Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 198 of 207
Found at i:59520970 original size:26 final size:27
Alignment explanation
Indices: 59520937--59520997 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
59520927 TATAAGATTA
59520937 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
59520963 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
59520991 ATTATTT
1 ATTATTT
59520998 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:59522542 original size:54 final size:55
Alignment explanation
Indices: 59522467--59522576 Score: 204
Period size: 54 Copynumber: 2.0 Consensus size: 55
59522457 GAACAAATTG
*
59522467 ATATCTCTCTCAAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
59522522 ATATCACTCT-AAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
1 ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
59522576 A
1 A
59522577 GTAAAGTAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 45 0.83
55 9 0.17
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (55 bp):
ATATCACTCTCAAAAAAATTATAAAAAAATTCAAAATATTTATAAAAATTTTAAA
Found at i:59526212 original size:17 final size:15
Alignment explanation
Indices: 59526176--59526215 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
59526166 ATTTATTTCA
59526176 TAATATAATAATAAT
1 TAATATAATAATAAT
*
59526191 TAATATAATTTATAATT
1 TAATATAA-TAATAA-T
59526208 TAATATAA
1 TAATATAA
59526216 AACCTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATAATAATAAT
Found at i:59529695 original size:26 final size:27
Alignment explanation
Indices: 59529662--59529722 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
59529652 CATCAGATTA
59529662 ATTATTTA-ATATA-AA-TATATATAATT
1 ATTATTTACATATATAATTA-ATATAA-T
59529688 ATTATTTATCATATATAATTAATATAAT
1 ATTATTTA-CATATATAATTAATATAAT
59529716 ATTATTT
1 ATTATTT
59529723 TATAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.26
28 13 0.42
29 8 0.26
30 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTATTTACATATATAATTAATATAAT
Found at i:59532391 original size:2 final size:2
Alignment explanation
Indices: 59532384--59532419 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
59532374 ACAGCCTATT
59532384 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
59532420 CATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:59536525 original size:45 final size:43
Alignment explanation
Indices: 59536459--59536718 Score: 292
Period size: 45 Copynumber: 6.0 Consensus size: 43
59536449 TTAGAACGAA
* *
59536459 TATCCATTAATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--G
*
59536504 TATCCATGAATATAAAGGTGGTTGCTAAATGTTGATTCCACCGG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC-G
*
59536548 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCG
1 -TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
* ** * * *
59536592 AATCTTTGATTATAAAAGG-GGTTGCTATGTGCTGATTCC-CCG
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACCG
*
59536634 TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
1 TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
** * * * *
59536677 TATCTTTGATTATGAAAGG-GGTTGCTATGTGCTAATTCCACC
1 TATCCATGAATAT-AAAGGTGGTTGCTAAGTGTTGATTCCACC
59536719 AGATATCATT
Statistics
Matches: 188, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
41 5 0.03
42 31 0.16
43 60 0.32
44 13 0.07
45 79 0.42
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
TATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCG
Found at i:59536628 original size:43 final size:42
Alignment explanation
Indices: 59536469--59536756 Score: 222
Period size: 45 Copynumber: 6.6 Consensus size: 42
59536459 TATCCATTAA
* * ** *
59536469 TATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC--GTATCTTTGAT
* * ** *
59536514 TATAAAGGTGGTTGCTAAATGTTGATTCCACCGGATATCCATGAA
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
* *
59536559 TATAAAGGTGGTTGCTAAGTGTTGATTCGACCGAATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATTC-ACCGTATCTTTGAT
* * * *
59536602 TATAAAAGG-GGTTGCTATGTGCTGATTCCCCGTATCCTTGAA
1 TAT-AAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
*
59536644 TATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGAT
1 TATAAAGGTGGTTGCTAAGTGCTGATT-CACCGTATCTTTGAT
* * * *
59536687 TATGAAAGG-GGTTGCTATGTGCTAATTCCACCAGATATCATTGTT
1 TAT-AAAGGTGGTTGCTAAGTGCTGATT-CACC-G-TATCTTTGAT
* * *
59536732 TATAAGGGTGG-TGCTATGTGATGAT
1 TATAAAGGTGGTTGCTAAGTGCTGAT
59536757 CCATCGTGTA
Statistics
Matches: 208, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
41 5 0.02
42 29 0.14
43 61 0.29
44 31 0.15
45 82 0.39
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (42 bp):
TATAAAGGTGGTTGCTAAGTGCTGATTCACCGTATCTTTGAT
Found at i:59536655 original size:85 final size:87
Alignment explanation
Indices: 59536458--59536756 Score: 347
Period size: 85 Copynumber: 3.4 Consensus size: 87
59536448 ATTAGAACGA
* ** *
59536458 ATATCCATT-AATATAAATGTGGTTGCTAAGTGTTGATTCCACCGGGTATCCATGAATATAAAGG
1 ATATCC-TTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACC--GTATCTTTGATTATAAAGG
** *
59536522 TGGTTGCTAAATGTTGATTCCACCGG
63 -GGTTGCTATGTGCTGATTCCACCGG
* * *
59536548 ATATCCATGAATATAAAGGTGGTTGCTAAGTGTTGATTCGACCGAATCTTTGATTATAAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
59536613 TTGCTATGTGCTGATTCC-CC-G
65 TTGCTATGTGCTGATTCCACCGG
59536634 -TATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATGAAAGGGG
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTAT-AAAGGGG
* *
59536698 TTGCTATGTGCTAATTCCACCAG
65 TTGCTATGTGCTGATTCCACCGG
* ** * * *
59536721 ATATCATTGTTTATAAGGGTGG-TGCTATGTGATGAT
1 ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGAT
59536757 CCATCGTGTA
Statistics
Matches: 183, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
85 77 0.42
86 3 0.02
87 15 0.08
88 44 0.24
89 6 0.03
90 38 0.21
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (87 bp):
ATATCCTTGAATATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTATAAAGGGGT
TGCTATGTGCTGATTCCACCGG
Found at i:59539580 original size:36 final size:36
Alignment explanation
Indices: 59539540--59539611 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
59539530 ACCCTCACTT
59539540 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
59539576 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
1 TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
59539612 ATCTTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (36 bp):
TTAATCGGTCCCTAAACTTCAAACTATTCTAATTAC
Found at i:59543978 original size:22 final size:22
Alignment explanation
Indices: 59543953--59543995 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
59543943 AGCATCAATC
59543953 CTAATAAAAATTAACATCAGTA
1 CTAATAAAAATTAACATCAGTA
* *
59543975 CTAATGAAAATTAGCATCAGT
1 CTAATAAAAATTAACATCAGT
59543996 CAATTTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (22 bp):
CTAATAAAAATTAACATCAGTA
Found at i:59547136 original size:38 final size:36
Alignment explanation
Indices: 59547070--59547148 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 36
59547060 ATTTAATGCA
* *
59547070 ATAAAATATTTATTATATTTATTTGTATTTTTTAAT
1 ATAAAAAATTTATTATATTTATTAGTATTTTTTAAT
59547106 ATAAAAAATTTATTATATTTATGATAGTATTTTTTAAT
1 ATAAAAAATTTATTATATTTAT--TAGTATTTTTTAAT
59547144 ATAAA
1 ATAAA
59547149 TACTTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
36 21 0.54
38 18 0.46
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (36 bp):
ATAAAAAATTTATTATATTTATTAGTATTTTTTAAT
Found at i:59561919 original size:30 final size:30
Alignment explanation
Indices: 59561851--59561924 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 30
59561841 TGCGAACCCA
* *
59561851 GTGTCCAATGTAAATAAATATTATTTGAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
59561881 GTGT----TGTAAATAAATAATATTTCAAG
1 GTGTCCAATGTAAATAAATAATATTTCAAG
59561907 GTGTCCAATGTAAATAAA
1 GTGTCCAATGTAAATAAA
59561925 AAAAACTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 24 0.63
30 14 0.37
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (30 bp):
GTGTCCAATGTAAATAAATAATATTTCAAG
Found at i:59562549 original size:24 final size:24
Alignment explanation
Indices: 59562514--59562559 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
59562504 TTAATGATGT
* *
59562514 TTAAATTAGATTTTATTATTATAA
1 TTAAATTAGATTATAATATTATAA
59562538 TTAAACTT-GATTATAATATTAT
1 TTAAA-TTAGATTATAATATTAT
59562560 TTTAGTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TTAAATTAGATTATAATATTATAA
Found at i:59583752 original size:2 final size:2
Alignment explanation
Indices: 59583747--59583772 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59583737 TTTTAACTTC
59583747 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
59583773 CTTTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59587536 original size:20 final size:20
Alignment explanation
Indices: 59587507--59587546 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
59587497 TTCACCTCAT
*
59587507 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
59587527 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
59587547 AAAACCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:59594405 original size:50 final size:50
Alignment explanation
Indices: 59593868--59594447 Score: 416
Period size: 50 Copynumber: 11.6 Consensus size: 50
59593858 GGTTGAAAAG
* *
59593868 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAAC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAAT
** * * ** *** * *
59593918 GGAACAGATTGAAGCTATGACGGCGGATCTGGTTTCCCTGATATTGCAAT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
