Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 143 of 444
Found at i:38255733 original size:25 final size:25
Alignment explanation
Indices: 38255704--38255751 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38255694 TTATAATATG
* * *
38255704 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38255729 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38255752 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38255857 original size:20 final size:20
Alignment explanation
Indices: 38255795--38255849 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
38255785 TAAACATGAT
38255795 TGTATGATATGCACATGACA
1 TGTATGATATGCACATGACA
*
38255815 TGTATGATATGCACATGATA
1 TGTATGATATGCACATGACA
38255835 TGTATGATATGCACA
1 TGTATGATATGCACA
38255850 CGAGATGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (20 bp):
TGTATGATATGCACATGACA
Found at i:38255936 original size:24 final size:24
Alignment explanation
Indices: 38255903--38256020 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
38255893 GAGGAAGTGC
38255903 AAAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38255926 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38255950 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38255973 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
38255997 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38256021 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
23 33 0.38
24 38 0.43
25 17 0.19
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38255972 original size:47 final size:47
Alignment explanation
Indices: 38255907--38255999 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
38255897 AAGTGCAAAA
38255907 GGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATTAAAG
38255954 GGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATTAAA
38256000 AGAGGCTAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 35 0.78
48 10 0.22
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (47 bp):
GGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATTAAAG
Found at i:38256248 original size:31 final size:31
Alignment explanation
Indices: 38256213--38256276 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38256203 CGTTTACAGT
38256213 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
38256244 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38256275 AA
1 AA
38256277 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38264602 original size:29 final size:29
Alignment explanation
Indices: 38264569--38264699 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
38264559 TGACGAGATC
*
38264569 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
38264598 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
38264627 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
38264656 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
38264685 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
38264700 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:38272585 original size:29 final size:29
Alignment explanation
Indices: 38272552--38272682 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
38272542 TGACGAGATC
*
38272552 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
38272581 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
38272610 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
38272639 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
38272668 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
38272683 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:38274700 original size:57 final size:57
Alignment explanation
Indices: 38274563--38274700 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 57
38274553 AAGATTACTT
* ** * *
38274563 GTCCAAGCTAAATCCTATTTCCAACATATGCTCATAAGAGCTTAATCAGGATTACCC
1 GTCCAGGCTAAATCCTATTTATAACATATGCTCATAAGAGCTTAATCAGGATTAACA
* * *
38274620 GTCC-GTGCTAAATCCTATCTATAACATATG-TCA-AGAGGGCTTATATTAGGATTAACA
1 GTCCAG-GCTAAATCCTATTTATAACATATGCTCATA-AGAGCTTA-ATCAGGATTAACA
*
38274677 GTCCAGGCTAAATCCTTTTTATAA
1 GTCCAGGCTAAATCCTATTTATAA
38274701 TGAGGTCAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.01
56 10 0.15
57 55 0.82
58 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (57 bp):
GTCCAGGCTAAATCCTATTTATAACATATGCTCATAAGAGCTTAATCAGGATTAACA
Found at i:38280939 original size:29 final size:29
Alignment explanation
Indices: 38280907--38281038 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
38280897 ATACCCTTCG
