGTT
65 AAATCTTATCTC-CTGAAGTT
* * * *
44793884 GTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTT
1 GT-G--GAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
* *
44793949 ACAAACCTTATCCCCCCTGAAGTT
63 ACAAATCTTAT--CTCCTGAAGTT
* * * * *
44793973 GTGGAGTAGGTTAAAGTTCCAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
44794038 AATCTTATCTCCTTGAAGTT
66 AATCTTATCTCC-TGAAGTT
* * * * * * *
44794058 ACAATGGAGCAAATTAAAGATAGCGAATCTTATTTTCCTGAAGTTGAAGTGGA
1 ---GTGGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGAAGTTGCAGTGGA
44794111 ACAGATTAAA
Statistics
Matches: 183, Mismatches: 34, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
84 3 0.02
85 7 0.04
86 62 0.34
87 1 0.01
88 22 0.12
89 86 0.47
90 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (84 bp):
GTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
AATCTTATCTCCTGAAGTT
Found at i:44794014 original size:86 final size:85
Alignment explanation
Indices: 44793798--44794046 Score: 284
Period size: 86 Copynumber: 2.9 Consensus size: 85
44793788 TGAAATTGCA
* * * *
44793798 GTGGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGC
1 GTGGAGTAGATTAAAGTC-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-C
* * *
44793863 AAATATTAT-CTCTCTGAAGTT
64 AAATCTTATCCCCCCTGAAGTT
* ** * * *
44793884 GTAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGGAGTTGCAGTGGAGCAGGTTAAAGTT
1 GT-G--GAGTAGATTAAAG-TCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTT
*
44793949 ACAAACCTTATCCCCCCTGAAGTT
62 ACAAATCTTATCCCCCCTGAAGTT
* *
44793973 GTGGAGTAGGTTAAAGTTCCAAATTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 GTGGAGTAGATTAAAG-TCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
44794038 AATCTTATC
65 AATCTTATC
44794047 TCCTTGAAGT
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
86 63 0.47
87 1 0.01
88 9 0.07
89 61 0.46
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (85 bp):
GTGGAGTAGATTAAAGTCCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAA
ATCTTATCCCCCCTGAAGTT
Found at i:44795824 original size:4 final size:4
Alignment explanation
Indices: 44795815--44795859 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
44795805 CGCAAATTTC
* *
44795815 TTAT TTAT TTAT TTAT TTATT TTGT TTAG TTAT TTA- TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT T
44795860 AATTCTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
3 3 0.09
4 29 0.83
5 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:44795842 original size:21 final size:20
Alignment explanation
Indices: 44795818--44795856 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44795808 AAATTTCTTA
*
44795818 TTTATTTATTTATTTATTTTG
1 TTTAGTTATTTA-TTATTTTG
44795839 TTTAGTTATTTATTATTT
1 TTTAGTTATTTATTATTT
44795857 ATTAATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTAGTTATTTATTATTTTG
Found at i:44800335 original size:14 final size:14
Alignment explanation
Indices: 44800316--44800350 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
44800306 CGACCTTGAT
44800316 AGGTCCAAGGTGCA
1 AGGTCCAAGGTGCA
*
44800330 AGGTCCAAGGTTCA
1 AGGTCCAAGGTGCA
*
44800344 TGGTCCA
1 AGGTCCA
44800351 GGATCCAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.20
Consensus pattern (14 bp):
AGGTCCAAGGTGCA
Found at i:44810261 original size:10 final size:9
Alignment explanation
Indices: 44810220--44810270 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
44810210 TGGAATCAGG
44810220 TTTTATAATT
1 TTTTATAA-T
44810230 TTTAATATAAT
1 TTT--TATAAT
44810241 TTTTA-AAT
1 TTTTATAAT
44810249 TTTTATGAAT
1 TTTTAT-AAT
44810259 TTTTAATAAT
1 TTTT-ATAAT
44810269 TT
1 TT
44810271 ATTTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
8 8 0.22
9 2 0.06
10 15 0.42
11 6 0.17
12 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:44810269 original size:20 final size:21
Alignment explanation
Indices: 44810220--44810270 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
44810210 TGGAATCAGG
*
44810220 TTTTATAATTTTTAATATAAT
1 TTTTATAATTTTTAATAGAAT
44810241 TTTTA-AATTTTT-AT-GAAT
1 TTTTATAATTTTTAATAGAAT
44810259 TTTTAATAATTT
1 TTTT-ATAATTT
44810271 ATTTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.26
19 3 0.11
20 12 0.44
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATAATTTTTAATAGAAT
Found at i:44812396 original size:16 final size:17
Alignment explanation
Indices: 44812369--44812412 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
44812359 TATATTTAAT
*
44812369 TTTAGCTTTTATCTT-TA
1 TTTATCTTTTAT-TTGTA
44812386 TTTAT-TTTTATTTGTA
1 TTTATCTTTTATTTGTA
44812402 TTTATCTTTTA
1 TTTATCTTTTA
44812413 GAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 13 0.54
17 9 0.38
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (17 bp):
TTTATCTTTTATTTGTA
Found at i:44818352 original size:18 final size:19
Alignment explanation
Indices: 44818331--44818367 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
44818321 TTTCTTTGCT
44818331 TTTTTTCCTTTTG-AATAA
1 TTTTTTCCTTTTGTAATAA
*
44818349 TTTTTTTCTTTTGTAATAA
1 TTTTTTCCTTTTGTAATAA
44818368 CCATATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTTCCTTTTGTAATAA
Found at i:44818352 original size:19 final size:19
Alignment explanation
Indices: 44818330--44818367 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
44818320 TTTTCTTTGC
44818330 TTTTTTTCCTTTTG-AATAA
1 TTTTTTT-CTTTTGTAATAA
44818349 TTTTTTTCTTTTGTAATAA
1 TTTTTTTCTTTTGTAATAA
44818368 CCATATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTTTTCTTTTGTAATAA
Found at i:44819135 original size:31 final size:31
Alignment explanation
Indices: 44819100--44819176 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
44819090 AAGTCTATGA
* * *
44819100 TTGAATCAAAATTAAATTTTCATGTATATAT
1 TTGAATCAAAATCAAAGTTTAATGTATATAT
* *
44819131 TTGAATCACAATCAAAGTTTAATGTATATAA
1 TTGAATCAAAATCAAAGTTTAATGTATATAT
44819162 TT-ACATC-AAATCAAA
1 TTGA-ATCAAAATCAAA
44819177 ATTCACGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (31 bp):
TTGAATCAAAATCAAAGTTTAATGTATATAT
Found at i:44819186 original size:29 final size:29
Alignment explanation
Indices: 44819154--44819221 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 29
44819144 AAAGTTTAAT
44819154 GTATATAATT-ACATCAAATCAAAATTCA
1 GTATATAATTCACATCAAATCAAAATTCA
44819182 CGTATCA-AATTGCACATCAAATCAAAATTCA
1 -GTAT-ATAATT-CACATCAAATCAAAATTCA
44819213 -TATATAATT
1 GTATATAATT
44819222 TCGGTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 1 0.03
29 15 0.43
30 1 0.03
31 18 0.51
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.32
Consensus pattern (29 bp):
GTATATAATTCACATCAAATCAAAATTCA
Found at i:44823137 original size:11 final size:11
Alignment explanation
Indices: 44823121--44823145 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44823111 AATATTTTTC
44823121 AATAAATTAAA
1 AATAAATTAAA
44823132 AATAAATTAAA
1 AATAAATTAAA
44823143 AAT
1 AAT
44823146 TATACTTAAA
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:44829513 original size:27 final size:27
Alignment explanation
Indices: 44829479--44829532 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44829469 TTTATAAGGG
44829479 GATTGAGATTGAGTTATATATATTTTT
1 GATTGAGATTGAGTTATATATATTTTT
44829506 GATTGAGATTGAGTTATATATATTTTT
1 GATTGAGATTGAGTTATATATATTTTT
44829533 ATAAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (27 bp):
GATTGAGATTGAGTTATATATATTTTT
Found at i:44832667 original size:31 final size:30
Alignment explanation
Indices: 44832624--44832682 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
44832614 TAACAGTATT
*
44832624 TTTGGGTTAATATACAATTAGGTACCTATA
1 TTTGGCTTAATATACAATTAGGTACCTATA
* * *
44832654 TTTGGCTTCAATATTCAGTTTGGTACCTA
1 TTTGGCTT-AATATACAATTAGGTACCTA
44832683 AGTTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (30 bp):
TTTGGCTTAATATACAATTAGGTACCTATA
Found at i:44837489 original size:51 final size:51
Alignment explanation
Indices: 44837413--44837515 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
44837403 GATGCCCAAC
* *
44837413 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATGCAAGTTGTTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
** **
44837464 ATAAGTCCTTAATTGATAAAGTTGACGATGGATACAAGTTGCTTGATACCA
1 ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
44837515 A
1 A
44837516 GCATGATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (51 bp):
ATAAGTCCTTAAACGATAAAGTTGACGAAAGATACAAGTTGCTTGATACCA
Found at i:44840994 original size:31 final size:31
Alignment explanation
Indices: 44840939--44841016 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
44840929 TTTTCCTTAA
* *
44840939 TGGCTTGGATAAGCCTT--GATGCAATCGAGT
1 TGGCTT-GAGAAGCCTTGAGATGCAATCGAAT
* **
44840969 TGGCTTGAGTAGCCTTGAGATGCAATTTAAT
1 TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
44841000 TGGCTTGAGAAGCCTTG
1 TGGCTTGAGAAGCCTTG
44841017 TGGCAAATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 8 0.20
30 6 0.15
31 26 0.65
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.32
Consensus pattern (31 bp):
TGGCTTGAGAAGCCTTGAGATGCAATCGAAT