* *
59593968 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGC-AG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAAT
* * * ** * *
59594017 TAGAACAGATTGAAGCTACGACGGCGGATCTGGCTTCCCTGATATTGCAAT
1 TA-AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
* *
59594068 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAAT
** * * * *** * * *
59594118 GGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAAT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
* *
59594168 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-CAGTGCAAT
** * * * * *** * *
59594218 GGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATATTGCAAT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
* * * *
59594268 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTACAGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
** * ** ** * * *
59594318 GGAATAGATTGAAGTTATGACGGCGGATC-TAGTTTCCCTGATATTGCAAT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTA-CTTCCCTGACAGTGCAAT
* * * **
59594368 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCCGACGGTGCGGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
** * * *
59594418 GGAACAGATTGAAGCTACGACGGCGGATCT
1 TAAAAAGATTGAAGCCACAACGGCGGATCT
59594448 AGTTTCCCCA
Statistics
Matches: 386, Mismatches: 133, Indels: 22
0.71 0.25 0.04
Matches are distributed among these distances:
49 17 0.04
50 348 0.90
51 21 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGACAGTGCAAT
Found at i:59594481 original size:100 final size:100
Alignment explanation
Indices: 59593868--59594455 Score: 989
Period size: 100 Copynumber: 5.9 Consensus size: 100
59593858 GGTTGAAAAG
**
59593868 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAACGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
59593933 TATGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
59593968 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTAGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
59594033 TACGACGGCGGATCTGGCTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
59594068 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
59594133 TACGACGGCGGATCTGGTTTCCCTGATATTGTAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
59594168 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
59594233 TACGACGACGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * * *
59594268 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTACAGTGGAATAGATTGAAGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* *
59594333 TATGACGGCGGATCTAGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* ** * *
59594368 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCC-CCGACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAG
*
59594432 CTACGACGGCGGATCTAGTTTCCC
65 CTACGACGGCGGATCTGGTTTCCC
59594456 CAACATTGCA
Statistics
Matches: 460, Mismatches: 27, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
100 460 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:59598953 original size:47 final size:44
Alignment explanation
Indices: 59598885--59598976 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 44
59598875 GCATGGTTCA
59598885 TCTGTAGCATTTGAGTATGTATTATGTTTCCACACGTGCATTGGGG
1 TCTGTAGCATTTGAGTATGTATTATGTTT-C-CACGTGCATTGGGG
59598931 TCTGTGAGCATTTGAGTATGTATTATGTTTCCACGTGCATTGGGG
1 TCTGT-AGCATTTGAGTATGTATTATGTTTCCACGTGCATTGGGG
59598976 T
1 T
59598977 GAGATAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 15 0.33
46 6 0.13
47 24 0.53
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.40
Consensus pattern (44 bp):
TCTGTAGCATTTGAGTATGTATTATGTTTCCACGTGCATTGGGG
Found at i:59601449 original size:34 final size:34
Alignment explanation
Indices: 59601406--59601472 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
59601396 TGCATAACTG
* ** *
59601406 CTGTTACTGATACTGTGATGGGCTAAGGCCCAAA
1 CTGTCACTGATACTGAAAAGGGCTAAGGCCCAAA
*
59601440 CTGTCACTGATACTGAAAAGGGCTTAGGCCCAA
1 CTGTCACTGATACTGAAAAGGGCTAAGGCCCAA
59601473 GACTATTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (34 bp):
CTGTCACTGATACTGAAAAGGGCTAAGGCCCAAA
Found at i:59604774 original size:18 final size:18
Alignment explanation
Indices: 59604738--59604775 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59604728 AAAATTTATG
*
59604738 AATCTATAAATAATCTAT
1 AATCTATAAATAATATAT
59604756 AATCTAT-AATATATATAT
1 AATCTATAAATA-ATATAT
59604774 AA
1 AA
59604776 GCATGAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
AATCTATAAATAATATAT
Found at i:59614790 original size:56 final size:56
Alignment explanation
Indices: 59614685--59614807 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
59614675 AAATAAATCG
* * * **
59614685 AATAGTTGAGTGACAATTTTGTAACTTTTCATAGTTGGATGACTTAAAAAATTACT
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACCAAAAAAATTACT
* ** *
59614741 AATAGTTGGGTGACTTTTTTGTAACTTTTAACAATTTGATGACCAAAAAAA--AC-
1 AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACCAAAAAAATTACT
*
59614794 CATAGTTGAGTGAC
1 AATAGTTGAGTGAC
59614808 TACTAATGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
53 12 0.21
54 2 0.04
56 42 0.75
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (56 bp):
AATAGTTGAGTGACAATTTTGTAACTTTTAACAATTGGATGACCAAAAAAATTACT
Found at i:59615016 original size:17 final size:17
Alignment explanation
Indices: 59614994--59615031 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
59614984 TGAATTAATA
*
59614994 CAAACCCGAAAT-AAATC
1 CAAACCCAAAATGAAA-C
59615011 CAAACCCAAAATGAAAC
1 CAAACCCAAAATGAAAC
59615028 CAAA
1 CAAA
59615032 ATTTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.58, C:0.29, G:0.05, T:0.08
Consensus pattern (17 bp):
CAAACCCAAAATGAAAC
Found at i:59616531 original size:21 final size:25
Alignment explanation
Indices: 59616490--59616536 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
59616480 AATGAAGTTG
59616490 ATTTAAATAAATCACTAAAAT-TTT
1 ATTTAAATAAATCACTAAAATATTT
59616514 ATTTAAA-AAA-CA-TAAAATATTT
1 ATTTAAATAAATCACTAAAATATTT
59616536 A
1 A
59616537 AAAAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 3 0.14
24 7 0.32
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTTAAATAAATCACTAAAATATTT
Found at i:59616547 original size:19 final size:18
Alignment explanation
Indices: 59616513--59616549 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
59616503 ACTAAAATTT
*
59616513 TATTTAAAAAACATAAAA
1 TATTTAAAAAAAATAAAA
59616531 TATTTAAAAAATAATAAAA
1 TATTTAAAAAA-AATAAAA
59616550 ATCAATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TATTTAAAAAAAATAAAA
Found at i:59616765 original size:20 final size:20
Alignment explanation
Indices: 59616729--59616766 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59616719 ACCCTAACTC
*
59616729 GAATCCTAAACTTAAACCTT
1 GAATCCTAAACTCAAACCTT
59616749 GAAT-CTAAACCTCAAACC
1 GAATCCTAAA-CTCAAACC
59616767 CCCAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (20 bp):
GAATCCTAAACTCAAACCTT
Found at i:59619099 original size:18 final size:17
Alignment explanation
Indices: 59619066--59619112 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
59619056 ATATAGCTTT
*
59619066 TTTTTTAGTTTAAAAATA
1 TTTTTTA-TTTAAAAAAA
59619084 TTTTTTATTTAAAAAAA
1 TTTTTTATTTAAAAAAA
* *
59619101 TTGTCTATTTAA
1 TTTTTTATTTAA
59619113 TAATGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTTTTATTTAAAAAAA
Found at i:59620564 original size:22 final size:21
Alignment explanation
Indices: 59620537--59620585 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
59620527 CATTTGGTGA
*
59620537 AAATATGTTTGAAA-ATTTTATC
1 AAATAT-TTTCAAACATTTT-TC
59620559 AAATATTTTCAAAGCATTTTTC
1 AAATATTTTCAAA-CATTTTTC
59620581 AAATA
1 AAATA
59620586 CACTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 13 0.54
23 5 0.21
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (21 bp):
AAATATTTTCAAACATTTTTC
Found at i:59623643 original size:21 final size:23
Alignment explanation
Indices: 59623617--59623664 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 23
59623607 AATCTGCTAC
59623617 TTTTTGTTGTTGTTTT-T-ATTG
1 TTTTTGTTGTTGTTTTGTCATTG
59623638 TTTTTGTTGTTGTTTTGTCATTG
1 TTTTTGTTGTTGTTTTGTCATTG
59623661 TTTT
1 TTTT
59623665 GGTGTCGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 16 0.64
22 1 0.04
23 8 0.32
ACGTcount: A:0.04, C:0.02, G:0.19, T:0.75
Consensus pattern (23 bp):
TTTTTGTTGTTGTTTTGTCATTG
Found at i:59626113 original size:31 final size:32
Alignment explanation
Indices: 59626053--59626117 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
59626043 ACATAAACTG
59626053 AATTTCAAATTTTAACATATTAAAAGGGACTA
1 AATTTCAAATTTTAACATATTAAAAGGGACTA
59626085 AATTTCAAATTTTAACATATT-AAAGGGACTA
1 AATTTCAAATTTTAACATATTAAAAGGGACTA
59626116 AA
1 AA
59626118 AAGTAAAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 12 0.36
32 21 0.64
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (32 bp):
AATTTCAAATTTTAACATATTAAAAGGGACTA
Found at i:59630487 original size:3 final size:3
Alignment explanation
Indices: 59630461--59630593 Score: 52
Period size: 3 Copynumber: 43.7 Consensus size: 3
59630451 TATCAATGAA
* * * * * *
59630461 AAT ATT AAT AAT ATT AAAT AAAT AAT ATT AAT ATT AAC AAT AATT TAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AA-T AAT
** ** * * *
59630509 AAT AAT GTT AAT AGG AAC AA- AAT AAC AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * *
59630556 GCT AGT AAT AAT AAG GAT AAT AAT AGT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59630594 AAAGGTCAAT
Statistics
Matches: 90, Mismatches: 37, Indels: 6
0.68 0.28 0.05