** * *
38280907 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
38280936 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
38280965 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
38280994 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
38281023 AGCACGCACACTTAGT
1 AGCTCGCACACTTAGT
38281039 TCCAATCTCG
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:38281034 original size:58 final size:58
Alignment explanation
Indices: 38280882--38281038 Score: 170
Period size: 58 Copynumber: 2.7 Consensus size: 58
38280872 AATTTAAGCC
* *** * * ** * *
38280882 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
38280940 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
38280998 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGT
38281039 TCCAATCTCG
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 80 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:38281876 original size:143 final size:141
Alignment explanation
Indices: 38281686--38281980 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
38281676 AAATTCTATA
38281686 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
38281751 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
38281816 GAAGACAACAT
131 GAAAACAACAT
38281827 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
38281892 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
38281957 AGGAAAACAACAT
129 AGGAAAACAACAT
38281970 GCATGGCCGAA
1 GCATGGCCGAA
38281981 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:38295197 original size:47 final size:47
Alignment explanation
Indices: 38295128--38295668 Score: 866
Period size: 47 Copynumber: 11.5 Consensus size: 47
38295118 ACAAATGCCC
* * *
38295128 TTCGGGCTTATCACATTTATACACTTTCACATCCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * * *
38295175 TTCGGCCTTCTCACATATATACACCTTCACATCCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
38295222 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
38295269 TTCGACCTTATCACATATATACACTTTCACATTCATCACGTTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295316 CTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295363 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295410 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * * *
38295457 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295504 TTCGGCCTTATCACATATATACACTTTCACATTCATCACGTTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295551 CTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
38295598 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
38295645 TTAGGCCTTATCACATATACACAC
1 TTCGGCCTTATCACATATATACAC
38295669 CTTGTACATC
Statistics
Matches: 458, Mismatches: 36, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 458 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
Found at i:38299479 original size:29 final size:28
Alignment explanation
Indices: 38299430--38299520 Score: 137
Period size: 29 Copynumber: 3.2 Consensus size: 28
38299420 GAAAGCATGA
38299430 ATATGAATGTGACTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
*
38299459 ATATGAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
38299488 ATATGAATGAGATTGGGCCTAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
38299516 ATATG
1 ATATG
38299521 CATATATGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 19 0.33
29 38 0.67
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:38306957 original size:16 final size:16
Alignment explanation
Indices: 38306936--38306973 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38306926 TGGTAAATCT
*
38306936 TGAAATGCCAAAAAGC
1 TGAAATACCAAAAAGC
*
38306952 TGAAATACCGAAAAGC
1 TGAAATACCAAAAAGC
38306968 TGAAAT
1 TGAAAT
38306974 TTTGGCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (16 bp):
TGAAATACCAAAAAGC
Found at i:38307265 original size:28 final size:29
Alignment explanation
Indices: 38307183--38307272 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
38307173 AAAGCATGAC
*
38307183 TATGAATGTGACTTGGGCCTAATGGGCCA
1 TATGAATGAGACTTGGGCCTAATGGGCCA
*
38307212 TATGAAT-ATGATTTGGGCCTAATGGGCCA
1 TATGAATGA-GACTTGGGCCTAATGGGCCA
**
38307241 TATGAATGAGA-TTGGGCCTGGTGGGCCA
1 TATGAATGAGACTTGGGCCTAATGGGCCA
38307269 TATG
1 TATG
38307273 CAAAACTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 19 0.35
29 35 0.64
30 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
TATGAATGAGACTTGGGCCTAATGGGCCA
Found at i:38311277 original size:43 final size:43
Alignment explanation
Indices: 38311207--38311313 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