Found at i:44843305 original size:163 final size:165
Alignment explanation
Indices: 44843028--44843327 Score: 428
Period size: 163 Copynumber: 1.8 Consensus size: 165
44843018 TTTCTCATAA
* ** ** * *
44843028 TTGCATTAGTGTACAAGTTTGTTGCTTGTGGGGAGTTTTTAACATAATTATTTAGTTGTTGAAAT
1 TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATTATGTAGTTGTTGAAAA
* *
44843093 TGTGAGTAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGGCTG
66 TGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGACTG
44843158 AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
131 AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
*
44843193 TTGCATTAGTGTACAAATCAGTTGCTTGT-GGGAG-TCATAACATGCA-TATGTAGTTGTTGAAA
1 TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACAT-AATTATGTAGTTGTTGAAA
* * * *
44843255 ATGCTGAAT-ATTAGGCTTTTGAAGAATATTGACTTATGTTTCTTGATTTACTAATGTGTCTGAC
65 ATG-TGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGAC
44843319 TGAGAAATT
129 TGAGAAATT
44843328 GTTAACCAAA
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
163 83 0.70
164 10 0.08
165 26 0.22
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (165 bp):
TTGCATTAGTGTACAAATCAGTTGCTTGTGGGGAGTTCATAACATAATTATGTAGTTGTTGAAAA
TGTGAATAATTAGGCTTTTGAAGAAGATTGACTTATGTTTCTGGATTTACCAATGTATCTGACTG
AGAAATTCTCAACCGGAATCTGTTAACTCTCTTAG
Found at i:44848689 original size:39 final size:40
Alignment explanation
Indices: 44848628--44848703 Score: 145
Period size: 39 Copynumber: 1.9 Consensus size: 40
44848618 AAAGTGAAAC
44848628 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
1 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
44848668 TATAGTAAAAAACAG-AAAAGAATGTGCTTAGATAAG
1 TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAG
44848704 ACTTCATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
39 21 0.58
40 15 0.42
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAGTAAAAAACAGAAAAAGAATGTGCTTAGATAAGCCT
Found at i:44852075 original size:11 final size:12
Alignment explanation
Indices: 44852047--44852080 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
44852037 TTTTGAAACT
44852047 TTTTATATATTCA
1 TTTTA-ATATTCA
44852060 TTTTAATATT-A
1 TTTTAATATTCA
44852071 TTTTAATATT
1 TTTTAATATT
44852081 TACATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 5 0.24
13 5 0.24
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTAATATTCA
Found at i:44854909 original size:26 final size:26
Alignment explanation
Indices: 44854873--44854924 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44854863 CAGAACTGGT
44854873 GATCGATTCAACCAATATGTATTTAC
1 GATCGATTCAACCAATATGTATTTAC
44854899 GATCGATTCAACCAATATGTATTTAC
1 GATCGATTCAACCAATATGTATTTAC
44854925 AACTCAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (26 bp):
GATCGATTCAACCAATATGTATTTAC
Found at i:44856383 original size:35 final size:35
Alignment explanation
Indices: 44856343--44856412 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
44856333 TTACTTAAAA
44856343 GTTATAATTACTTTATTATTTATTTCTTAAATTTT
1 GTTATAATTACTTTATTATTTATTTCTTAAATTTT
44856378 GTTATAATTACTTTATTATTTATTTCTTAAATTTT
1 GTTATAATTACTTTATTATTTATTTCTTAAATTTT
44856413 TAAAGCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (35 bp):
GTTATAATTACTTTATTATTTATTTCTTAAATTTT
Found at i:44861237 original size:25 final size:21
Alignment explanation
Indices: 44861191--44861233 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44861181 ATCGCAAAAG
44861191 TATGAAAGAACATATATTTCC
1 TATGAAAGAACATATATTTCC
44861212 TATGAAAGAACATATATTTCC
1 TATGAAAGAACATATATTTCC
44861233 T
1 T
44861234 TCCTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (21 bp):
TATGAAAGAACATATATTTCC
Found at i:44862964 original size:14 final size:14
Alignment explanation
Indices: 44862941--44862970 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44862931 TTACGAGGGA
*
44862941 CATTGTCAAATAGT
1 CATTGCCAAATAGT
44862955 CATTGCCAAATAGT
1 CATTGCCAAATAGT
44862969 CA
1 CA
44862971 GTGCAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (14 bp):
CATTGCCAAATAGT
Found at i:44864491 original size:24 final size:24
Alignment explanation
Indices: 44864453--44864507 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
44864443 TATAATTATG
* * *
44864453 TTTTAAATATGATTTCTTTGCT-AT
1 TTTTAATTATAATTTATTTG-TAAT
44864477 TTTTAATTATAATTTATTTGTAAT
1 TTTTAATTATAATTTATTTGTAAT
44864501 TTTTAAT
1 TTTTAAT
44864508 GATGGTGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.29, C:0.04, G:0.05, T:0.62
Consensus pattern (24 bp):
TTTTAATTATAATTTATTTGTAAT
Found at i:44867306 original size:34 final size:33
Alignment explanation
Indices: 44867246--44867310 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
44867236 CAGTAAAATG
44867246 TTTTCCGGAAAATGATTTCTAAAAAATGATTTAC
1 TTTTCCGGAAAATGATTTCTAAAAAAT-ATTTAC
* *
44867280 TTTTCTGGAAAATGATTTACT-GAAAATATTT
1 TTTTCCGGAAAATGATTT-CTAAAAAATATTT
44867311 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (33 bp):
TTTTCCGGAAAATGATTTCTAAAAAATATTTAC
Found at i:44867440 original size:22 final size:23
Alignment explanation
Indices: 44867388--44867440 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
44867378 CGTAAAAGTT
44867388 ATTTTTAT-TACATATATTAATAA
1 ATTTTTATATACA-ATATTAATAA
44867411 A--TTTATATAC-ATATTAATAA
1 ATTTTTATATACAATATTAATAA
44867431 ATTTTTATAT
1 ATTTTTATAT
44867441 TTTAAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 11 0.41
21 5 0.19
22 10 0.37
23 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTTATATACAATATTAATAA
Found at i:44870296 original size:17 final size:17
Alignment explanation
Indices: 44870276--44870359 Score: 82
Period size: 17 Copynumber: 5.1 Consensus size: 17
44870266 ACATATTTTC
44870276 ACAGCTCACACATTACT
1 ACAGCTCACACATTACT
44870293 ACAGCTCACACATTAC-
1 ACAGCTCACACATTACT
* * * *
44870309 ACAACTCGCACATCATT
1 ACAGCTCACACATTACT
** *
44870326 GTAGCTCACACGTTAC-
1 ACAGCTCACACATTACT
*
44870342 ACAGCTCACACATCACT
1 ACAGCTCACACATTACT
44870359 A
1 A
44870360 TGACTCGCAA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
16 24 0.48
17 26 0.52
ACGTcount: A:0.35, C:0.36, G:0.08, T:0.21
Consensus pattern (17 bp):
ACAGCTCACACATTACT
Found at i:44870321 original size:33 final size:33
Alignment explanation
Indices: 44870275--44870359 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
44870265 CACATATTTT
*
44870275 CACAGCTCACACATTACTACAGCTCACACATTA
1 CACAGCTCACACATCACTACAGCTCACACATTA
* * * ** *
44870308 CACAACTCGCACATCATTGTAGCTCACACGTTA
1 CACAGCTCACACATCACTACAGCTCACACATTA
44870341 CACAGCTCACACATCACTA
1 CACAGCTCACACATCACTA
44870360 TGACTCGCAA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.34, C:0.36, G:0.08, T:0.21
Consensus pattern (33 bp):
CACAGCTCACACATCACTACAGCTCACACATTA
Found at i:44881326 original size:24 final size:24
Alignment explanation
Indices: 44881296--44881343 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44881286 GTAGTGAGTT
44881296 AAATTCAAAGTGATATTGAAGTAG
1 AAATTCAAAGTGATATTGAAGTAG
44881320 AAATTCAAAGTGATATTGAAGTAG
1 AAATTCAAAGTGATATTGAAGTAG
44881344 GATCTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATTCAAAGTGATATTGAAGTAG
Found at i:44885055 original size:24 final size:23
Alignment explanation
Indices: 44885023--44885175 Score: 80
Period size: 24 Copynumber: 6.4 Consensus size: 23
44885013 GCATTGTAAT
* *
44885023 GGGAAGCTCACACAGAGCCATTTC
1 GGGAAGCTCACAAAGAGCC-TATC
*
44885047 GGGAAGCTCATAAAGAGCCTATC
1 GGGAAGCTCACAAAGAGCCTATC
* * *
44885070 GGGAAGC-CTATC--CGGGCTATATAAC
1 GGGAAGCTC-A-CAAAGAGC-CTAT--C
* *
44885095 GGAAAGCTCA-TAAGAGCCATAATC
1 GGGAAGCTCACAAAGAGCC-T-ATC
* *
44885119 GGGAAGTTCACAAAGAACCTTATC
1 GGGAAGCTCACAAAGAGCC-TATC
* *
44885143 GGGAAGTTCACAAAGAACCATATC
1 GGGAAGCTCACAAAGAGCC-TATC
44885167 GGGAAGCTC
1 GGGAAGCTC
44885176 CGGATAGCCA
Statistics
Matches: 100, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
22 4 0.04
23 14 0.14
24 60 0.60
25 19 0.19
26 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (23 bp):
GGGAAGCTCACAAAGAGCCTATC
Found at i:44885358 original size:25 final size:24
Alignment explanation
Indices: 44885330--44885376 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
44885320 TCGGAACGCT
*
44885330 CTGAAGAACTATAACGGGAAGCTCG
1 CTGAACAA-TATAACGGGAAGCTCG
* *
44885355 CTGAACCATATAAGGGGAAGCT
1 CTGAACAATATAACGGGAAGCT
44885377 TGAGAGGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (24 bp):
CTGAACAATATAACGGGAAGCTCG
Found at i:44888608 original size:45 final size:45
Alignment explanation
Indices: 44888556--44888658 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 45
44888546 TAACAGTAAT
* ** * *
44888556 AGTAACAGTAACAATATTCAACATACAAAGTGTTGAATTGGTAAC
1 AGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAAC
* * *
44888601 GGTAACAGTAATAATATTCGACACACAAAGTGCCGAATCGATAAC
1 AGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAAC
44888646 AGTAACAGTAACA
1 AGTAACAGTAACA
44888659 GTAACAGTAA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.22
Consensus pattern (45 bp):
AGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCGATAAC
Found at i:44888611 original size:51 final size:51
Alignment explanation
Indices: 44888545--44888664 Score: 126
Period size: 45 Copynumber: 2.5 Consensus size: 51
44888535 ATCCGGAACA
* * ** *
44888545 GTAACAGTAATAGTAACAGTAACAATATTCAACATACAAAGTGTTGAATTG
1 GTAACAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
* *
44888596 GTAAC-G-----GTAACAGTAATAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
*
44888641 ATAACAGTAACAGTAACAGTAACA
1 GTAACAGTAACAGTAACAGTAACA
44888665 GTAACAGTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
45 37 0.67
46 1 0.02
50 1 0.02
51 16 0.29
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.23
Consensus pattern (51 bp):
GTAACAGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCGAATCG
Found at i:44888653 original size:6 final size:6
Alignment explanation
Indices: 44888642--44888673 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44888632 GCCGAATCGA
44888642 TAACAG TAACAG TAACAG TAACAG TAACAG TA
1 TAACAG TAACAG TAACAG TAACAG TAACAG TA
44888674 TGGCACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
TAACAG
Found at i:44892180 original size:14 final size:14
Alignment explanation
Indices: 44892161--44892191 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44892151 AATAATGAGT
44892161 AAGTTATGAAATTG
1 AAGTTATGAAATTG
44892175 AAGTTATGAAATTG
1 AAGTTATGAAATTG
44892189 AAG
1 AAG
44892192 CTTAATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (14 bp):
AAGTTATGAAATTG
Found at i:44895293 original size:23 final size:23
Alignment explanation
Indices: 44895267--44895364 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
44895257 ATAAGTGCCA
44895267 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
44895290 CACTGATATGTAGCCGAAGCTAA
1 CACTGATATGTAGCCGAAGCTAC
* *
44895313 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
44895335 CACTGAAATGTAACCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
44895358 CACTGAT
1 CACTGAT
44895365 CAATAACACT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
22 19 0.29
23 47 0.71
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:44895332 original size:45 final size:45
Alignment explanation
Indices: 44895274--44895362 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
44895264 CCACACTGAT
* * *
44895274 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAACACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAACCGAAGCTAACACTGG
*
44895319 ATGTAGCCAAAGCTACCACTGAAATGTAACCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAACCGAAGCTAACACTG
44895363 ATCAATAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAACCGAAGCTAACACTGG
Found at i:44898577 original size:23 final size:23
Alignment explanation
Indices: 44898523--44898576 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
44898513 AAGAGTAAGA
44898523 TTCAAAAATCTTTTCCAACCATT
1 TTCAAAAATCTTTTCCAACCATT
*
44898546 TTCAAAAATCTTTTCCAATCATT
1 TTCAAAAATCTTTTCCAACCATT
44898569 TATCAAAA
1 T-TCAAAA
44898577 TACCAAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (23 bp):
TTCAAAAATCTTTTCCAACCATT
Found at i:44901695 original size:24 final size:24
Alignment explanation
Indices: 44901668--44901736 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
44901658 AGATTTATTC
44901668 ATTATATAAATATCT-TATAATATA
1 ATTA-ATAAATATCTATATAATATA
* * **
44901692 ATTAATTAATATATATATTTTATA
1 ATTAATAAATATCTATATAATATA
*
44901716 AATAATAAATATCTAT-TAATA
1 ATTAATAAATATCTATATAATA
44901737 ATTAAATACA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 11 0.31
24 24 0.69
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAATAAATATCTATATAATATA
Found at i:44902229 original size:20 final size:20
Alignment explanation
Indices: 44902183--44902230 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
44902173 AGTCTTTTTT
*
44902183 CCTAATTACTCTTAATTAAG
1 CCTAATTACACTTAATTAAG
44902203 -CTAAATT-CACTTAATTAAAG
1 CCT-AATTACACTTAATT-AAG
44902223 CCTAATTA
1 CCTAATTA
44902231 ACCACTCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.40, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAG
Found at i:44903649 original size:69 final size:69
Alignment explanation
Indices: 44903538--44903675 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
44903528 TAGTGTCACC
44903538 ATGCCGCATCCAAAGAATCTTAACTTGTTGTTTCCAAAACACCTCTTCTTCAAAGGCGAATCTAA
1 ATGCCGCATCCAAAGAATCTTAACTTGTTGTTTCCAAAACACCTCTTCTTCAAAGGCGAATCTAA
44903603 GGGG
66 GGGG
44903607 ATGCCGCATCCAAAGAATCTTAACTTGTTGTTTCCAAAACACCTCTTCTTCAAAGGCGAATCTAA
1 ATGCCGCATCCAAAGAATCTTAACTTGTTGTTTCCAAAACACCTCTTCTTCAAAGGCGAATCTAA
44903672 GGGG
66 GGGG
44903676 GCGGCAGGGG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (69 bp):
ATGCCGCATCCAAAGAATCTTAACTTGTTGTTTCCAAAACACCTCTTCTTCAAAGGCGAATCTAA
GGGG
Found at i:44904603 original size:14 final size:14
Alignment explanation
Indices: 44904579--44904618 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
44904569 TATTTAAATA
*
44904579 AATAATGTTATTTT
1 AATAATATTATTTT
*
44904593 AATATTATTATTTT
1 AATAATATTATTTT
44904607 AATAATATTATT
1 AATAATATTATT
44904619 ATTTAAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
AATAATATTATTTT
Found at i:44904839 original size:23 final size:23
Alignment explanation
Indices: 44904813--44904882 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
44904803 GAGGGAAGTT
44904813 AAAGTAGTATATATATGTTCACG
1 AAAGTAGTATATATATGTTCACG
* *
44904836 AAAG--GCTATAGTA-A--TTGAGG
1 AAAGTAG-TATA-TATATGTTCACG
*
44904856 GAAGTAGTATATATATGTTCACG
1 AAAGTAGTATATATATGTTCACG
44904879 AAAG
1 AAAG
44904883 GCTATAGGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 9 0.26
21 6 0.18
22 6 0.18
23 13 0.38
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAGTAGTATATATATGTTCACG
Found at i:44909983 original size:222 final size:220
Alignment explanation
Indices: 44909244--44910032 Score: 695
Period size: 222 Copynumber: 3.5 Consensus size: 220
44909234 ACATGATCAG
* *
44909244 TTTTTCTTTGCCTATATCTGGATATATAACTCTATTTGAGCCATGCTTATTACTATCGAATACTG
1 TTTTTCTTTGCATATATCTGG--ATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTG
* * * ** * * * *
44909309 TTGTT-CAGGATAGCTTAATGGGTGATATTTCTGTTTTCGGTATGATTTTTCCATACAATGGTTT
64 TTGTTCCGGGA-AGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTT
* * * *
44909373 TGGTATTAGCCCTGTGGCTATTATTGTATCGAAGTTTCCGATATGCTCTTTCTTTTGGGAATTCT
128 TGGTATTAACCC--T-G---TTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGG-A--CT
*
44909438 TTTTTATGGTCATATGATATAATGATCTTTGGTTTCA
184 TTTTTATGGTTATATGATATAATGATCTTTGGTTTCA
* * ** * *
44909475 TTTTTTCTTTGCATATATCTGGACATAACTCTCTTTGAGCCATGCTTACCACGATCAAATACAGT
1 -TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
* * ***
44909540 TGTTCGGGGTAGCTTAATAGATGATATTTCTGTTTTTTGGTACGGTTTTGCCATGCAA------T
65 TGTTCCGGGAAGCTTAATAGATGATATTTCTG-TTTTCCATACGGTTTTGCCATGCAATGGTTTT
* * * * *
44909599 GGTATTAACTCTGTTATTGCATCT-AAGCTGCTGATATGCTCTTTCTTTCGGGACTTTTTTTTTT
129 GGTATTAACCCTGTTATTGCAT-TGAAGCTTCCGATATGCTCTTTCTTTTGGGAC---TTTTTTA
* * *
44909663 TGGTTATATTATATAATGATCTTTGGATTCG
190 TGGTTATATGATATAATGATCTTTGGTTTCA
* * * * *
44909694 TTTTTCTTTGCAGAT-TGCTGGATATAACTCTATTAGAGCCTTGCTTATTACTATAAAATATTGT
1 TTTTTCTTTGCATATAT-CTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGT
** * * *
44909758 TGTTTGGGGAAGCTTAATTGATGATCTTTTTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTG
65 TGTTCCGGGAAGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTG
* * *
44909823 GTATTAACCCTGTTACTGCATTGAAGCTTCCAATATGCTCTTTCTTTTAGGACTTTTTTATGGTT
130 GTATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGTT
*
44909888 GACTATGATATAATGATCTATGGGCTTTC-
195 -A-TATGATATAATGATCT-TTGG-TTTCA
* * * * * * **
44909917 TTTTT-TATGCCTATATCTAGATATTACTCTATTTGAGCTATTCTTATTA-TGATCAAATTTTGT
1 TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACT-ATCAAATACTGT
* * * * * *
44909980 TGTTCCTGGTAGCTTAATCA-ATGATTTTTGTGTTTTCCATATGGTTTTTCCAT
65 TGTTCCGGGAAGCTTAAT-AGATGATATTTCTGTTTTCCATACGGTTTTGCCAT
44910033 TATACTTGCT
Statistics
Matches: 455, Mismatches: 81, Indels: 52
0.77 0.14 0.09
Matches are distributed among these distances:
216 1 0.00
217 23 0.05
218 79 0.17
219 65 0.14
220 11 0.02
221 2 0.00
222 103 0.23
223 56 0.12
224 3 0.01
225 10 0.02
230 60 0.13
231 22 0.05
232 20 0.04
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.46
Consensus pattern (220 bp):
TTTTTCTTTGCATATATCTGGATATAACTCTATTTGAGCCATGCTTATTACTATCAAATACTGTT
GTTCCGGGAAGCTTAATAGATGATATTTCTGTTTTCCATACGGTTTTGCCATGCAATGGTTTTGG
TATTAACCCTGTTATTGCATTGAAGCTTCCGATATGCTCTTTCTTTTGGGACTTTTTTATGGTTA
TATGATATAATGATCTTTGGTTTCA
Found at i:44912377 original size:18 final size:19
Alignment explanation
Indices: 44912356--44912399 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
44912346 TAAAAAATTC
*
44912356 AAATTTTTA-TTTTGATAG
1 AAATTTTTATTTTTAATAG
*
44912374 AAA-TTTTATTTTTAATAT
1 AAATTTTTATTTTTAATAG
44912392 AAATTTTT
1 AAATTTTT
44912400 CATATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AAATTTTTATTTTTAATAG