Matches are distributed among these distances:
2 2 0.02
3 80 0.89
4 8 0.09
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:59630514 original size:22 final size:21
Alignment explanation
Indices: 59630460--59630519 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 21
59630450 ATATCAATGA
*
59630460 AAATATTAATAATATT-AAAT
1 AAATAATAATAATATTAAAAT
*
59630480 AAATAATATTAATATTAACAAT
1 AAATAATAATAATATTAA-AAT
* * *
59630502 AATTTATAATAATGTTAA
1 AAATAATAATAATATTAA
59630520 TAGGAACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 14 0.44
21 1 0.03
22 17 0.53
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATAATAATAATATTAAAAT
Found at i:59631338 original size:12 final size:12
Alignment explanation
Indices: 59631321--59631370 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
59631311 GTACACAAAC
59631321 ATAAAATAAAAA
1 ATAAAATAAAAA
59631333 ATAAAATAAAATA
1 ATAAAATAAAA-A
* *
59631346 TTGAAATAAAAA
1 ATAAAATAAAAA
* *
59631358 AAAAAAGAAAAA
1 ATAAAATAAAAA
59631370 A
1 A
59631371 AATAACAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
12 21 0.68
13 10 0.32
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:59631811 original size:14 final size:14
Alignment explanation
Indices: 59631788--59631820 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59631778 TAGTTGCTTA
59631788 GGTTTGCTGT-TTG
1 GGTTTGCTGTATTG
59631801 GGTTGTGCTGTATTG
1 GGTT-TGCTGTATTG
59631816 GGTTT
1 GGTTT
59631821 TTGGGCCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 7 0.39
15 7 0.39
ACGTcount: A:0.03, C:0.06, G:0.39, T:0.52
Consensus pattern (14 bp):
GGTTTGCTGTATTG
Found at i:59634646 original size:22 final size:22
Alignment explanation
Indices: 59634618--59634663 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
59634608 TCGAACCAAG
*
59634618 AAAAAAATGAAA-AAATAAGAGC
1 AAAAAAAT-AAATAAATAAAAGC
59634640 AAAAAAATAAATAAATAAAAGC
1 AAAAAAATAAATAAATAAAAGC
59634662 AA
1 AA
59634664 TCACCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAAAAATAAATAAATAAAAGC
Found at i:59635087 original size:15 final size:14
Alignment explanation
Indices: 59635065--59635101 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
59635055 ATTGGGATAC
*
59635065 TATAATTATCTTAA
1 TATAATTATCCTAA
59635079 TATTAATTATCCTAA
1 TA-TAATTATCCTAA
59635094 TATAATTA
1 TATAATTA
59635102 AAATAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAATTATCCTAA
Found at i:59637414 original size:44 final size:44
Alignment explanation
Indices: 59637364--59637454 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
59637354 ACTCTATTTT
* * *
59637364 TTAGTTTTCCACTTAAACTCTTATTAGTGTAGGTTATTTTATTA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
59637408 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
59637452 TTA
1 TTA
59637455 TTTGACCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
Found at i:59638740 original size:41 final size:41
Alignment explanation
Indices: 59638683--59638839 Score: 192
Period size: 41 Copynumber: 3.8 Consensus size: 41
59638673 TTTTGTAAGT
59638683 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* **
59638724 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCTAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TGCCGGTGAATTATA
* * * * *
59638765 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
* *
59638806 TC-GAGCTTTGTGCCTAGCAGGCTTTATGCTGGTG
1 TCAG-GCTTTATGCCTAGCAGGCTTTATGCCGGTG
59638840 TTTTATACAA
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.03
41 93 0.96
42 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
Found at i:59639673 original size:2 final size:2
Alignment explanation
Indices: 59639666--59639690 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
59639656 GCCCATTTGT
59639666 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
59639691 TGTTCAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:59639814 original size:24 final size:23
Alignment explanation
Indices: 59639727--59640006 Score: 87
Period size: 23 Copynumber: 12.1 Consensus size: 23
59639717 CTCAATGTGG
* *
59639727 TATATGCTGCCTAATTGTT-GTATA
1 TATATGCTG-TTAATT-TTGGTGTA
* * * *
59639751 TTTATGCTGTTAAATTTGGTATG
1 TATATGCTGTTAATTTTGGTGTA
* *
59639774 TATATGCTGCCT-A-TTTGCTGTA
1 TATATGCTG-TTAATTTTGGTGTA
59639796 TATATGCTGTTAAGTTTTGGTGTA
1 TATATGCTGTTAA-TTTTGGTGTA
* * * *
59639820 -AAAGTGCTGTTAAATTTGGTATG
1 TATA-TGCTGTTAATTTTGGTGTA
* *
59639843 TATATGCTGCCTAA--TTGCTGTA
1 TATATGCTG-TTAATTTTGGTGTA
* *
59639865 AATATGCTGTTAAATTTCGGTGTA
1 TATATGCTGTT-AATTTTGGTGTA
* * *
59639889 -AAAGTGCTGTTAAATTTT-GTATG
1 TATA-TGCTGTT-AATTTTGGTGTA
** *
59639912 TATATGCTGTCCA-TTTGTTGTA
1 TATATGCTGTTAATTTTGGTGTA
* * * *
59639934 TATAAGTTATCCAAATTTTGGTGTA
1 TATATGCTGT--TAATTTTGGTGTA
* *
59639959 TAAATGCTGTTTAA-TTTGGTATA
1 TATATGCTG-TTAATTTTGGTGTA
* * *
59639982 TATTTGTTGTTCAA-TTTGATGTA
1 TATATGCTGTT-AATTTTGGTGTA
59640005 TA
1 TA
59640007 AGAGCTGTCC
Statistics
Matches: 186, Mismatches: 51, Indels: 39
0.67 0.18 0.14
Matches are distributed among these distances:
21 5 0.03
22 45 0.24
23 67 0.36
24 55 0.30
25 13 0.07
26 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (23 bp):
TATATGCTGTTAATTTTGGTGTA
Found at i:59639828 original size:69 final size:69
Alignment explanation
Indices: 59639755--59639980 Score: 312
Period size: 69 Copynumber: 3.3 Consensus size: 69
59639745 TGTATATTTA
*
59639755 TGCTGTTAAATTTGGTATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAGTTTTGGTGTA
1 TGCTGTTAAATTTGGTATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTA
59639820 AAAG
66 AAAG
* * *
59639824 TGCTGTTAAATTTGGTATGTATATGCTGCCTAATTGCTGTAAATATGCTGTTAAATTTCGGTGTA
1 TGCTGTTAAATTTGGTATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTA
59639889 AAAG
66 AAAG
* * * * * *
59639893 TGCTGTTAAATTTTGTATGTATATGCTGTCC-ATTTGTTGTATATAAGTTATCCAAATTTTGGTG
1 TGCTGTTAAATTTGGTATGTATATGCTG-CCTATTTGCTGTATATATGCTGT-TAAATTTTGGTG
59639957 TATAAA-
64 TA-AAAG
*
59639963 TGCTGTTTAATTTGGTAT
1 TGCTGTTAAATTTGGTAT
59639981 ATATTTGTTG
Statistics
Matches: 139, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
69 106 0.76
70 30 0.22
71 3 0.02
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (69 bp):
TGCTGTTAAATTTGGTATGTATATGCTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTA
AAAG
Found at i:59641861 original size:5 final size:5
Alignment explanation
Indices: 59641851--59641880 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
59641841 CTTTTGTACA
59641851 AAATC AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC AAATC
59641881 TTATACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:59643978 original size:23 final size:23
Alignment explanation
Indices: 59643952--59643995 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
59643942 ACCCATAATG
59643952 TAATATCCC-GAAAATTACTACTT
1 TAATA-CCCTGAAAATTACTACTT
59643975 TAATACCCTGAAAATTACTAC
1 TAATACCCTGAAAATTACTAC
59643996 AGTTAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
TAATACCCTGAAAATTACTACTT
Found at i:59655831 original size:16 final size:15
Alignment explanation
Indices: 59655793--59655836 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
59655783 TACAAAAAAG
*
59655793 AAATTAAACTATGATT
1 AAATTAAA-AATGATT
59655809 AATATTAAAAATGATCT
1 AA-ATTAAAAATGAT-T
59655826 AAATTAAAAAT
1 AAATTAAAAAT
59655837 ATTTATTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (15 bp):
AAATTAAAAATGATT
Found at i:59657535 original size:33 final size:33
Alignment explanation
Indices: 59657495--59657616 Score: 185
Period size: 33 Copynumber: 3.8 Consensus size: 33
59657485 ATATGAATTT
59657495 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
59657528 TTTTATGATCTAATTGATGTCAATAATATGAAC
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* **
59657561 TTTTATGATCTAATTGATG-AAAT-ATATGAGT
1 TTTTATGATCTAATTGATGTCAATAATATGAAC
* *
59657592 TTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTCAATA
59657617 TTAAGTGTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
31 23 0.28
32 6 0.07
33 52 0.64
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (33 bp):
TTTTATGATCTAATTGATGTCAATAATATGAAC
Found at i:59657606 original size:64 final size:66
Alignment explanation
Indices: 59657495--59657616 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 66
59657485 ATATGAATTT
* * *
59657495 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGTCAATAATATGAA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
59657560 C
66 C
**
59657561 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGATATAATTGATATCAATA
1 TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATA
59657617 TTAAGTGTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 29 0.57
65 3 0.06
66 19 0.37
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (66 bp):
TTTTATGATCTAATTGATGTAAATAATATGAACTTTTATGATATAATTGATATCAATAATATGAA
C
Found at i:59657890 original size:205 final size:205
Alignment explanation
Indices: 59657528--59657977 Score: 744
Period size: 205 Copynumber: 2.2 Consensus size: 205
59657518 TAATATGAAC
* * * *
59657528 TTTTATGATCTAATTGATGTCAATAATATGAACTTTTATGATCTAATTGATGAAATATATGAGTT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
59657593 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
66 TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
59657658 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
131 GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
59657723 TATATAAATT
196 TATATAAATT
* * *
59657733 TTTTAAGATCTAATTGATGTCAATAATATGATTTTTTATGATCTGATTAATGAAAGATATGAGTC