38311197 TGTGATTTTT
* * * * * *
38311207 TGTAAGACCATGTCTAGGACACTGGCATTGATAAGAGATTACG
1 TGTAAGACCATATCTAGGATACAGGCATCGATAAGAGATAACA
* * * *
38311250 TGTAAGACCCTATCTAGGATAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATATCTAGGATACAGGCATCGATAAGAGATAACA
*
38311293 TGTAAGACCATATCTGGGATA
1 TGTAAGACCATATCTAGGATA
38311314 TGGCATTATA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATATCTAGGATACAGGCATCGATAAGAGATAACA
Found at i:38316808 original size:46 final size:44
Alignment explanation
Indices: 38316755--38316878 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 44
38316745 TCATCCATCA
* *
38316755 AGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATTTTG
1 AGTCGATG-CATGTCCCAGACAT-GTCTTACACTGACTACATCTCG
* *
38316800 TAGTCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCG
1 -AGTCGATGCATGTCCCAGACATGTCTTACACTGAC-TACATCTCG
*
38316846 AGGCCGATGCATGTCCCAGACATGTCTTACACT
1 A-GTCGATGCATGTCCCAGACATGTCTTACACT
38316879 AGCACACAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
44 12 0.17
45 14 0.20
46 43 0.62
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (44 bp):
AGTCGATGCATGTCCCAGACATGTCTTACACTGACTACATCTCG
Found at i:38322270 original size:29 final size:29
Alignment explanation
Indices: 38322242--38322343 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
38322232 CCTCCGAGCT
** * * *
38322242 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38322271 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38322300 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38322329 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
38322344 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38330131 original size:29 final size:29
Alignment explanation
Indices: 38330103--38330204 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
38330093 CCTCCGAGCT
** * * *
38330103 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38330132 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38330161 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38330190 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
38330205 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38331757 original size:38 final size:37
Alignment explanation
Indices: 38331701--38331793 Score: 141
Period size: 38 Copynumber: 2.5 Consensus size: 37
38331691 GGATGTCACA
*
38331701 TATCGAGTCTTACCCGGACAAAATCTCCACACGAAGT
1 TATCGGGTCTTACCCGGACAAAATCTCCACACGAAGT
* *
38331738 TATCGGGTCTTTACCCGGACATAATCTCCACACGTAGT
1 TATCGGGTC-TTACCCGGACAAAATCTCCACACGAAGT
*
38331776 CATCGGGTCTTACCCGGA
1 TATCGGGTCTTACCCGGA
38331794 ATATATTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 17 0.33
38 34 0.67
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
TATCGGGTCTTACCCGGACAAAATCTCCACACGAAGT
Found at i:38332110 original size:48 final size:48
Alignment explanation
Indices: 38331941--38332433 Score: 690
Period size: 48 Copynumber: 10.1 Consensus size: 48
38331931 ATCGCCTACG
*
38331941 TATTTCACACTAGCCATTCGGC-TTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
* *
38331988 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACA
*
38332038 TATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACA
1 TATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACA
* *
38332086 TATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATATA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
* * *
38332134 TATATGTCACATTAACCATTCAGCTTTACCACATATACATATCAT-ATATA
1 TAT-T-TCACATTAGCCATTCGGCTTTACCACATATACATATC-TCATACA
*
38332184 TATTTCGCATTAGCCATTCGGCTTTACCA-ATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
38332231 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
38332279 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--------ATACA
*
38332335 TATTTCGCATTAGCCATTCGGCTTTACC-CAATATACATATCTCATACA
1 TATTTCACATTAGCCATTCGGCTTTACCAC-ATATACATATCTCATACA
* *
38332383 TATTTTACATTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
38332431 TAT
1 TAT
38332434 ATATATAATA
Statistics
Matches: 407, Mismatches: 19, Indels: 39
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.00
47 65 0.16
48 203 0.50
49 5 0.01
50 87 0.21
51 1 0.00
55 1 0.00
56 44 0.11
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
Found at i:38332433 original size:2 final size:2
Alignment explanation
Indices: 38332426--38332462 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
38332416 TACATATCTC
38332426 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38332463 TTACATTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38332439 original size:17 final size:17