Found at i:44912816 original size:22 final size:23
Alignment explanation
Indices: 44912769--44912816 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
44912759 TGGACACCTT
*
44912769 AAATAACTTCAATTTTCCATTAAAA
1 AAATAACTACAATTTT-C-TTAAAA
44912794 AAATAACTACAATTTT-TTAAAA
1 AAATAACTACAATTTTCTTAAAA
44912816 A
1 A
44912817 GAATTCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
25 15 0.68
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (23 bp):
AAATAACTACAATTTTCTTAAAA
Found at i:44925090 original size:40 final size:40
Alignment explanation
Indices: 44925035--44925116 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
44925025 CTGAAAAATG
*
44925035 ATTGTTTTTCTCTTATTCATGCTTGATTATAGGTTGTACA
1 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
44925075 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
1 ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
44925115 AT
1 AT
44925117 GGGGTTGGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (40 bp):
ATTGTTTTTCTCTTATTAATGCTTGATTATAGGTTGTACA
Found at i:44928202 original size:26 final size:28
Alignment explanation
Indices: 44928146--44928202 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
44928136 TTTTAAAAAA
* *
44928146 TATATATGTTATAAAATAATGTGTATTT
1 TATATATGTTATAAAATAAAGTGTATAT
44928174 TATA-ATGTTATAACAA-AAAGT-TATAT
1 TATATATGTTATAA-AATAAAGTGTATAT
44928200 TAT
1 TAT
44928203 TTAAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (28 bp):
TATATATGTTATAAAATAAAGTGTATAT
Found at i:44930495 original size:3 final size:3
Alignment explanation
Indices: 44930487--44930511 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44930477 ACTATTTAGT
44930487 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
44930512 AAAACAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:44938755 original size:15 final size:15
Alignment explanation
Indices: 44938735--44938764 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44938725 ATTGATGGCT
*
44938735 AATATTTTTCTGAAA
1 AATATTTGTCTGAAA
44938750 AATATTTGTCTGAAA
1 AATATTTGTCTGAAA
44938765 TTCTGCTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (15 bp):
AATATTTGTCTGAAA
Found at i:44941565 original size:33 final size:33
Alignment explanation
Indices: 44941528--44941591 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
44941518 GGAACGGAGG
44941528 TATCTCCTCTGTTTTATTGCTCATGGATATTAA
1 TATCTCCTCTGTTTTATTGCTCATGGATATTAA
* *
44941561 TATCTTCTCTGTTTTATTGTTCATGGATATT
1 TATCTCCTCTGTTTTATTGCTCATGGATATT
44941592 TAAGATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (33 bp):
TATCTCCTCTGTTTTATTGCTCATGGATATTAA
Found at i:44942070 original size:21 final size:22
Alignment explanation
Indices: 44942045--44942092 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
44942035 GATTTAAACA
44942045 AAAATTT-ATATTTATATAAT-T
1 AAAATTTCATATTT-TATAATAT
*
44942066 AAAATTTCATATTTTGTAATAT
1 AAAATTTCATATTTTATAATAT
44942088 AAAAT
1 AAAAT
44942093 ATTAATTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTTCATATTTTATAATAT
Found at i:44946667 original size:16 final size:16
Alignment explanation
Indices: 44946607--44946666 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 16
44946597 TATGTTGTAT
44946607 TATTATATTTTAATATTA
1 TATTATATTTT-ATA-TA
44946625 TATTATATATTTATATA
1 TATTATAT-TTTATATA
*
44946642 TACATATATCTTTTATATA
1 T--AT-TATATTTTATATA
44946661 TATTAT
1 TATTAT
44946667 CATGTATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 3 0.08
17 5 0.14
18 11 0.30
19 14 0.38
20 4 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATATTTTATATA
Found at i:44946738 original size:63 final size:63
Alignment explanation
Indices: 44946606--44946740 Score: 147
Period size: 63 Copynumber: 2.2 Consensus size: 63
44946596 TTATGTTGTA
* *
44946606 TTAT-TATATTTTAATATTATATTATATATTTATATATACATATATCTTTTATATATATTATC
1 TTATATATATTTTAATATTATATTATATATCTATATATACATATATCTTCTATATATATTATC
* *
44946668 ATGTATATATTTTAATATTATCAGTTATATATCT-T-TATACTATATGATC-TCTA-ATACTATT
1 TTATATATATTTTAATATTAT-A-TTATATATCTATATATAC-ATAT-ATCTTCTATATA-TATT
44946729 AT-
61 ATC
44946731 TTATATATAT
1 TTATATATAT
44946741 ATGTGTATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
62 2 0.03
63 32 0.52
64 15 0.25
65 12 0.20
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (63 bp):
TTATATATATTTTAATATTATATTATATATCTATATATACATATATCTTCTATATATATTATC
Found at i:44952245 original size:25 final size:25
Alignment explanation
Indices: 44952203--44952296 Score: 59
Period size: 25 Copynumber: 3.7 Consensus size: 25
44952193 TTCTCTTCAC
* * *
44952203 TTTTTTTCCAACTAATAAGAATGCA
1 TTTTTTTTCAATTAATAAGAATGAA
* *
44952228 TTTTTTTTCAATTTATAACG-ATTAA
1 TTTTTTTTCAATTAATAA-GAATGAA
* *
44952253 TATTGTAGTTT-AA-TAATAAGAATGTA
1 T-TT-T-TTTTCAATTAATAAGAATGAA
*
44952279 TTTTTTTTCAATTTATAA
1 TTTTTTTTCAATTAATAA
44952297 CGATTAATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 14
0.67 0.14 0.18
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 27 0.53
26 12 0.24
27 3 0.06
28 3 0.06
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (25 bp):
TTTTTTTTCAATTAATAAGAATGAA
Found at i:44952328 original size:48 final size:51
Alignment explanation
Indices: 44952215--44952320 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
44952205 TTTTTCCAAC
*
44952215 TAATAAGAATGCATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
44952266 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
1 TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
44952317 TAAT
1 TAAT
44952321 TGAGTATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (51 bp):
TAATAAGAATGTATTTTTTTTCAATTTATAACGATTAATATTGTAGTTTAA
Found at i:44952553 original size:34 final size:35
Alignment explanation
Indices: 44952487--44952553 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
44952477 CAAACACCAG
* *
44952487 AAAATATTTTTCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
*
44952522 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTTCAGTAAATCATTTTACAGAAAA
44952554 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
Found at i:44952883 original size:2 final size:2
Alignment explanation
Indices: 44952876--44952909 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
44952866 GAGTTTTTCT
*
44952876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44952910 ATTAGTAATT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:44955700 original size:31 final size:31
Alignment explanation
Indices: 44955641--44955701 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
44955631 AATTATACAA
* *
44955641 ATAAAAATTTAATTGTGGTTTAAATGTATAG
1 ATAAAAATTTAATTGTGATTCAAATGTATAG
* * *
44955672 ATAAAACTTTAATTTTGATTCAATTGTATA
1 ATAAAAATTTAATTGTGATTCAAATGTATA
44955702 CATTTAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.44
Consensus pattern (31 bp):
ATAAAAATTTAATTGTGATTCAAATGTATAG
Found at i:44955863 original size:30 final size:30
Alignment explanation
Indices: 44955828--44955901 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
44955818 AAAATTAAAT
44955828 TAAATCAAAATTTCATATATAAAATTACACA
1 TAAATCAAAATTT-ATATATAAAATTACACA
* * * *
44955859 -AAATCAAACTTTTTGTATAACATTACACA
1 TAAATCAAAATTTATATATAAAATTACACA
*
44955888 TTAAATAAAAATTT
1 -TAAATCAAAATTT
44955902 TTGCGCTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 14 0.40
30 11 0.31
31 10 0.29
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.35
Consensus pattern (30 bp):
TAAATCAAAATTTATATATAAAATTACACA
Found at i:44958480 original size:21 final size:21
Alignment explanation
Indices: 44958451--44958497 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
44958441 ATTTTTACAT
* *
44958451 TTTTTACCTTATGCAATTATA
1 TTTTGACCTAATGCAATTATA
*
44958472 TTTTGACCTAATGGAATTATA
1 TTTTGACCTAATGCAATTATA
44958493 TTTTG
1 TTTTG
44958498 TCTTGTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (21 bp):
TTTTGACCTAATGCAATTATA
Found at i:44966495 original size:31 final size:31
Alignment explanation
Indices: 44966437--44966495 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
44966427 GGTGCAATTA
*
44966437 TATACGTGAAACTCTAATTGCAGTTTAAATG
1 TATACGTGAAACTCTAATTGCAATTTAAATG
* * **
44966468 TATACTTGAAACTTTAATTTTAATTTAA
1 TATACGTGAAACTCTAATTGCAATTTAA
44966496 CCATATACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
TATACGTGAAACTCTAATTGCAATTTAAATG
Found at i:44970971 original size:38 final size:36
Alignment explanation
Indices: 44970912--44970994 Score: 96
Period size: 38 Copynumber: 2.3 Consensus size: 36
44970902 AAATACATTC
*
44970912 TAAAATTA-TAAAAATTATAAAAAAATCAAAATTTA
1 TAAAATTATTAAAAATTATAAAAAAATAAAAATTTA
* * *
44970947 TGAAATTATTATAAATTAATTAAAAACATAAAAATTTA
1 TAAAATTATTAAAAATT-A-TAAAAAAATAAAAATTTA
*
44970985 TAAAAATATT
1 TAAAATTATT
44970995 TATTTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
35 7 0.18
36 7 0.18
37 1 0.03
38 24 0.62
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (36 bp):
TAAAATTATTAAAAATTATAAAAAAATAAAAATTTA
Found at i:44973733 original size:44 final size:44
Alignment explanation
Indices: 44973685--44973907 Score: 138