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
59657798 TTTATGATATAATTGATATCAAT-TGTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
66 TTTATGATATAATTGATATCAATAT-TAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTA
* * * *
59657862 TGTATCGTGCATGCTTTTTAGTTCATCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAA
130 TGGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAA
*
59657927 ATATATGAATT
195 ATATATAAATT
* *
59657938 TTTTATGATCTAATTGATG-AAAT-ATATGAGTTTTTATGAT
1 TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGAT
59657978 ACAATTGATG
Statistics
Matches: 229, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
203 16 0.07
204 4 0.02
205 209 0.91
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (205 bp):
TTTTATGATCTAATTGATGTCAATAATATGAATTTTTATGATCTAATTAATGAAAGATATGAGTC
TTTATGATATAATTGATATCAATATTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTAT
GGATCATGCATGCTTTTTAGCTCATCCCTTGTTATATGAGTTAGTATTGAGTAGAATGAATGAAA
TATATAAATT
Found at i:59657975 original size:31 final size:32
Alignment explanation
Indices: 59657922--59657987 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
59657912 AGTAGAATGA
*
59657922 ATGAAATATATGAATTTTTTATGAT-CTAATTG
1 ATGAAATATATGAAGTTTTTATGATAC-AATTG
59657954 ATGAAATATATG-AGTTTTTATGATACAATTG
1 ATGAAATATATGAAGTTTTTATGATACAATTG
59657985 ATG
1 ATG
59657988 TCAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (32 bp):
ATGAAATATATGAAGTTTTTATGATACAATTG
Found at i:59658120 original size:171 final size:172
Alignment explanation
Indices: 59657758--59658127 Score: 507
Period size: 172 Copynumber: 2.2 Consensus size: 172
59657748 GATGTCAATA
* * *
59657758 ATAT-GATTTTTTATGATCTGATTAATGAAAGATATGAGTCTTTATGATATAATTGATATCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
** * * *
59657822 GTAAGTGTTTTTTCCCCTTCCAATTCTAGGTGCATTTGTATGTATCGTGCATGCTTTTTAGTTCA
66 GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
**
59657887 TCCCTTGTTATATGAGTTAGTATTTAGTAGAATGAATGAAAT
131 TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
* * * *
59657929 ATATGAATTTTTTATGATCTAATTGATGAAATATATGAGTTTTTATGATACAATTGATGTCAATT
1 ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
* * *
59657994 ATTTAGACTTTTCT-CCCTTCCCATTCTAGGTGCATTTGTGA-GGAT-GATGCATGC-TTTTAGC
66 -GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGT-ATGGATCG-TGCATGCTTTTTAGC
*
59658055 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATTAATGAAAT
128 TCATCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
*
59658100 ATATGGATTTTTTATGATCTAAGTGATG
1 ATATGGATTTTTTATGATCTAATTGATG
59658128 TCAATTATAT
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
171 79 0.45
172 87 0.50
173 9 0.05
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (172 bp):
ATATGGATTTTTTATGATCTAATTGATGAAAGATATGAGTCTTTATGATACAATTGATATCAATT
GTAAGACTTTTCTCCCCTTCCAATTCTAGGTGCATTTGTATGGATCGTGCATGCTTTTTAGCTCA
TCCCTTGTTATATGAGTTAGTACCTAGTAGAATGAATGAAAT
Found at i:59663907 original size:153 final size:154
Alignment explanation
Indices: 59663590--59663879 Score: 361
Period size: 153 Copynumber: 1.9 Consensus size: 154
59663580 GTGGAATATG
* * *
59663590 TGCTATTGAAATCCTTTGTGTATATATATCAACCTATGACCATTGTTAAAGTAGTGTGATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* ** * * * *
59663655 GGTACTTTTTGCAATTCCTCAGGGACGTATGCCTCTGCCCCTTGGAAGTTTTCAGTGGTTTATGG
66 GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
* *
59663720 ATGAACTAGTTGGATGTCAGTGGAA
131 ATGAACTAGTTGGATGACACT-GAA
* * * *
59663745 TGCTGTTGAAATCC-TT-TGTATATTTATCGACCTATGACCATCGTTAGAGTAGTATTATAGGAG
1 TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
* * * *
59663808 GGTA-TTTTTGGCAATTCGTCAGGGACATACACATCGGGCCCTTAGAGGTTTTTAGTGATTTATG
66 GGTACTTTTT-GCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATG
59663872 GATGAACT
130 GATGAACT
59663880 GGTTCCTGAT
Statistics
Matches: 116, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
152 5 0.04
153 96 0.83
154 2 0.02
155 13 0.11
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (154 bp):
TGCTGTTGAAATCCTTTGTGTATATATATCAACCTATGACCATCGTTAAAGTAGTATGATAGGAG
GGTACTTTTTGCAATTCCTCAGGGACATACACATCGGCCCCTTAGAAGTTTTCAGTGATTTATGG
ATGAACTAGTTGGATGACACTGAA
Found at i:59671202 original size:15 final size:14
Alignment explanation
Indices: 59671169--59671207 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
59671159 ATTTGATTGA
59671169 AAAATGACTTCTAG
1 AAAATGACTTCTAG
*
59671183 AAAATGATTTCTAG
1 AAAATGACTTCTAG
59671197 ACAAATGACTT
1 A-AAATGACTT
59671208 ACTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (14 bp):
AAAATGACTTCTAG
Found at i:59673283 original size:71 final size:71
Alignment explanation
Indices: 59673163--59673298 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 71
59673153 TTGAATTTGA
* *
59673163 GGTTTAACTTAGTTGATCCTTGTGAGTGGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
59673228 AACTTG
66 AACTTG
* * * *
59673234 GGTTTAACTCGGTTGATTCTTGTGAGTAGG-ATTGTTGAAACTTAGTGGACCAGAAAAGTAAATA
1 GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATT-TTGAAACTTAATGGACCAAAAAAGTAAATA
59673298 A
65 A
59673299 TTCGAGTCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 3 0.05
71 55 0.95
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (71 bp):
GGTTTAACTCAGTTGATCCTTGTGAGTAGGAATTTTGAAACTTAATGGACCAAAAAAGTAAATAA
AACTTG
Found at i:59673679 original size:109 final size:109
Alignment explanation
Indices: 59673567--59673942 Score: 383
Period size: 109 Copynumber: 3.5 Consensus size: 109
59673557 TAGAGTTACT
*
59673567 CCATTTGATTTATTAATATGATTATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * * * *
59673632 TGGGAAAGCAACAATGTATTGTAGCAATTGTGTGTAGGTTTAGT
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * **
59673676 CCATTTGATTTACTAATATGATCATTTGAACACACTAGTATTTCAATTTATATTAATGCCTTATT
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
* * * *
59673741 TGAGAGGGAAACAAAGTATTGTGGCAATTGTGTCTAGGCTTGGC
66 TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * * * * *
59673785 CCATTT-AGTTAATTAATATGATTATTT-AACAC-C-C-TTTTTCAATTTATGCTAATACC---T
1 CCATTTGA-TTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTAT
* *** * *
59673842 TT-GGAAGGGGAACAAAGTACCATGGTAGTTGTGTCTAGGTTTAGC
65 TTGGGAA-GGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
* * ** *
59673887 CCATTTGGTTTATTATTATGATCATTTGAACATGCTCGTATTTTAATTTACGTTAA
1 CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAA
59673943 CGTTAAGTCA
Statistics
Matches: 218, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
101 2 0.01
102 55 0.25
103 4 0.02
104 1 0.00
105 19 0.09
106 14 0.06
107 1 0.00
108 6 0.03
109 116 0.53
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (109 bp):
CCATTTGATTTATTAATATGATCATTTGAACACACTCGTATTTCAATTTACGTTAATGCCTTATT
TGGGAAGGAAACAAAGTATTGTGGCAATTGTGTCTAGGTTTAGC
Found at i:59674941 original size:9 final size:10
Alignment explanation
Indices: 59674915--59674948 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
59674905 TAAGGGTGTA
59674915 TTTAAAATTT
1 TTTAAAATTT
59674925 TTTAAAATTT
1 TTTAAAATTT
*
59674935 TTTAAATTTT
1 TTTAAAATTT
59674945 TTTA
1 TTTA
59674949 TATATTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:59681669 original size:15 final size:15
Alignment explanation
Indices: 59681649--59681678 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59681639 TAGCAAAAAA
59681649 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
59681664 TAAAAATTTAAATAT
1 TAAAAATTTAAATAT
59681679 AGAATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAATTTAAATAT
Found at i:59690972 original size:80 final size:82
Alignment explanation
Indices: 59690823--59690979 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 82
59690813 TAGGAAGGGC
* * *
59690823 TATGTTTATGAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTTTTTAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
59690888 ATTTAGAATTCAAAAGT
66 ATTTAGAATTCAAAAGT
* *
59690905 TATGTTTATAAGTTGCATCTCTAATGATCTA-T-TAAAAAAAACTTGGCTATTGTATAAAAAGAT
1 TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
59690968 ATTTAGAATTCA
66 ATTTAGAATTCA
59690980 GTAAATGAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 40 0.57
81 1 0.01
82 29 0.41
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (82 bp):
TATGTTTATAAGTTACATCTCTAATGATCTACTCAAAAAAAAACTTGGCTATTGTATAAAAAGAT
ATTTAGAATTCAAAAGT
Found at i:59695304 original size:10 final size:10
Alignment explanation
Indices: 59695276--59695319 Score: 56
Period size: 9 Copynumber: 4.4 Consensus size: 10
59695266 ATTATATATA
59695276 TTTTAT-ATT
1 TTTTATAATT
59695285 TTTTAAATAATT
1 TTTT--ATAATT
59695297 TTTTATAATT
1 TTTTATAATT
59695307 TTTT-TAATT
1 TTTTATAATT
59695316 TTTT
1 TTTT
59695320 TTTTAGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 13 0.41
10 10 0.31
11 2 0.06
12 7 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTATAATT
Found at i:59695590 original size:19 final size:21
Alignment explanation
Indices: 59695566--59695605 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
59695556 AGCATAAATT
59695566 ATATAATATA-TAT-AACATA
1 ATATAATATATTATAAACATA
59695585 ATATAATATATTATAAACATA
1 ATATAATATATTATAAACATA
59695606 GAAAATGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 3 0.16
21 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAATATATTATAAACATA
Found at i:59700726 original size:19 final size:20
Alignment explanation
Indices: 59700702--59700742 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
59700692 CTGAACCCTG
*
59700702 AATCTCGAACTCT-AACTCA
1 AATCTCGAACCCTAAACTCA