Alignment explanation
Indices: 38332426--38332462 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
38332416 TACATATCTC
38332426 ATATATATATATATAAT
1 ATATATATATATATAAT
38332443 ATATATATATATAT-AT
1 ATATATATATATATAAT
38332459 ATAT
1 ATAT
38332463 TTACATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATATATATAAT
Found at i:38332440 original size:104 final size:98
Alignment explanation
Indices: 38331941--38332435 Score: 752
Period size: 98 Copynumber: 5.0 Consensus size: 98
38331931 ATCGCCTACG
* *
38331941 TATTTCACACTAGCCATTCGGC-TTACCACATATACATATCTCATACATATTTCACACTAGCCAT
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
38332005 TCGGCTTTACCACATATACATATCTCATATATA
66 TCGGCTTTACCACATATACATATCTCATATATA
*
38332038 TATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 TATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
38332102 TTCAGCTTTACCACATATACATATCTCATATATA
65 TTCGGCTTTACCACATATACATATCTCATATATA
* * * * *
38332136 TATGTCACATTAACCATTCAGCTTTACCACATATACATATCAT-ATATATATTTCGCATTAGCCA
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATC-TCATACATATTTCACATTAGCCA
*
38332200 TTCGGCTTTACCA-ATATACATATCTC--ATACA
65 TTCGGCTTTACCACATATACATATCTCATATATA
38332231 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
1 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
38332296 TCGGCTTTACCACATATACATATCTCATATATATATATA
66 TCGGCTTTACCACATATACATATCTC------ATATATA
* *
38332335 TATTTCGCATTAGCCATTCGGCTTTACC-CAATATACATATCTCATACATATTTTACATTAGCCA
1 TATTTCACATTAGCCATTCGGCTTTACCAC-ATATACATATCTCATACATATTTCACATTAGCCA
38332399 TTCGGCTTTACCACATATACATATCTCATATATA
65 TTCGGCTTTACCACATATACATATCTCATATATA
38332433 TAT
1 TAT
38332436 ATATAATATA
Statistics
Matches: 363, Mismatches: 20, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
94 1 0.00
95 74 0.20
96 14 0.04
97 32 0.09
98 149 0.41
99 1 0.00
103 1 0.00
104 91 0.25
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
TCGGCTTTACCACATATACATATCTCATATATA
Found at i:38332466 original size:76 final size:74
Alignment explanation
Indices: 38332364--38332511 Score: 217
Period size: 76 Copynumber: 2.0 Consensus size: 74
38332354 GGCTTTACCC
* * *
38332364 AATATACATATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 AATATACATATATCATACATATTTTACATTAACCATTCAGCTTTA-CACA-ATACATATCTCATA
38332429 TATATATATAT
64 TATATATATAT
* *
38332440 AATATATATATAT-ATATATATATTTACATTAACCATTCAGCTTTACACAATACATATCTCATAT
1 AATATACATATATCATACATAT-TTTACATTAACCATTCAGCTTTACACAATACATATCTCATAT
38332504 ATATATAT
65 ATATATAT
38332512 TTCGCATTAG
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
74 23 0.35
75 11 0.17
76 32 0.48
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.41
Consensus pattern (74 bp):
AATATACATATATCATACATATTTTACATTAACCATTCAGCTTTACACAATACATATCTCATATA
TATATATAT
Found at i:38332504 original size:47 final size:49
Alignment explanation
Indices: 38332453--38332597 Score: 190
Period size: 50 Copynumber: 3.0 Consensus size: 49
38332443 ATATATATAT
*
38332453 ATATATATATTTACATTAACCATTCAGCTTTA-CACA-ATACATATCTCA
1 ATATATATATTTACATTAGCCATTC-GCTTTACCACATATACATATCTCA
*
38332501 TATATATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTC-
1 -ATATATATATTT-ACATTAGCCATTC-GCTTTACCACATATACATATCTCA
* *
38332552 ATACATAT-TTCACATTAGCCATTCGCTTTACCACATATACATATCT
1 ATATATATATTTACATTAGCCATTCGCTTTACCACATATACATATCT
38332598 TATGCATCAA
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
47 22 0.25
48 12 0.14
49 14 0.16
50 24 0.28
51 4 0.05
52 11 0.13
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (49 bp):
ATATATATATTTACATTAGCCATTCGCTTTACCACATATACATATCTCA
Found at i:38336806 original size:27 final size:28
Alignment explanation
Indices: 38336762--38336859 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
38336752 ATAGTGAGTC
38336762 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
38336788 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38336816 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
38336846 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38336860 CATTCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.11
27 14 0.23
28 22 0.35
30 19 0.31
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38340257 original size:39 final size:40
Alignment explanation
Indices: 38340153--38340295 Score: 240
Period size: 39 Copynumber: 3.7 Consensus size: 40
38340143 TTCGAATGAT
*