Period size: 44 Copynumber: 5.1 Consensus size: 44
44973675 ACAAATCTAT
* * *
44973685 TCTCCCTAAAATGGCACTGGAGAGGCTCGAAGCCAGCATTCGTA
1 TCTCCCTGAAATGCCACTGGAGAGGCTCGAAGCCACCATTCGTA
* * * * *
44973729 TCTCCTTGAAGTTCCAGC-GGAGTA-GATCGAAGCTACCAATCTC-T-
1 TCTCCCTGAAATGCCA-CTGGAG-AGGCTCGAAGCCACC-AT-TCGTA
* *
44973773 TCTCCCTGAAATGACACTAGAGAGGCTCGAAGCCACCATTCGTA
1 TCTCCCTGAAATGCCACTGGAGAGGCTCGAAGCCACCATTCGTA
** * * * *
44973817 TCTCTTTGAAGTTCCAGC-GGAGTA-GATCGAAGCTACCAATCTC-T-
1 TCTCCCTGAAATGCCA-CTGGAG-AGGCTCGAAGCCACC-AT-TCGTA
* * * *
44973861 TCTCCCTAAAATGGCACTGGAAAGGCTTGAAGCCACCATTCGTA
1 TCTCCCTGAAATGCCACTGGAGAGGCTCGAAGCCACCATTCGTA
44973905 TCT
1 TCT
44973908 TCTTGAAGTT
Statistics
Matches: 130, Mismatches: 33, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.03
43 10 0.08
44 102 0.78
45 10 0.08
46 4 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (44 bp):
TCTCCCTGAAATGCCACTGGAGAGGCTCGAAGCCACCATTCGTA
Found at i:44973762 original size:88 final size:88
Alignment explanation
Indices: 44973572--44973969 Score: 518
Period size: 88 Copynumber: 4.6 Consensus size: 88
44973562 TCTCCTTCAA
* * ** ** **
44973572 CGGAGTAGATTGAGGCTATAAATCTCTTCTCCCTGAAATGGCGTTAAAGCA-GCTCGAAGCCA-C
1 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAG-AGGCTCGAAGCCACC
*
44973635 A-GCAG-ATCTCCTTGAAGTTCCAG
65 ATTC-GTATCTCCTTGAAGTTCCAG
** * * * * *
44973658 TAGAGTAAATCGAAGCTACAAATCTATTCTCCCTAAAATGGCACTGGAGAGGCTCGAAGCCAGCA
1 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCA
44973723 TTCGTATCTCCTTGAAGTTCCAG
66 TTCGTATCTCCTTGAAGTTCCAG
* *
44973746 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGACACTAGAGAGGCTCGAAGCCACCA
1 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCA
*
44973811 TTCGTATCTCTTTGAAGTTCCAG
66 TTCGTATCTCCTTGAAGTTCCAG
* * *
44973834 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTAAAATGGCACTGGAAAGGCTTGAAGCCACCA
1 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCA
* *
44973899 TTCGTATCTTCTTGAAGTT-TAG
66 TTCGTATCTCCTTGAAGTTCCAG
*
44973921 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCATTGGAG
1 CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAG
44973970 CGATCAAAAT
Statistics
Matches: 274, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
85 1 0.00
86 48 0.18
87 51 0.19
88 174 0.64
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (88 bp):
CGGAGTAGATCGAAGCTACCAATCTCTTCTCCCTGAAATGGCACTGGAGAGGCTCGAAGCCACCA
TTCGTATCTCCTTGAAGTTCCAG
Found at i:44975887 original size:18 final size:16
Alignment explanation
Indices: 44975864--44975906 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
44975854 TGTCATTATT
*
44975864 CTTATTTTTTTCTCGTTG
1 CTTATTTTTTTCT--TTA
*
44975882 CTTATTTATTTCTTTA
1 CTTATTTTTTTCTTTA
44975898 CTTATTTTT
1 CTTATTTTT
44975907 ATACCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 10 0.45
18 12 0.55
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.70
Consensus pattern (16 bp):
CTTATTTTTTTCTTTA
Found at i:44975992 original size:21 final size:21
Alignment explanation
Indices: 44975966--44976180 Score: 68
Period size: 21 Copynumber: 9.8 Consensus size: 21
44975956 TTTTAATCAT
44975966 TTATTATTACTATTACTTTTA
1 TTATTATTACTATTACTTTTA
* * *
44975987 TTATTATTACTGTTTCTATTA
1 TTATTATTACTATTACTTTTA
* * *
44976008 TTGTT-TTTCTATTATTATTTA
1 TTATTATTACTATTACT-TTTA
*
44976029 TGTTATTGTTGGCACTATT-C-TTTA
1 --TTATTATT---ACTATTACTTTTA
* *
44976053 TT-TTATTATTATTATTTTTTA
1 TTATTATTACTATTA-CTTTTA
44976074 TTATT-TTA-TCATTACTTTCTA
1 TTATTATTACT-ATTACTTT-TA
* * * *
44976095 TTATTGTTATTATTAATATACTA
1 TTATTATTACTATTACT-T-TTA
*
44976118 TTATTATT-CTTATTAACCTATTA
1 TTATTATTAC-TATT-A-CTTTTA
* *
44976141 TTATTATTATTATTTTCTACTTTA
1 TTATTATTACTA-TTACT--TTTA
*
44976165 TTATTA-TATTATTACT
1 TTATTATTACTATTACT
44976181 ATTGCTATCA
Statistics
Matches: 143, Mismatches: 27, Indels: 47
0.66 0.12 0.22
Matches are distributed among these distances:
18 5 0.03
20 11 0.08
21 49 0.34
22 18 0.13
23 36 0.25
24 18 0.13
25 1 0.01
27 5 0.03
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (21 bp):
TTATTATTACTATTACTTTTA
Found at i:44976063 original size:3 final size:3
Alignment explanation
Indices: 44976050--44976183 Score: 86
Period size: 3 Copynumber: 45.7 Consensus size: 3
44976040 GCACTATTCT
*
44976050 TTA TT- TTA TTA TTA TTA TT- TT- TTA TTA TT- TTA TCA TTA CTT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * * *
44976091 TCTA TTA TTG TTA TTA TTA ATA -TA CTA TTA TTA TTC TTA TTAA CCTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * *
44976138 TTA TTA TTA TTA TTA TTT TCTA CT- TTA TTA TTA -TA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
44976182 TT
1 TT
44976184 GCTATCATCA
Statistics
Matches: 103, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
2 14 0.14
3 82 0.80
4 6 0.06
5 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:44976074 original size:16 final size:15
Alignment explanation
Indices: 44976053--44976082 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44976043 CTATTCTTTA
44976053 TTTTATTATTATTATT
1 TTTTATTATT-TTATT
44976069 TTTTATTATTTTAT
1 TTTTATTATTTTAT
44976083 CATTACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTTTATT
Found at i:44976076 original size:13 final size:14
Alignment explanation
Indices: 44976050--44976183 Score: 71
Period size: 14 Copynumber: 9.4 Consensus size: 14
44976040 GCACTATTCT
44976050 TTATTTTATTATTA
1 TTATTTTATTATTA
44976064 TTATTTT-TTATTA
1 TTATTTTATTATTA
*
44976077 TT-TTATCATTACTT-
1 TTATT-TTATTA-TTA
*
44976091 TCTATTATTGTTATTA
1 T-TATT-TTATTATTA
* * *
44976107 TTAATATACTATTA
1 TTATTTTATTATTA
*
44976121 TTATTCTTATTAACCTA
1 TTATT-TTATT-A-TTA
44976138 TTATTATTATTATTA
1 TTATT-TTATTATTA
* *
44976153 TT-TTCTACT-TTA
1 TTATTTTATTATTA
*
44976165 TTATTATATTATTA
1 TTATTTTATTATTA
*
44976179 CTATT
1 TTATT
44976184 GCTATCATCA
Statistics
Matches: 91, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 7 0.08
13 17 0.19
14 30 0.33
15 15 0.16
16 10 0.11
17 12 0.13
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:44976122 original size:23 final size:23
Alignment explanation
Indices: 44976092--44976175 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 23
44976082 TCATTACTTT
* *
44976092 CTATTATTGTTATTATTAATATA
1 CTATTATTATTATTATTAACATA
* *
44976115 CTATTATTATTCTTATTAACCTA
1 CTATTATTATTATTATTAACATA
* **
44976138 TTATTATTATTATTATTTTC-TA
1 CTATTATTATTATTATTAACATA
44976160 CT-TTATTATTA-TATTA
1 CTATTATTATTATTATTA
44976176 TTACTATTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
20 4 0.08
21 9 0.18
22 3 0.06
23 35 0.69
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (23 bp):
CTATTATTATTATTATTAACATA
Found at i:44976150 original size:20 final size:20
Alignment explanation
Indices: 44976056--44976153 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
44976046 TTCTTTATTT
* *
44976056 TATTATTATTATT-TTTTAT
1 TATTATTATTATTATTATAC
* * *
44976075 TATT-TTATCATTACTTTCTAT
1 TATTATTATTATTA--TTATAC
* *
44976096 TATTGTTATTATTAATATAC
1 TATTATTATTATTATTATAC
*
44976116 TATTATTATTCTTATTA-ACC
1 TATTATTATTATTATTATA-C
44976136 TATTATTATTATTATTAT
1 TATTATTATTATTATTAT
44976154 TTTCTACTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.11
19 5 0.08
20 34 0.54
21 9 0.14
22 8 0.13
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTATTATTATTATTATAC
Found at i:44976384 original size:26 final size:26
Alignment explanation
Indices: 44976327--44976422 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 26
44976317 ATTATTATCA
*
44976327 ATTTTAAA-TATTTTACATATGTTATTT
1 ATTTTAAATTATTATACATA--TTATTT
* *
44976354 CTTTTAAATTATTATACGTATTATTT
1 ATTTTAAATTATTATACATATTATTT
* * *
44976380 ATTTTGAAATTTTTATATACATCTT-TGT
1 ATTTT-AAA-TTAT-TATACATATTATTT
44976408 ATTTTAAATTATTAT
1 ATTTTAAATTATTAT
44976423 GTATATATAC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
25 3 0.05
26 13 0.23
27 13 0.23
28 19 0.34
29 8 0.14
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTTAAATTATTATACATATTATTT
Found at i:44978633 original size:15 final size:15
Alignment explanation
Indices: 44978609--44978638 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44978599 ATAGTTTCCC
*
44978609 TTTATTTTATTTTTA
1 TTTATGTTATTTTTA
44978624 TTTATGTTATTTTTA
1 TTTATGTTATTTTTA
44978639 ATAATTAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTATGTTATTTTTA
Found at i:44978875 original size:18 final size:19
Alignment explanation
Indices: 44978854--44978897 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
44978844 TAATTTTATA
44978854 ATTTATTTTAAT-TAAAAT
1 ATTTATTTTAATATAAAAT
* *
44978872 ATTTATTATAATATAAATT
1 ATTTATTTTAATATAAAAT
44978891 A-TTATTT
1 ATTTATTT
44978898 ATATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATTTTAATATAAAAT
Found at i:44978904 original size:6 final size:6
Alignment explanation
Indices: 44978893--44978946 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
44978883 TATAAATTAT
***
44978893 TATTTA TATTTA TATTTA TATTTA TATTT- T-TTTA -ACAAA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