59700721 AATCTCGAACCCTAAACTCA
1 AATCTCGAACCCTAAACTCA
59700741 AA
1 AA
59700743 CTCTGAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (20 bp):
AATCTCGAACCCTAAACTCA
Found at i:59702996 original size:31 final size:31
Alignment explanation
Indices: 59702958--59703016 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
59702948 GATAGCCTAG
59702958 TGACTTAAATAAAAACTTTCAAATAGTTCAA
1 TGACTTAAATAAAAACTTTCAAATAGTTCAA
* **
59702989 TGACTTAAATGAAAACTTTTGAATAGTT
1 TGACTTAAATAAAAACTTTCAAATAGTT
59703017 TATTGACCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAA
Found at i:59713201 original size:15 final size:16
Alignment explanation
Indices: 59713173--59713202 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59713163 TCAAAAAATA
59713173 AATAAAATAATCATAC
1 AATAAAATAATCATAC
59713189 AATAAAA-AATCATA
1 AATAAAATAATCATA
59713203 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (16 bp):
AATAAAATAATCATAC
Found at i:59716659 original size:95 final size:94
Alignment explanation
Indices: 59716488--59716680 Score: 291
Period size: 95 Copynumber: 2.0 Consensus size: 94
59716478 ACTATTTGGC
* * *
59716488 AGTTAAGTTTGGCTTCAATTTTCAATTTGGTACTTGAATATTTTTTTGCCAATTTGGTACATGAG
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
*
59716553 TTTGGCCACAATGTTCATTTTGGTACCTG
66 TTTGGCCACAATGTTCATTTTGGTACCTA
*
59716582 AGTTGAGTTTGGCTTCAATCTTCAATTTGGCACCT-AA-ATTCTTTTTGTCCCAATTTGGTACAT
1 AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATT-TTTTTG--CCAATTTGGTACAT
*
59716645 GAGTTTGGCTACAATGTTCATTTTGGTACCTA
63 GAGTTTGGCCACAATGTTCATTTTGGTACCTA
59716677 AGTT
1 AGTT
59716681 TTTTTGTTTT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.03
93 8 0.09
94 31 0.34
95 48 0.53
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (94 bp):
AGTTAAGTTTGGCTTCAATCTTCAATTTGGCACCTGAATATTTTTTTGCCAATTTGGTACATGAG
TTTGGCCACAATGTTCATTTTGGTACCTA
Found at i:59718917 original size:19 final size:19
Alignment explanation
Indices: 59718888--59718930 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
59718878 GACCACATTT
*
59718888 CAATTGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
*
59718907 TAATGGGTTTTTTTAACGG
1 CAATGGGTTTTTTTAACGG
59718926 CAATG
1 CAATG
59718931 AATTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.44
Consensus pattern (19 bp):
CAATGGGTTTTTTTAACGG
Found at i:59718940 original size:20 final size:19
Alignment explanation
Indices: 59718894--59718939 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
59718884 ATTTCAATTG
* *
59718894 GTTTTTTTAACGGTAATGG
1 GTTTTTTTAACGGCAATGA
59718913 GTTTTTTTAACGGCAATGA
1 GTTTTTTTAACGGCAATGA
*
59718932 ATTTTTTT
1 GTTTTTTT
59718940 TTTAAATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.52
Consensus pattern (19 bp):
GTTTTTTTAACGGCAATGA
Found at i:59719724 original size:11 final size:11
Alignment explanation
Indices: 59719686--59719727 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
59719676 GTGTTTTATT
*
59719686 GTGAAGTAGAG
1 GTGAAGGAGAG
*
59719697 GTGAAAGAGAG
1 GTGAAGGAGAG
59719708 GTGAAGGAGAG
1 GTGAAGGAGAG
59719719 GTGAAGGAG
1 GTGAAGGAG
59719728 TTCGATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.50, T:0.12
Consensus pattern (11 bp):
GTGAAGGAGAG
Found at i:59721021 original size:56 final size:56
Alignment explanation
Indices: 59720961--59721069 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 56
59720951 AGTAGTTACG
* *
59720961 TTAGAAATCAAATTGATAAAATATAATGCCCCATAATAATATCCTATAATATCCCA
1 TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATCCCA
* * * *
59721017 TTAGAAATCAAATTGTTAAGAGATAATATCTCATAATAATATCCTATAATATC
1 TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATC
59721070 TGTTAAAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (56 bp):
TTAGAAATCAAATTGATAAAAGATAATACCCCATAATAATATCCTATAATATCCCA
Found at i:59731342 original size:4 final size:4
Alignment explanation
Indices: 59731335--59731369 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
59731325 ATGCATGCAT
* *
59731335 TATG TATG TATG AATA TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
59731370 ACAGACCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:59731851 original size:217 final size:213
Alignment explanation
Indices: 59731351--59731963 Score: 937
Period size: 217 Copynumber: 2.9 Consensus size: 213
59731341 TGTATGAATA
* * * *
59731351 TATGTATGTATGTATGTATACAGACCATATTTACCAT-TAACAATAACACCTAACAATGAGAGTA
1 TATGCATGTATGTATGTATACACACCATATTTTCCATCT-ACAAGAACACCTAACAATGAGAGTA
* * *
59731415 CCATATGGGAGAAAAAACATGCATAGGTTGGTCACCATTTGAATCAATGCCTG-TAAGAAATCAA
65 CCATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCC-GATAAGAAATCAA
59731479 AGGCATATGCTATCAACTGCAGGCCTA-TTAGCCATGACTTTTCTCCTAACATATTTACCACCAA
129 AGGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAA
59731543 CAGGTATATATACATGTAGG
194 CAGGTATATATACATGTAGG
* *
59731563 TATGCATGTATGTGTGTATACACACCATATTTTCCATCAACAAGAACACCTAACAATGAGAGTAC
1 TATGCATGTATGTATGTATACACACCATATTTTCCATCTACAAGAACACCTAACAATGAGAGTAC
59731628 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCGATAAGAAATCAAAG
66 CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCGATAAGAAATCAAAG
*
59731693 GCATATGCTATCAACTACAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
131 GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
*
59731758 TGTATGTATATATATATGTAGG
196 -G---GTATATATACATGTAGG
59731780 TATGCATGTATGTATGTATACACACCATATTTTCCATCTACAAGAACACCTAACAATGAGAGTAC
1 TATGCATGTATGTATGTATACACACCATATTTTCCATCTACAAGAACACCTAACAATGAGAGTAC
** * * *
59731845 CATATGGGAGAAGAAACATGTATAGGTTGGTGCATTAATTAAAACAATGCCTATAAGAAATCAAA
66 CATATGGGAGAAGAAACATGTATAGGTTGGT-CACCATTTGAAACAATGCCGATAAGAAATCAAA
** * * * *
59731910 GGCAT-TAATATCAACTGCAGGCCCATTTAGCAATGACTTTTGTCTTAACATATT
130 GGCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATT
59731964 CATCGATATA
Statistics
Matches: 368, Mismatches: 25, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
211 1 0.00
212 142 0.39
213 39 0.11
214 1 0.00
217 152 0.41
218 33 0.09
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (213 bp):
TATGCATGTATGTATGTATACACACCATATTTTCCATCTACAAGAACACCTAACAATGAGAGTAC
CATATGGGAGAAGAAACATGTATAGGTTGGTCACCATTTGAAACAATGCCGATAAGAAATCAAAG
GCATATGCTATCAACTGCAGGCCTATTTAGCCATGACTTTTCTCCTAACATATTTACCACCAACA
GGTATATATACATGTAGG
Found at i:59733457 original size:13 final size:12
Alignment explanation
Indices: 59733439--59733469 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
59733429 GGGAAAAGTG
59733439 AGAAAAAAAGAAA
1 AGAAAAAAAG-AA
59733452 AGAAAAAAAGAA
1 AGAAAAAAAGAA
59733464 AGAAAA
1 AGAAAA
59733470 TTGGAGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAGAA
Found at i:59745160 original size:30 final size:30
Alignment explanation
Indices: 59745126--59745188 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
59745116 ACTTATTTTA
59745126 TTGTTAAATTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
* *
59745156 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAAATTTGTTATTATTTTAAAGGCAT
59745186 TTG
1 TTG
59745189 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGGCAT
Found at i:59745894 original size:21 final size:21
Alignment explanation
Indices: 59745868--59745917 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
59745858 TTAACCCAAG
*
59745868 AATAAAAGAAAAGGAAATAAA
1 AATAAAAGAAAAGAAAATAAA
* *
59745889 AATAAAATAAAATAAAATAAA
1 AATAAAAGAAAAGAAAATAAA
*
59745910 AATGAAAG
1 AATAAAAG
59745918 TAACTAGGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (21 bp):
AATAAAAGAAAAGAAAATAAA
Found at i:59745895 original size:5 final size:5
Alignment explanation
Indices: 59745868--59745910 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
59745858 TTAACCCAAG
* **
59745868 AATAA AAGAA AAGGA AATAAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AAT-AA AATAA AATAA AATAA AATAA AA
59745911 ATGAAAGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:59747913 original size:10 final size:10
Alignment explanation
Indices: 59747900--59747924 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59747890 AAACATAAGC
59747900 TATTTCTGAT
1 TATTTCTGAT
59747910 TATTTCTGAT
1 TATTTCTGAT
59747920 TATTT
1 TATTT
59747925 GAGGTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
TATTTCTGAT
Found at i:59752534 original size:24 final size:24
Alignment explanation
Indices: 59752507--59752555 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
59752497 CAACTGGGGT
59752507 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
59752531 TGCATTTAAAGGATCTGAGATTGA
1 TGCATTTAAAGGATCTGAGATTGA
59752555 T
1 T
59752556 CTTAAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
TGCATTTAAAGGATCTGAGATTGA
Found at i:59768149 original size:21 final size:21
Alignment explanation
Indices: 59768103--59768151 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
59768093 TTTGTTACAT
*
59768103 TATAAATAAAAAATTTAAACTC
1 TATAAATAAAAAATTTAAAC-A
*
59768125 TATAAGTAAAAAATTATAAA-A
1 TATAAATAAAAAATT-TAAACA
59768146 TATAAA
1 TATAAA
59768152 ATGAGATGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 5 0.22
22 14 0.61
23 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
TATAAATAAAAAATTTAAACA
Found at i:59781539 original size:31 final size:31
Alignment explanation
Indices: 59781471--59781547 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
59781461 TTGGTCTATT
*
59781471 TCGGTACCTAAACTTGACACTTTTTTCTAAT
1 TCGGTACCTAAACTTGACACTTTTTTCTAAG
*
59781502 TTGGTACCTAAACTTGACAC-TTTTTCTTAAG
1 TCGGTACCTAAACTTGACACTTTTTTC-TAAG
*
59781533 TCGGTACTTAAACTT