38340153 ATCCGGG-TAATTCCCGAAGGCATTTGTGCGAG-TACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
38340191 AT-CGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
38340230 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
38340269 ATCCGGGTTAAGTCCCGAAGGCATTTG
1 ATCCGGGTTAATTCCCGAAGGCATTTG
38340296 CGAATTACTA
Statistics
Matches: 99, Mismatches: 2, Indels: 6
0.93 0.02 0.06
Matches are distributed among these distances:
37 4 0.04
38 27 0.27
39 45 0.45
40 23 0.23
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:38340313 original size:77 final size:77
Alignment explanation
Indices: 38340153--38340303 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
38340143 TTCGAATGAT
* *
38340153 ATCCGGGTAATTCCCGAAGGCATTTGTGCGAGTACTAAATCGGGTTAATTCCCGAAGGCATTTGT
1 ATCCGGGTAATTCCCGAAGGCATTTGTGCGAGTACCAAATCGGGTTAAGTCCCGAAGGCATTTGT
*
38340218 GCGAGTTACCAA
66 GCGAATTACCAA
38340230 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA-T
1 ATCCGGG-TAATTCCCGAAGGCATTTGTGCGAG-TACCAAAT-CGGGTTAAGTCCCGAAGGCATT
38340293 T-TGCGAATTAC
63 TGTGCGAATTAC
38340304 TATAACCGGG
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
77 25 0.37
78 24 0.35
79 19 0.28
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (77 bp):
ATCCGGGTAATTCCCGAAGGCATTTGTGCGAGTACCAAATCGGGTTAAGTCCCGAAGGCATTTGT
GCGAATTACCAA
Found at i:38340323 original size:77 final size:78
Alignment explanation
Indices: 38340153--38340326 Score: 225
Period size: 77 Copynumber: 2.3 Consensus size: 78
38340143 TTCGAATGAT
* *
38340153 ATCCGGG-TAATTCCCGAAGGCATTTGTGCGAGTACTAAATCGGGTTAATTCCCGAAGGCATTTG
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTACCAAATCGGGTTAAGTCCCGAAGGCATTTG
*
38340217 TGCGAGTTACCAA
66 TGCGAATTACCAA
*
38340230 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCA-T
1 ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAG-TACCAAAT-CGGGTTAAGTCCCGAAGGCATT
*
38340293 T-TGCGAATTACTATA
64 TGTGCGAATTACCA-A
38340308 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGCTAAT-TCCCGAAG
38340327 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
76 2 0.02
77 40 0.46
78 26 0.30
79 19 0.22
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
ATCCGGGCTAATTCCCGAAGGCATTTGTGCGAGTACCAAATCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACCAA
Found at i:38346976 original size:56 final size:53
Alignment explanation
Indices: 38346883--38346991 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 53
38346873 TATGAAAAAA
38346883 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
38346936 AAAGAAAAGAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
38346992 GAAAAGGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
53 8 0.17
54 5 0.10
55 2 0.04
56 30 0.62
57 3 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
AAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:38348252 original size:40 final size:40
Alignment explanation
Indices: 38348186--38348352 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
38348176 AAATTGAATG
* * *
38348186 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
38348225 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
38348265 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
38348305 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
38348345 ATATCCGG
1 ATATCCGG
38348353 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:38362499 original size:18 final size:17
Alignment explanation
Indices: 38362476--38362509 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
38362466 CATGTTGTTT
38362476 GCCCGTATGGGCCCACAC
1 GCCCGTAT-GGCCCACAC
*
38362494 GCCCGTGTGGCCCACA
1 GCCCGTATGGCCCACA
38362510 TGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCGTATGGCCCACAC
Found at i:38364865 original size:43 final size:43
Alignment explanation
Indices: 38364775--38364876 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
38364765 TAACGACATG
* * * *
38364775 TGATTATGCGTAAGACTATGTCTGGGACATTGGCGTCATTATC
1 TGATTACGAGTAAGACTATGTCTGGGACATTAGCATCATTATC
* * *
38364818 TGATTACGTGTAAGACTATGTCTGGGACATTAGCATCGTTATT
1 TGATTACGAGTAAGACTATGTCTGGGACATTAGCATCATTATC
*
38364861 TGATTTCGAGTAAGAC
1 TGATTACGAGTAAGAC
38364877 CATAGCTGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTACGAGTAAGACTATGTCTGGGACATTAGCATCATTATC
Found at i:38373209 original size:48 final size:48
Alignment explanation
Indices: 38373135--38373286 Score: 214
Period size: 48 Copynumber: 3.2 Consensus size: 48
38373125 ACATGGTAGA
* *
38373135 ATGCCAATGCCATATCCCAGATATAGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGAAATAGTCTTACATGGGATCACATATCG