44978938 TATTTA TAT
1 TATTTA TAT
44978947 AAAAGAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 2 0.05
6 34 0.87
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (6 bp):
TATTTA
Found at i:44979151 original size:19 final size:19
Alignment explanation
Indices: 44979127--44979174 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
44979117 TTTATATAAG
44979127 AAAATAAAGAA-TAAAAGAA
1 AAAATAAAGAATTAAAA-AA
* *
44979146 AAAAT-AAGAATTGAAACA
1 AAAATAAAGAATTAAAAAA
44979164 AAAATAAAGAA
1 AAAATAAAGAA
44979175 GTACGCAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAATAAAGAATTAAAAAA
Found at i:44981724 original size:24 final size:24
Alignment explanation
Indices: 44981697--44981750 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
44981687 GTATTCCTCG
44981697 CTCGTTA-AGCGATGGTACTCCTTC
1 CTCGTTAGA-CGATGGTACTCCTTC
* *
44981721 CTCGTTAGACGTTGGTACTCTTTC
1 CTCGTTAGACGATGGTACTCCTTC
44981745 CTCGTT
1 CTCGTT
44981751 GATTGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (24 bp):
CTCGTTAGACGATGGTACTCCTTC
Found at i:44982229 original size:21 final size:21
Alignment explanation
Indices: 44982205--44982247 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
44982195 TTTGTTGATT
44982205 TTTTAAAAATATTTATT-ATTA
1 TTTT-AAAATATTTATTAATTA
* *
44982226 TTTTTAAATTTTTATTAATTA
1 TTTTAAAATATTTATTAATTA
44982247 T
1 T
44982248 ATGTAGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAAAATATTTATTAATTA
Found at i:44988440 original size:43 final size:42
Alignment explanation
Indices: 44988379--44988616 Score: 224
Period size: 43 Copynumber: 5.4 Consensus size: 42
44988369 GTTATAGATT
* *
44988379 ACGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTTCCCCACAA
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTT-TCCACAA
* * *
44988422 ACGCCGCTAAAGGTCATGATCTTTAGCTTTAGCGGCGCTTTATCCACAA
1 ACGCCGCTAAAAGTCATG----GT--CTTTAGCGGCG-TTTTTCCACAA
* * ** *
44988471 ACGCCGCTAAAGGCCATGGTCTTTAGCAACACTTTTTCCACAA
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGC-GTTTTTCCACAA
* *
44988514 ACGACGCTAAAAGTCATGGCCTTTAGCGGCGCTTTTTCCACAA
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCG-TTTTTCCACAA
* * * *
44988557 ACGCCGCTAAAAGTCATGGCCTTTAGTGGCGCTTTTCCCAAAA
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCG-TTTTTCCACAA
*
44988600 ACGCCGCTAAAGGTCAT
1 ACGCCGCTAAAAGTCAT
44988617 AAAATTTAAA
Statistics
Matches: 164, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
43 125 0.76
45 1 0.01
47 1 0.01
49 34 0.21
50 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (42 bp):
ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTTTCCACAA
Found at i:44988471 original size:49 final size:49
Alignment explanation
Indices: 44988399--44988497 Score: 153
Period size: 49 Copynumber: 2.0 Consensus size: 49
44988389 AAGTCATGAT
* * *
44988399 CTTTAGCGGCGTTTTCCCCACAAACGCCGCTAAAGGTCATGATCTTTAG
1 CTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGGCCATGATCTTTAG
* *
44988448 CTTTAGCGGCGCTTTATCCACAAACGCCGCTAAAGGCCATGGTCTTTAG
1 CTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGGCCATGATCTTTAG
44988497 C
1 C
44988498 AACACTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (49 bp):
CTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGGCCATGATCTTTAG
Found at i:44988592 original size:86 final size:88
Alignment explanation
Indices: 44988379--44988616 Score: 284
Period size: 86 Copynumber: 2.7 Consensus size: 88
44988369 GTTATAGATT
* *
44988379 ACGCCGCTAAAAGTCATGATCTTTAGCGGCG-TTTTCCCCACAAACGCCGCTAAAGGTCATGATC
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGCTTTT-CCCACAAACGCCGCTAAAGGTCATGAGC
44988443 TTTAGCTTTAGCGGCGCTTTATCCACAA
65 --T--CTTTAGCGGCGCTTTATCCACAA
* * ** * * * *
44988471 ACGCCGCTAAAGGCCATGGTCTTTAGCAACACTTTTTCCACAAACGACGCTAAAAGTCATG-GC-
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGAGCT
*
44988534 CTTTAGCGGCGCTTTTTCCACAA
66 CTTTAGCGGCGCTTTATCCACAA
* * *
44988557 ACGCCGCTAAAAGTCATGGCCTTTAGTGGCGCTTTTCCCAAAAACGCCGCTAAAGGTCAT
1 ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCAT
44988617 AAAATTTAAA
Statistics
Matches: 123, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
86 71 0.58
91 1 0.01
92 47 0.38
93 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (88 bp):
ACGCCGCTAAAAGTCATGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGAGCT
CTTTAGCGGCGCTTTATCCACAA
Found at i:44988794 original size:19 final size:19
Alignment explanation
Indices: 44988749--44988795 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
44988739 TTCATTATTA
*
44988749 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
44988768 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
44988787 AATAAAAAT
1 AATAAAAAT
44988796 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:44991635 original size:46 final size:46
Alignment explanation
Indices: 44991582--44991718 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
44991572 TATATATACA
* * *
44991582 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* *
44991628 CATCTCATACACGTTTCGCATTAGCCATTTGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* **
44991674 CATCTCATACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
44991719 ATACACTTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.25, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
Found at i:44991763 original size:47 final size:47
Alignment explanation
Indices: 44991728--44992206 Score: 660
Period size: 47 Copynumber: 10.2 Consensus size: 47
44991718 TATACACTTC
* ** *
44991728 CACGTTCATCACATTGGTCATTCTACCTTATCACATTTATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*** *
44991775 CGTATTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* ** * *
44991822 CACATTCATCACAAAGGACATTCGGCCTTATCACATATTTNGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATAT-GCATGTT
*
44991870 CACGTTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
** *
44991917 CACGTTCATCACATTGGCCATTCTACCTTATCACATGTATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
44991964 --CGTATCCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTT
1 CACGT-T-CATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
44992011 CACGTCCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
44992058 CACATTCATCACATTAGCCATTCGGCCTTATCACATATTTGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
44992105 CACGTTTATCACATTGGCCATTCGGCTTTATCACACATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
44992152 CACGTTCACCACATTGGCCATTCGGCCTTATCAC--ATATGCATGTT
1 CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
44992197 CACATTCATC
1 CACGTTCATC
44992207 TCATACAATC
Statistics
Matches: 383, Mismatches: 44, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
45 22 0.06
46 1 0.00
47 316 0.83
48 41 0.11
49 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (47 bp):
CACGTTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
Found at i:44991996 original size:22 final size:22
Alignment explanation
Indices: 44991971--44992046 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
44991961 GTTCGTATCC
44991971 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
44991993 ATCACATATTTG-CATGTTCACGTCC--
1 ATCAC--ATTGGCCA--TT--CGGCCTT
44992018 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
44992040 ATCACAT
1 ATCACAT
44992047 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
20 4 0.10
22 14 0.34
23 6 0.15
24 6 0.15
25 7 0.17
27 4 0.10
ACGTcount: A:0.22, C:0.30, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44992093 original size:22 final size:22
Alignment explanation
Indices: 44992018--44992093 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
44992008 GTTCACGTCC
*
44992018 ATCACATTGGCCATTCGGCCTT
1 ATCACATTAGCCATTCGGCCTT
* *
44992040 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-TA-GCCA--TTCGGCCTT
44992064 CATCACATTAGCCATTCGGCCTT
1 -ATCACATTAGCCATTCGGCCTT
44992087 ATCACAT
1 ATCACAT
44992094 ATTTGCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 17 0.40
23 7 0.17
24 8 0.19
25 10 0.24
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTAGCCATTCGGCCTT
Found at i:44994974 original size:12 final size:12
Alignment explanation
Indices: 44994957--44994981 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44994947 TAAAAATAAC
44994957 AATTTAACACTA
1 AATTTAACACTA
44994969 AATTTAACACTA
1 AATTTAACACTA
44994981 A
1 A
44994982 TTTGAACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTTAACACTA
Found at i:44997673 original size:17 final size:17
Alignment explanation
Indices: 44997651--44997683 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44997641 AACGAAGGAT
44997651 CGAGAGAAAAACAGTAA
1 CGAGAGAAAAACAGTAA
*
44997668 CGAGAGAAAAAGAGTA
1 CGAGAGAAAAACAGTA
44997684 GCTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.27, T:0.06
Consensus pattern (17 bp):
CGAGAGAAAAACAGTAA
Found at i:44998065 original size:7 final size:7
Alignment explanation
Indices: 44998055--44998115 Score: 113
Period size: 7 Copynumber: 8.7 Consensus size: 7
44998045 ATATTTAAGT
44998055 TTTTTAA
1 TTTTTAA