1 TCGGTACCTAAACTT
59781548 TTTGGGAGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 6 0.15
31 35 0.85
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (31 bp):
TCGGTACCTAAACTTGACACTTTTTTCTAAG
Found at i:59792519 original size:27 final size:27
Alignment explanation
Indices: 59792495--59792556 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 27
59792485 CACCAAAATT
*
59792495 TTATTTTTAAAATAAAAAATAAAAAAA
1 TTATTTTAAAAATAAAAAATAAAAAAA
59792522 TTATTTTAAAAATAAAAAATAAAAAATA
1 TTATTTTAAAAATAAAAAATAAAAAA-A
59792550 TATATTT
1 T-TATTT
59792557 ATTATATTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 25 0.78
28 2 0.06
29 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TTATTTTAAAAATAAAAAATAAAAAAA
Found at i:59795347 original size:22 final size:22
Alignment explanation
Indices: 59795316--59795361 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
59795306 CTCTTTATTT
* *
59795316 ATCTCTATAAT-ATCATTAGTTA
1 ATCTCAATAATCAACATT-GTTA
59795338 ATCTCAATAATCAACATTGTTA
1 ATCTCAATAATCAACATTGTTA
59795360 AT
1 AT
59795362 TATTCTGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (22 bp):
ATCTCAATAATCAACATTGTTA
Found at i:59795999 original size:22 final size:21
Alignment explanation
Indices: 59795953--59795999 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
59795943 CACTAATTCT
* *
59795953 TAATCTAATCGATTTGAACAC
1 TAATCTAATCGATTTGAAAAA
*
59795974 TAATCTAATCTGATTTTAAAAA
1 TAATCTAATC-GATTTGAAAAA
59795996 TAAT
1 TAAT
59796000 ACAACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (21 bp):
TAATCTAATCGATTTGAAAAA
Found at i:59796470 original size:28 final size:29
Alignment explanation
Indices: 59796439--59796505 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
59796429 CTTAAAAAAA
* *
59796439 AAAAACTT-AACAATTTAGTAACTTAAAT
1 AAAAACTTGAAAAATTTAATAACTTAAAT
*
59796467 AAAAACTTATGAAAAATTTAATGACTTAAAT
1 AAAAAC-T-TGAAAAATTTAATAACTTAAAT
59796498 AAAAACTT
1 AAAAACTT
59796506 TCGAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 6 0.18
29 2 0.06
30 2 0.06
31 23 0.70
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAACTTGAAAAATTTAATAACTTAAAT
Found at i:59796516 original size:31 final size:31
Alignment explanation
Indices: 59796450--59796523 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
59796440 AAAACTTAAC
* *
59796450 AATTTAGTAACTTAAATAAAAACTTATGAAA
1 AATTTAATGACTTAAATAAAAACTTATGAAA
*
59796481 AATTTAATGACTTAAATAAAAACTT-TCGAAT
1 AATTTAATGACTTAAATAAAAACTTAT-GAAA
*
59796512 AATTTCATGACT
1 AATTTAATGACT
59796524 ATTTTATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (31 bp):
AATTTAATGACTTAAATAAAAACTTATGAAA
Found at i:59801153 original size:17 final size:18
Alignment explanation
Indices: 59801131--59801169 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
59801121 AATATACCCT
*
59801131 TTTTTTCTTTTTAT-ATA
1 TTTTTTATTTTTATAATA
*
59801148 TTTTTTATTTTTTTAATA
1 TTTTTTATTTTTATAATA
59801166 TTTT
1 TTTT
59801170 AAAAGAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTTATAATA
Found at i:59801153 original size:18 final size:18
Alignment explanation
Indices: 59801130--59801169 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
59801120 CAATATACCC
59801130 TTTTTT-TCTTTTTATATA
1 TTTTTTATCTTTTTA-ATA
*
59801148 TTTTTTATTTTTTTAATA
1 TTTTTTATCTTTTTAATA
59801166 TTTT
1 TTTT
59801170 AAAAGAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTATCTTTTTAATA
Found at i:59803023 original size:13 final size:13
Alignment explanation
Indices: 59803005--59803036 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
59802995 TTGGGTGAGC
59803005 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
59803018 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
59803031 AA-AAAA
1 AAGAAAA
59803037 GAGAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:59803034 original size:8 final size:7
Alignment explanation
Indices: 59803005--59803033 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
59802995 TTGGGTGAGC
59803005 AAGAAAA
1 AAGAAAA
59803012 AAG-AAA
1 AAGAAAA
59803018 AAGAAAA
1 AAGAAAA
59803025 AAGAAAA
1 AAGAAAA
59803032 AA
1 AA
59803034 AAAGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:59808025 original size:18 final size:17
Alignment explanation
Indices: 59807982--59808027 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
59807972 CCGTTATGTC
59807982 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
59807997 CACGA-CGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
59808014 CGCGACCGCGACCG
1 CGCGACCGCGACCG
59808028 CAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
17 7 0.28
18 8 0.32
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:59811125 original size:3 final size:3
Alignment explanation
Indices: 59811117--59811144 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
59811107 AATTTGTTTG
59811117 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
59811145 TCTTAATAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:59814425 original size:35 final size:35
Alignment explanation
Indices: 59814385--59814454 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
59814375 AATATTTAAG
59814385 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
1 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
59814420 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
1 ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
59814455 TGGTACACAT
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:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (35 bp):
ATAAATTTTGCTTTTTATTTTTAAGGGAAAATATT
Found at i:59815101 original size:30 final size:32
Alignment explanation
Indices: 59815060--59815133 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 32
59815050 GTGTTAAGTT
*
59815060 TTTGTATTTTTTGTATATTT-AGAATTTAG-TC
1 TTTG-ATTTTTTGTATATTTAAGAATTTAGCCC
* *
59815091 TTTGATTTTTTTTATTTTTAAGAATTTAGCCC
1 TTTGATTTTTTGTATATTTAAGAATTTAGCCC
*
59815123 TTTTATTTTTT
1 TTTGATTTTTT
59815134 AAAATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.35
31 13 0.35
32 11 0.30
ACGTcount: A:0.20, C:0.05, G:0.09, T:0.65
Consensus pattern (32 bp):
TTTGATTTTTTGTATATTTAAGAATTTAGCCC
Found at i:59820486 original size:14 final size:15
Alignment explanation
Indices: 59820467--59820495 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59820457 GTTTCCATTT
59820467 TCTTTCT-TCTTCCC
1 TCTTTCTCTCTTCCC
59820481 TCTTTCTCTCTTCCC
1 TCTTTCTCTCTTCCC
59820496 CTGCAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTCTCTCTTCCC
Found at i:59821486 original size:14 final size:15
Alignment explanation
Indices: 59821459--59821487 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59821449 TGATTTGCAG
59821459 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
59821474 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
59821488 AAATGGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:59826295 original size:20 final size:20
Alignment explanation
Indices: 59826261--59826298 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59826251 TCCCACATGG
59826261 TATAATGTAAAATAAAAGAA
1 TATAATGTAAAATAAAAGAA
59826281 TATAA-GTAAAGATAAAAG
1 TATAATGTAAA-ATAAAAG
59826299 CATCTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
TATAATGTAAAATAAAAGAA
Found at i:59826399 original size:12 final size:12
Alignment explanation
Indices: 59826382--59826408 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59826372 CATTGAAGGC
59826382 TCAAGATGAAAT
1 TCAAGATGAAAT
59826394 TCAAGATGAAAT
1 TCAAGATGAAAT
59826406 TCA
1 TCA
59826409 CTTCAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (12 bp):
TCAAGATGAAAT
Found at i:59831621 original size:17 final size:16
Alignment explanation
Indices: 59831599--59831645 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
59831589 CAATTAACTG
59831599 ACAAAATATATAAAAAT
1 ACAAAATA-ATAAAAAT
*
59831616 ACAAAA-AATATAAAT
1 ACAAAATAATAAAAAT
*
59831631 ATAAAATAATAAAAA
1 ACAAAATAATAAAAA
59831646 CGAACAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.46
16 8 0.31
17 6 0.23
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAAATAATAAAAAT
Found at i:59834675 original size:19 final size:18
Alignment explanation
Indices: 59834647--59834683 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
59834637 AAGTTGGATG
59834647 TTTTTCTTTTCTTCTCTTT
1 TTTTTCTTTTCTT-TCTTT
*
59834666 TTTTTGTTTTCTTTCTTT
1 TTTTTCTTTTCTTTCTTT
59834684 CTTGTGCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTCTTTTCTTTCTTT
Found at i:59841025 original size:129 final size:129
Alignment explanation
Indices: 59840793--59841102 Score: 430
Period size: 129 Copynumber: 2.4 Consensus size: 129
59840783 AAAAATTTAT
* * * * *
59840793 GTCAGAATGAGATACAC-TTG-ACATGCCATGTGTAACTGT-TTGGTTATTCTATGCATTTTATC
1 GTCAGAATGAGGTACACATGGCACAT--CATGTGTAACTGTCTT-GTTATTTTGTACATTTTATC
* * *
59840855 AAAAAGCAAACTGGTCATTTTATTAAAAATCTCATTCATTTCTACTGTTAAGAATTGGTCCTTGA
63 AAAAAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGA
59840920 AC
128 AC
59840922 GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
1 GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
* * *
59840987 AAGCAAACTGGTCATTCTATTAAAAGTTTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAT
66 AAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAC
* **
59841051 GTCAGAATGAGGTACACATGGCATGA-CATGTGTAACTGTCTAATTATTTTGT
1 GTCAGAATGAGGTACACATGGCA-CATCATGTGTAACTGTCTTGTTATTTTGT
59841103 TAATGTCAGT
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
129 154 0.94
130 5 0.03
131 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (129 bp):
GTCAGAATGAGGTACACATGGCACATCATGTGTAACTGTCTTGTTATTTTGTACATTTTATCAAA
AAGCAAACTGGTCATTCTATTAAAAATCTCATTAATTTCTACTATTAAGAATTGGTCCTTGAAC
Found at i:59843398 original size:58 final size:58
Alignment explanation
Indices: 59843274--59843399 Score: 220
Period size: 57 Copynumber: 2.2 Consensus size: 58
59843264 ATTTAAGATG
59843274 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
1 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
59843332 TATTTTTTAACAAATTTACATA-TTTTTTTATAAAATATCATGTTATATATATA-TAT
1 TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
59843388 ATATTATTTTAA
1 -TATT-TTTTAA
59843400 AATTAAAAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
56 3 0.05
57 35 0.53
58 28 0.42
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (58 bp):
TATTTTTTAACAAATTTACATATTTTTTTTATAAAATATCATGTTATATATATATTAT
Found at i:59843412 original size:25 final size:26
Alignment explanation
Indices: 59843384--59843443 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
59843374 TTATATATAT
**
59843384 ATATATATTATTTTAAAAT-TAAAAA
1 ATATATAAAATTTTAAAATATAAAAA
*
59843409 ATATATAAAATTTTTAAATATAAAAA
1 ATATATAAAATTTTAAAATATAAAAA
*
59843435 TTA-ATAAAA
1 ATATATAAAA
59843444 AAATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATATAAAATTTTAAAATATAAAAA
Found at i:59843419 original size:17 final size:17
Alignment explanation
Indices: 59843397--59843443 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
59843387 TATATTATTT
59843397 TAAAATTAAAAAATATA
1 TAAAATTAAAAAATATA
***
59843414 TAAAATTTTTAAATATA
1 TAAAATTAAAAAATATA
59843431 -AAAATTAATAAAA
1 TAAAATTAA-AAAA
59843444 AAATATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAATATA
Found at i:59853390 original size:5 final size:5
Alignment explanation
Indices: 59853377--59853413 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
59853367 ACCTTTTTCT
59853377 TTTTCA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
59853414 GTCCACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:59853673 original size:29 final size:29
Alignment explanation
Indices: 59853604--59853677 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
59853594 TCACTATTAT
*
59853604 ATTGACTTAT-ATTTTA-TAGTTTTTAAG
1 ATTGAATTATAATTTTATTAGTTTTTAAG
* * * *
59853631 ATTAAATCAAAATTTTATTATTTTTTAAG
1 ATTGAATTATAATTTTATTAGTTTTTAAG
*
59853660 GTTGAATTATAATTTTAT
1 ATTGAATTATAATTTTAT
59853678 CATGTATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 24 0.67
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (29 bp):
ATTGAATTATAATTTTATTAGTTTTTAAG
Found at i:59854020 original size:16 final size:15
Alignment explanation
Indices: 59853997--59854026 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
59853987 CATGATATTT
59853997 TAGTTATATAATATG
1 TAGTTATATAATATG
59854012 TAGTATATATAATAT
1 TAGT-TATATAATAT
59854027 AGATACTAAA
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:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
TAGTTATATAATATG
Found at i:59854823 original size:2 final size:2
Alignment explanation
Indices: 59854812--59854842 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
59854802 TTTCCAACCT
59854812 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59854843 ATAAACTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59862581 original size:105 final size:101
Alignment explanation
Indices: 59862448--59862664 Score: 290
Period size: 105 Copynumber: 2.1 Consensus size: 101
59862438 CATGGCCCTG
***
59862448 CCATGGTCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
* * * *
59862513 TCTATGGTCTTACACATGTATATATACTGCTATGGTCCAA
66 GCTATGGTCTT--ACAT-T-TAAACACTGCCATGGTCCAA
* * * * *
59862553 CCATGGTCTTACGTTCAAAGTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCCTA
1 CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
59862618 GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
66 GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
59862654 CCATGGTCTTA
1 CCATGGTCTTA
59862665 TCCGTCAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
101 28 0.28
102 1 0.01
103 4 0.04
105 67 0.67
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTCAAAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGACATAGCCCA
GCTATGGTCTTACATTTAAACACTGCCATGGTCCAA
Found at i:59862637 original size:33 final size:33
Alignment explanation
Indices: 59862450--59862646 Score: 92
Period size: 33 Copynumber: 5.7 Consensus size: 33
59862440 TGGCCCTGCC
** * *
59862450 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* * * *
59862483 ATGGTCTTATCA-TCAAAATGACATAGCCCATCT
1 ATGGTCTTA-CATTTAAAATGCCATAACCCAGCT
* * *** * *
59862516 ATGGTCTTACACATGTATATATACTGCTATGGTCCAACC
1 ATGGTCTT--ACAT-T-TA-A-AATGCCATAACCCAGCT
* * * *
59862555 ATGGTCTTACGTTCAAAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
* * *
59862588 ATGGTCTTTTCA-TTAAAATGCCATAGCCTAGCT
1 ATGGTC-TTACATTTAAAATGCCATAACCCAGCT
59862621 ATGGTCTTACATTTAAACACTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
59862647 GGTCCAACCA
Statistics
Matches: 118, Mismatches: 34, Indels: 22
0.68 0.20 0.13
Matches are distributed among these distances:
32 4 0.03
33 72 0.61
34 9 0.08
35 8 0.07
36 2 0.02
37 4 0.03
38 1 0.01
39 18 0.15
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:59868100 original size:104 final size:103
Alignment explanation
Indices: 59867915--59868105 Score: 249
Period size: 104 Copynumber: 1.8 Consensus size: 103
59867905 CATCTGCCGA
** **
59867915 ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATGCTACCGAAAATTAAAACTTACCA
1 ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATACAAAAAATTAAAACTTACCA
* *
59867980 ACAAGTATTGAATGCAGTGACAGTAACAATGGCAGAAT
66 ACAAATATTGAATGCAGCGACAGTAACAATGGCAGAAT
* * *
59868018 ATATAAATATTCATGTTATTTGCATTGTATCAGTTTCAAAATAATACAAAAAAATTAAAGC-TAC
1 ATAT-AATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATAC-AAAAAATTAAAACTTAC
* **
59868082 CAATAAATATTGGGTGCAGCGACA
64 CAACAAATATTGAATGCAGCGACA
59868106 ATAGTGGAAC
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
103 4 0.05
104 60 0.81
105 10 0.14
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (103 bp):
ATATAATATTCATGTTACTTGCATTGTATCAATTTCAAAATAATACAAAAAATTAAAACTTACCA
ACAAATATTGAATGCAGCGACAGTAACAATGGCAGAAT
Found at i:59869158 original size:52 final size:52
Alignment explanation
Indices: 59869080--59869184 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
59869070 TTTGACACAC
59869080 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
1 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
59869132 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
1 GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
59869184 G
1 G
59869185 CCAAGCTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.27
Consensus pattern (52 bp):
GTATACTTAATTGGTATAAAGAAAAACTGAAATACCAAATTGAACATTGAAA
Found at i:59871148 original size:39 final size:42
Alignment explanation
Indices: 59871085--59871175 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 42
59871075 TAAAAAGTAT
*
59871085 TTATATTAAAAAAAACTACTATAAATATAATGAAT-GTTTTA
1 TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
* *
59871126 TTATATTAAAAAACAC-A-TATAAATATAATAAATATTTTTA
1 TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
*
59871166 TTTTATTAAA
1 TTATATTAAA
59871176 TATAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 15 0.33
40 15 0.33
41 15 0.33
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (42 bp):
TTATATTAAAAAAAACTACTATAAATATAATAAATAGTTTTA
Found at i:59871176 original size:27 final size:28
Alignment explanation
Indices: 59871145--59871198 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
59871135 AAAACACATA
59871145 TAAATATAA-TAAATATTTT-TATTTTAT
1 TAAATATAATTAAA-ATTTTATATTTTAT
59871172 TAAATATAATTTAAAATTTTATATTTT
1 TAAATATAA-TTAAAATTTTATATTTT
59871199 GGGTTGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.38
28 5 0.21
29 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TAAATATAATTAAAATTTTATATTTTAT
Found at i:59880481 original size:20 final size:20
Alignment explanation
Indices: 59880456--59880494 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59880446 TTCATCTCAT
59880456 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
59880476 GCATCGCATTATATGCATT
1 GCATCGCATCATATGCATT
59880495 TAAGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:59888787 original size:50 final size:50
Alignment explanation
Indices: 59888530--59889259 Score: 428
Period size: 50 Copynumber: 14.7 Consensus size: 50
59888520 GGTTGAAAAG
* * * *
59888530 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGC
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
** * * * *** * * *
59888580 GGAACAGATTAAAGCTACGACGGCGGATCTGGTTTCCCT-GATATTGCAAT
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
* *
59888630 TAAA-AGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAG-
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
* * * * *** * * *
59888678 CAGAACA-ATTGAAGCTACGACAGCGGATCTGGTTTCCCT-GATATTGCAAT
1 TA-AACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
* * * *
59888728 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTAGCAGTGCAGT
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
* * * * *** * * *
59888778 GAAACAGATT-ATAGCTACGACAGCGGATCTGGTTTCCCT-GATATTGCAAT
1 TAAACAGATTGA-AGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
* **
59888828 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG-
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
* * * * * * *** * * *