44998062 TTTTTAA
1 TTTTTAA
44998069 TTTTTAA
1 TTTTTAA
44998076 TTTTTAA
1 TTTTTAA
44998083 TTTTTAA
1 TTTTTAA
*
44998090 TTTTAAA
1 TTTTTAA
44998097 TTTTTAA
1 TTTTTAA
44998104 TTTTTAA
1 TTTTTAA
44998111 TTTTT
1 TTTTT
44998116 TTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTAA
Found at i:44998488 original size:37 final size:37
Alignment explanation
Indices: 44998428--44998558 Score: 201
Period size: 37 Copynumber: 3.5 Consensus size: 37
44998418 CTATGCAGCA
* *
44998428 GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
* *
44998465 G-TCGCACGGGGCGAAGGCAATGGAGGGGCTGGGTTGC
1 GAT-GCACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
*
44998502 GATGCACGGGGCAAAGGCGATGGAGGGGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
44998539 GATGCACGGGGCGAAGGCGA
1 GATGCACGGGGCGAAGGCGA
44998559 CAAACGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.01
37 82 0.98
38 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.50, T:0.12
Consensus pattern (37 bp):
GATGCACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
Found at i:44998694 original size:23 final size:23
Alignment explanation
Indices: 44998650--44998694 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
44998640 CTACCCATGG
* * *
44998650 CCATTAAACCTTAAACTATAAAA
1 CCATAAAACCCTAAACCATAAAA
*
44998673 CCATAAAACCCTAAACCCTAAA
1 CCATAAAACCCTAAACCATAAA
44998695 CCTTAAATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (23 bp):
CCATAAAACCCTAAACCATAAAA
Found at i:44998954 original size:46 final size:46
Alignment explanation
Indices: 44998830--44998956 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 46
44998820 ATCCATATGA
* ***
44998830 TGTTTTTTTGGGTTTAGGGTTTTAAAAGTTATAGATTAGTGTTTAG
1 TGTTTTTTTGGGTTTAGGATTTTAGGGGTTATAGATTAGTGTTTAG
* *
44998876 TGTTTTTTAGGGGGTTAGGGATTTTAGGGGTTATAGATTAGTGTTTA-
1 TGTTTTTT-TGGGTTTA-GGATTTTAGGGGTTATAGATTAGTGTTTAG
44998923 TGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1 TG-TTTTTTTGGGTTTAGGATTTTAGGGGTTATA
44998957 TGACTTTTTG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
46 25 0.36
47 14 0.20
48 31 0.44
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (46 bp):
TGTTTTTTTGGGTTTAGGATTTTAGGGGTTATAGATTAGTGTTTAG
Found at i:44999006 original size:41 final size:41
Alignment explanation
Indices: 44998961--44999219 Score: 416
Period size: 41 Copynumber: 6.4 Consensus size: 41
44998951 GTTATATGAC
* *
44998961 TTTTT-GCGGCGTTTTGAGCAAAAACGCCGCTATTGCTCAGT
1 TTTTTAGCGGCG-TTTGACCAAAAACGCCGCTATTGCTCTGT
44999002 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
*
44999043 TTTTTAGCGGCGTTTGACCAAAAACGCCACTATTGCTCTG-
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
*
44999083 TTTTTAGCGGCGTTTGACCAAAAACGCTGCTATTGCTCTGT
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
* *
44999124 TTTTTAGGGGCGTTTGACCAAAAACGCCGCTATTACTCTGT
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
* *
44999165 TTTTTAGCAGCGTTTGACTAAAAACGCCGCTATTGCTCTG-
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
44999205 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
44999220 TTGGTCAAAC
Statistics
Matches: 203, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
40 52 0.26
41 145 0.71
42 6 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
Found at i:44999106 original size:81 final size:82
Alignment explanation
Indices: 44998961--44999219 Score: 416
Period size: 81 Copynumber: 3.2 Consensus size: 82
44998951 GTTATATGAC
* *
44998961 TTTTT-GCGGCGTTTTGAGCAAAAACGCCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAA
1 TTTTTAGCGGCG-TTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAA
44999025 ACGCCGCTATTGCTCTGT
65 ACGCCGCTATTGCTCTGT
*
44999043 TTTTTAGCGGCGTTTGACCAAAAACGCCACTATTGCTCTG-TTTTTAGCGGCGTTTGACCAAAAA
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAAA
*
44999107 CGCTGCTATTGCTCTGT
66 CGCCGCTATTGCTCTGT
* * * *
44999124 TTTTTAGGGGCGTTTGACCAAAAACGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACTAAAAA
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAAA
44999189 CGCCGCTATTGCTCTG-
66 CGCCGCTATTGCTCTGT
44999205 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
44999220 TTGGTCAAAC
Statistics
Matches: 164, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
81 91 0.55
82 67 0.41
83 6 0.04
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (82 bp):
TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAAA
CGCCGCTATTGCTCTGT
Found at i:44999108 original size:122 final size:122
Alignment explanation
Indices: 44998961--44999219 Score: 430
Period size: 122 Copynumber: 2.1 Consensus size: 122
44998951 GTTATATGAC
*
44998961 TTTTT-GCGGCGTTTTGAGCAAAAACGCCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAA
1 TTTTTAGCGGCG-TTTGACCAAAAACGCCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAA
* *
44999025 ACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAAACGCCACTATTGCTCTG
65 ACGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
* * *
44999083 TTTTTAGCGGCGTTTGACCAAAAACGCTGCTATTGCTCTGTTTTTTAGGGGCGTTTGACCAAAAA
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAAA
* *
44999148 CGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACTAAAAACGCCGCTATTGCTCTG
66 CGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
44999205 TTTTTAGCGGCGTTT
1 TTTTTAGCGGCGTTT
44999220 TTGGTCAAAC
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 122 0.95
123 6 0.05
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (122 bp):
TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCAGTTTTTTAGCGGCGTTTGACCAAAAA
CGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
Found at i:44999249 original size:122 final size:121
Alignment explanation
Indices: 44998961--44999249 Score: 361
Period size: 122 Copynumber: 2.4 Consensus size: 121
44998951 GTTATATGAC
* * *
44998961 TTTTT-GCGGCGTTTTGAGCAAAAACGCCGCTATTGCTCA-GTTTTTTAGCGGCGTTTGACCAAA
1 TTTTTAGCGGCG-TTTGA-CCAAAACGCCGCTAATGCT-ATATTTTTTAGCGGCGTTTGACCAAA
* *
44999024 AACGCCGCTATTGCTCTGTTTTTTAGCGGCGTTTGACCAAAAACGCCACTATTGCTCTG
63 AACGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
* * * * *
44999083 TTTTTAGCGGCGTTTGACCAAAAACGCTGCTATTGCTCTGTTTTTTAGGGGCGTTTGACCAAAAA
1 TTTTTAGCGGCGTTTGACC-AAAACGCCGCTAATGCTATATTTTTTAGCGGCGTTTGACCAAAAA
* *
44999148 CGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACTAAAAACGCCGCTATTGCTCTG
65 CGCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
** *
44999205 TTTTTAGCGGCGTTTTTGGTC-AAACGCCGCTAATG-TATAATTTTT
1 TTTTTAGCGGCG--TTTGACCAAAACGCCGCTAATGCTATATTTTTT
44999250 GTGGCATTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
121 8 0.05
122 128 0.87
123 6 0.04
124 5 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (121 bp):
TTTTTAGCGGCGTTTGACCAAAACGCCGCTAATGCTATATTTTTTAGCGGCGTTTGACCAAAAAC
GCCGCTATTACTCTGTTTTTTAGCAGCGTTTGACCAAAAACGCCACTATTGCTCTG
Found at i:44999899 original size:12 final size:13
Alignment explanation
Indices: 44999882--44999911 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44999872 GTCTATATTT
44999882 TTTTC-TTTTTTC
1 TTTTCTTTTTTTC
44999894 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
44999907 TTTTC
1 TTTTC
44999912 GGCATTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:45001905 original size:131 final size:130
Alignment explanation
Indices: 45001667--45002131 Score: 543
Period size: 131 Copynumber: 3.6 Consensus size: 130
45001657 TAATTATCTG
* * * *
45001667 TTTAAAGATTCCTTAAAACGAAGGCAATATTTGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT
*
45001732 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATTGAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTT-CTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
45001797 C
130 C
* * *
45001798 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCTATTCAGGGAATCGTGCCTTACT
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT
*
45001863 GTGCTGGGTTGCAATTTCATGTTTGCTCGAAACGATCCAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTC-TGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
45001928 C
130 C
* * * * * *
45001929 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGCTTAGCGATTCGGGGAATTGTGCCCTATC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTA-C
* * * * * *
45001994 ATGT--TGGGTTGCAATTTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCATTCG
65 -TGTGCTGGGTTGCAA-TTTCT-GTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTC-
45002057 TAT-TC
126 -ATGTC
* * * * *
45002062 TTT--AAATT-C-TAAAAC-AAAGCAATGTTCAATGTTTGG-AAGTTCGAGGAATCATGCCCAAC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAA-TTCGGGGAATCGTGCCCTAC
*
45002121 CGTGCTGGGTT
65 TGTGCTGGGTT
45002132 TCGGTTTTTT
Statistics
Matches: 288, Mismatches: 36, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
126 2 0.01
127 2 0.01
128 37 0.13
129 6 0.02
130 1 0.00
131 191 0.66
132 39 0.14
133 8 0.03
134 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (130 bp):
TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT
GTGCTGGGTTGCAATTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGTC
Found at i:45013789 original size:45 final size:45
Alignment explanation
Indices: 45013721--45014065 Score: 211
Period size: 45 Copynumber: 7.6 Consensus size: 45
45013711 AAGTCACAAG
* *
45013721 TCTTATCTCCTTGAAGTTCCAGTGGAGCAGACTAAATAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
* * *
45013766 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAATCTATAAAGCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---ATAAAGCA-A-A
* ** * * *
45013817 TCTCATCTCTTTGAAGTTGCAGTAGAGCAGA-T-CA-AAA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
* * * * *
45013858 TCTTATCACCCTGAAATTGTAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
* * * *
45013903 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---ATAAAGCA-A-A
* * * * * *
45013954 TCTCATCTCTCTGAAGTTGTAGTAGAGCAGA-T-CA-AAA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
* ** * * * *
45013995 TCTTATCTTCCAAAAGTTGCAGTGGAACAAACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
* *
45014040 TCTTATTTCCTTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
45014066 ACCGATTAAA
Statistics
Matches: 223, Mismatches: 57, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
41 46 0.21
42 4 0.02
43 6 0.03
44 10 0.04
45 84 0.38
46 4 0.02
49 13 0.06
50 4 0.02
51 52 0.23
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAAGCAAA
Found at i:45013962 original size:137 final size:137
Alignment explanation
Indices: 45013716--45014155 Score: 648
Period size: 137 Copynumber: 3.2 Consensus size: 137
45013706 GATTGAAGTC
* * * * *
45013716 ACAAGTCTTATCTCCTTGAAGTTCCAGTGGAGCAGACTAAATAAAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAA
* *
45013781 GTTGCAGTGGAACAGATTGAATCTATAAAGCACAGATCTCATCTCTTTGAAGTTGCAGTAGAGCA
66 GTTGCAGTGGAACAGATTGAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCA
45013846 GATCAAA
131 GATCAAA
* *
45013853 ACAAGTCTTATCACCCTGAAATTGTAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAA
* *
45013918 GTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGTAGTAGAGCA
66 GTTGCAGTGGAACAGATTGAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCA
45013983 GATCAAA
131 GATCAAA
* * * * *
45013990 ACAAGTCTTATCTTCC-AAAAGTTGCAGTGGAACAAACTAAAGATAGCAAATCTTATTTCCTTGA
1 ACAAGTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGA
* * *
45014054 AGTTGCAGTGGAACCGATTAAAGCTATAAAGCTCAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
65 AGTTGCAGTGGAACAGATTGAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGC
45014119 AGATCAAA
130 AGATCAAA
** * * *
45014127 ACAAACCTTATTTCCTTGAAGTTGCAGTG
1 ACAAGTCTTATCTCCCTGAAATTGCAGTG
45014156 AAGCGATAGA
Statistics
Matches: 271, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
136 3 0.01
137 266 0.98
138 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (137 bp):
ACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTATAAAGCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCA
GATCAAA
Found at i:45016778 original size:131 final size:131
Alignment explanation
Indices: 45016528--45016991 Score: 613
Period size: 131 Copynumber: 3.6 Consensus size: 131
45016518 TAATTATCTG
*
45016528 TTTAAAGATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTG-CCTACC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
*
45016592 ATGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
45016657 C
131 C
*
45016658 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACT
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
*
45016723 GTGCTGGGTTGCAATTTCCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
66 GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
45016788 C
131 C
* * * * * * *
45016789 TTTAAAAATTCTTTAAAACGAAGG-ATATTTTCGATGCTTAGCGATTCGGGGAATTGTGCCCTAT
1 TTTAAAAATTCCTTAAAACGAAGGCA-ATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
* * * * * * *
45016853 CGTGTTGGGTTGCAATTTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCATTCGT
65 CGTGCTGGGTTGCAATTTTCT-GTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTC--
45016918 AT-TC
127 ATGTC
* * * * *
45016922 TTT--AAATT-C-TAAAAC-AAAGCAATGTTCAATGTTTGG-AAGTTCGAGGAATCATGCCCAAC
1 TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAA-TTCGGGGAATCGTGCCCTAC
45016981 CGTGCTGGGTT
65 CGTGCTGGGTT
45016992 TCGGTTTTTC
Statistics
Matches: 294, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
127 1 0.00
128 39 0.13
129 7 0.02
130 58 0.20
131 147 0.50
132 35 0.12
133 5 0.02
134 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
GTGCTGGGTTGCAATTTTCTGTTTGCTCGAAACGATCGAATATTCCTTTGGTATTTCACTCATGT
C
Found at i:45023657 original size:60 final size:60
Alignment explanation
Indices: 45023584--45023702 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
45023574 ATACTAAACT
* *
45023584 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAACTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTAC
* *
45023644 AAACATAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTA
45023703 TAAAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAACTAATTTTAAAATAATTAC
Found at i:45023876 original size:3 final size:3
Alignment explanation
Indices: 45023870--45023917 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
45023860 TTTTTTTTCT
* *
45023870 TTC TTC TTC TTC TTC TTC TCTC TCC TTC TTC TTC TT- TT- TTT TTC
1 TTC TTC TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC
45023914 TTC T
1 TTC T
45023918 CCTTTCTCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:45023932 original size:19 final size:19
Alignment explanation
Indices: 45023876--45023944 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
45023866 TTCTTTCTTC
*
45023876 TTCTTCTTCTTCTCTCTCC-
1 TTCTTCTCCTT-TCTCTCCT
* *
45023895 TTCTTCTTCTTT-T-T-TT
1 TTCTTCTCCTTTCTCTCCT
45023911 TTCTTCTCCTTTCTCTCCT
1 TTCTTCTCCTTTCTCTCCT
45023930 TTCTTTCTCTCTTTC
1 TTC-TTCTC-CTTTC
45023945 GGTGGCTGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
16 12 0.29
17 2 0.05
18 2 0.05
19 15 0.37
20 5 0.12
21 5 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTTCTCCTTTCTCTCCT
Found at i:45032809 original size:43 final size:42
Alignment explanation
Indices: 45032727--45032895 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
45032717 AGCTCGTACA
* * * *
45032727 ATGTCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGTCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT-G
* * *
45032770 ATG-CCACTGTCTCAGACA-GCGTCTTACACGAAATTAAATATG
1 ATGTCAAC-GTCCCAGACATG-GTCTTACACGAAATCAAATATG
*
45032812 ATGTCAACGTCCCAGACATGGTCTTACATGTAAATCACAA-ATTG
1 ATGTCAACGTCCCAGACATGGTCTTACACG-AAATCA-AATA-TG
* * *
45032856 ATG-CAACGTCACAGACATGGTCTTACACAAAATCACATAT
1 ATGTCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT
45032896 CGGAATCCTA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 33 0.32
43 61 0.59
44 7 0.07
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
ATGTCAACGTCCCAGACATGGTCTTACACGAAATCAAATATG
Found at i:45032871 original size:85 final size:85
Alignment explanation
Indices: 45032727--45032888 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 85
45032717 AGCTCGTACA
* * *
45032727 ATGTCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCTCAGACA-GCG
1 ATGTCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCAACTGTCACAGACATG-G
*
45032791 TCTTACACGAAATTAAATATG
65 TCTTACACAAAATTAAATATG
* *
45032812 ATGTCAACGTCCCAGACATGGTCTTACATGTAAATCACAA-ATTGATGCAAC-GTCACAGACATG
1 ATGTCAACATCCCAGACATGGTCTTACATGT-AATCA-AATATCGATGCAACTGTCACAGACATG
45032875 GTCTTACACAAAAT
64 GTCTTACACAAAAT
45032889 CACATATCGG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
85 51 0.75
86 15 0.22
87 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (85 bp):
ATGTCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCAACTGTCACAGACATGGT
CTTACACAAAATTAAATATG
Found at i:45036213 original size:16 final size:18
Alignment explanation
Indices: 45036182--45036216 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
45036172 CAATTAACCC
45036182 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
45036200 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
45036216 C
1 C
45036217 ATAAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:45053493 original size:26 final size:26
Alignment explanation
Indices: 45053464--45053547 Score: 125
Period size: 26 Copynumber: 3.2 Consensus size: 26
45053454 TGATTCAAAT
45053464 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCTA
* * *
45053490 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCTA
45053516 TGATAATGGGTTAGGTAAATGTT-TCA
1 TGATAATGGGTTAGGTAAATGTTCT-A
45053542 TGATAA
1 TGATAA
45053548 GAATTTCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCTA
Found at i:45054324 original size:26 final size:26
Alignment explanation
Indices: 45054295--45054347 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
45054285 TTTACAGTTT
45054295 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
45054321 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
45054347 T
1 T
45054348 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Done.