59888877 CAGAATA-ATTGAAGCTACGACAGCGAATCTGGTTTCCCT-GATATTGCAAT
1 TA-AACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
* *
59888927 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGTAGTGCAGT
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
** * * * *** * * *
59888977 GGAACAGATTGAAGCTACGACGGTGGATCTGGTTTCCCT-GATATTGCAAT
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
*
59889027 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAG-
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
* * * *** * * *
59889076 TAGAACAGATTGAAGCTACGACAGCGGATCTGGTTTCCCT-GATATTGCAAT
1 TA-AACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
*
59889127 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAG-
1 TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
* * * *** * * *
59889176 TAGAACAGATTGAAGCTACGACAGCGGATCTGGTTTCCCT-GATATTGCAAT
1 TA-AACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-TAGTGCAGT
* *
59889227 TAAAAAGATTGAAGCCACAACGGCAGATCTTAC
1 TAAACAGATTGAAGCCACAACGGCGGATCTTAC
59889260 GGTGCGGTAG
Statistics
Matches: 483, Mismatches: 171, Indels: 52
0.68 0.24 0.07
Matches are distributed among these distances:
48 2 0.00
49 108 0.22
50 364 0.75
51 9 0.02
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
TAAACAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT
Found at i:59888833 original size:100 final size:101
Alignment explanation
Indices: 59888530--59889259 Score: 1203
Period size: 100 Copynumber: 7.3 Consensus size: 101
59888520 GGTTGAAAAG
* * *
59888530 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCG-GAACAGATTAAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
*
59888594 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
59888630 T-AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAG-CAGAACA-ATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
59888692 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
59888728 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTAGCAGTGCAGTGA-AACAGATT-ATA
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGA-A
59888791 GCTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
65 GCTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* * *
59888828 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAG-CAGAATA-ATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
*
59888891 CTACGACAGCGAATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
* *
59888927 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGTAGTGCAGTG-GAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
* *
59888991 CTACGACGGTGGATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
*
59889027 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT-AGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
59889091 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
*
59889127 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT-AGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
59889191 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
66 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
*
59889227 TAAAAAGATTGAAGCCACAACGGCAGATCTTAC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTAC
59889260 GGTGCGGTAG
Statistics
Matches: 595, Mismatches: 25, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
98 42 0.07
99 192 0.32
100 361 0.61
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (101 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGAGAACAGATTGAAG
CTACGACAGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:59888930 original size:199 final size:199
Alignment explanation
Indices: 59888530--59889259 Score: 1232
Period size: 199 Copynumber: 3.7 Consensus size: 199
59888520 GGTTGAAAAG
** * * *
59888530 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTAAAGC
1 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGC
* *
59888595 TACGACGGCGGATCTGGTTTCCCTGATATTGCAATT-AAAAGATTGAAGCCACAACGGTGGATCT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
59888659 TACTTCCTTAGCAGTGCAGCAGAACAATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTG
131 TACTTCCTTAGCAGTGCAGCAGAACAATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTG
59888724 CAAT
196 CAAT
*
59888728 TAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCTTAGCAGTGCAGTGAAACAGATT-ATAG
1 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGAAACAGATTGA-AG
59888792 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * *
59888857 TTACTTCCTTAACAGTGCAGCAGAATAATTGAAGCTACGACAGCGAATCTGGTTTCCCTGATATT
130 TTACTTCCTTAGCAGTGCAGCAGAACAATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATT
59888922 GCAAT
195 GCAAT
* *
59888927 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGTAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGC
* *
59888992 TACGACGGTGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
66 TACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
* *
59889057 TACTTCCTTAGTAGTGCAGTAGAACAGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATT
131 TACTTCCTTAGCAGTGCAGCAGAACA-ATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATT
59889122 GCAAT
195 GCAAT
* *
59889127 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGTAGTGCAGT-AGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGA-AACAGATTGAAG
*
59889191 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCAGATC
65 CTACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
59889256 TTAC
130 TTAC
59889260 GGTGCGGTAG
Statistics
Matches: 502, Mismatches: 25, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
197 1 0.00
198 93 0.19
199 238 0.47
200 170 0.34
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (199 bp):
TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGC
TACGACAGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
TACTTCCTTAGCAGTGCAGCAGAACAATTGAAGCTACGACAGCGGATCTGGTTTCCCTGATATTG
CAAT
Found at i:59893474 original size:21 final size:22
Alignment explanation
Indices: 59893435--59893475 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59893425 ATTAACTATT
* *
59893435 ATAAAAATATTGCCTATGTATG
1 ATAAAAAAATTGACTATGTATG
59893457 ATAAAAAAATTGAC-ATGTA
1 ATAAAAAAATTGACTATGTA
59893476 AATGTTGACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (22 bp):
ATAAAAAAATTGACTATGTATG
Found at i:59894351 original size:22 final size:22
Alignment explanation
Indices: 59894326--59894367 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
59894316 TTAATCTGAT
*
59894326 ATATCAATTATATTGATATAAA
1 ATATCAATTATATTAATATAAA
* *
59894348 ATATTATTTATATTAATATA
1 ATATCAATTATATTAATATA
59894368 TATTTAACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATCAATTATATTAATATAAA
Found at i:59913555 original size:18 final size:18
Alignment explanation
Indices: 59913532--59913624 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
59913522 CCCAACTACT
59913532 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
59913550 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
59913568 ATATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* * *
59913586 ATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
59913604 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
59913622 GTA
1 GTA
59913625 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:59913580 original size:36 final size:36
Alignment explanation
Indices: 59913533--59913624 Score: 148
Period size: 36 Copynumber: 2.6 Consensus size: 36
59913523 CCAACTACTG
*
59913533 TATACGTGAATAGTACCGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
** *
59913569 TATACGTGAATAGTACTATATACGTAAATAGTGCCG
1 TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
59913605 TATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
59913625 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (36 bp):
TATACGTGAATAGTACCGTATACGTAAATAGTGCCA
Found at i:59915872 original size:19 final size:19
Alignment explanation
Indices: 59915848--59915885 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59915838 TTGATGTTGG
59915848 GGATAATGAATAATAGTTT
1 GGATAATGAATAATAGTTT
59915867 GGATAATGAATAATAGTTT
1 GGATAATGAATAATAGTTT
59915886 TCTTGCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (19 bp):
GGATAATGAATAATAGTTT
Found at i:59921773 original size:3 final size:3
Alignment explanation
Indices: 59921759--59921863 Score: 133
Period size: 3 Copynumber: 35.3 Consensus size: 3
59921749 CCTGTCATTG
* * * *
59921759 TTA TTT TTA TTA TTA TTA -AA CTAA TT- TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
59921803 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
59921851 TTA TCA TTA TTA T
1 TTA TTA TTA TTA T
59921864 GTATATCTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
2 3 0.03
3 84 0.94
4 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:59921977 original size:12 final size:12
Alignment explanation
Indices: 59921960--59921993 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
59921950 ATATTTTATA
59921960 ATCTATATACAT
1 ATCTATATACAT
59921972 ATCTATAT--AT
1 ATCTATATACAT
59921982 ATCTATATACAT
1 ATCTATATACAT
59921994 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (12 bp):
ATCTATATACAT
Found at i:59925976 original size:15 final size:15
Alignment explanation
Indices: 59925956--59925984 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
59925946 TACATCAACC
59925956 CCATCCTTATCTCCG
1 CCATCCTTATCTCCG
59925971 CCATCCTTATCTCC
1 CCATCCTTATCTCC
59925985 TGCACCTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.48, G:0.03, T:0.34
Consensus pattern (15 bp):
CCATCCTTATCTCCG
Done.