** **
38373183 ATGCCAATGCCATGTCCCAGAAATAGTCTTACATGGGATCGTAGGTCG
1 ATGCCAATGCCATGTCCCAGAAATAGTCTTACATGGGATCACATATCG
* * *
38373231 ATGCCAATGGCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCCAATGCCATGTCCCAGAAATAGTCTTACATGGGATCACATATCG
*
38373279 GTGCCAAT
1 ATGCCAAT
38373287 AGCCCAGCTA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAGAAATAGTCTTACATGGGATCACATATCG
Found at i:38375129 original size:27 final size:27
Alignment explanation
Indices: 38375088--38375158 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
38375078 GCATTAGGAT
*
38375088 CCCATGTTTAATGTCCTAGCGGACTAC
1 CCCATGTTTAATGTCCTAACGGACTAC
* * * * *
38375115 CCCATTTTTACTGTCCCAATGGACTAT
1 CCCATGTTTAATGTCCTAACGGACTAC
*
38375142 CCCATGTTTAGTGTCCT
1 CCCATGTTTAATGTCCT
38375159 GATAGAATAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (27 bp):
CCCATGTTTAATGTCCTAACGGACTAC
Found at i:38376028 original size:25 final size:26
Alignment explanation
Indices: 38376000--38376048 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
38375990 ATCCATATTT
* *
38376000 TACCCC-AATTAAATTTTGACGATTG
1 TACCCCTAATAAAATTTTAACGATTG
*
38376025 TACCCCTAGTAAAATTTTAACGAT
1 TACCCCTAATAAAATTTTAACGAT
38376049 CAACATGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (26 bp):
TACCCCTAATAAAATTTTAACGATTG
Found at i:38376213 original size:25 final size:26
Alignment explanation
Indices: 38376185--38376242 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
38376175 TTTCATTTTT
38376185 ATTTCCA-TTTTGGAAACCAAAATTC
1 ATTTCCATTTTTGGAAACCAAAATTC
38376210 ATTTCCATTTTTGGAAACCAAAATTC
1 ATTTCCATTTTTGGAAACCAAAATTC
38376236 ATTTCCA
1 ATTTCCA
38376243 AATGATTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.22
26 25 0.78
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTTCCATTTTTGGAAACCAAAATTC
Found at i:38378853 original size:28 final size:28
Alignment explanation
Indices: 38378821--38378876 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
38378811 GATAAGGTTG
*
38378821 GCTTTATATAAGTCCACAAGAAATGAAA
1 GCTTTATATAAGTCCACAAGAAAGGAAA
38378849 GCTTTATATAAGTCCACAAGAAAGGAAA
1 GCTTTATATAAGTCCACAAGAAAGGAAA
38378877 ACTTAATAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.23
Consensus pattern (28 bp):
GCTTTATATAAGTCCACAAGAAAGGAAA
Found at i:38379695 original size:13 final size:13
Alignment explanation
Indices: 38379679--38379703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38379669 CAAATCACTC
38379679 AACCAAAGTGCCT
1 AACCAAAGTGCCT
38379692 AACCAAAGTGCC
1 AACCAAAGTGCC
38379704 CTCATTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (13 bp):
AACCAAAGTGCCT
Found at i:38381564 original size:40 final size:40
Alignment explanation
Indices: 38381499--38381618 Score: 222
Period size: 40 Copynumber: 3.0 Consensus size: 40
38381489 CGGATGTAAC
* *
38381499 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38381539 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38381579 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38381619 TTTTTCCAGC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38386164 original size:40 final size:39
Alignment explanation
Indices: 38386119--38386236 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 39
38386109 CGGAATATAA
38386119 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
38386159 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * *
38386199 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTA
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTA
38386237 ACCCTGTAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.02
40 60 0.95
41 1 0.02
42 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:38387695 original size:28 final size:28
Alignment explanation
Indices: 38387630--38387730 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38387620 ATAGTGAATC
*
38387630 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
38387659 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38387687 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
38387717 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38387731 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38392090 original size:121 final size:121
Alignment explanation
Indices: 38391876--38392117 Score: 484
Period size: 121 Copynumber: 2.0 Consensus size: 121
38391866 CCCAAAAGTA
38391876 AAAATTCAAAAACTACCAAAATATCTTTAGAGAGTGTGATTCTTCGAGTTGATCCAATCGCCCGA
1 AAAATTCAAAAACTACCAAAATATCTTTAGAGAGTGTGATTCTTCGAGTTGATCCAATCGCCCGA
38391941 TTTCTACAAAATGTAATCTACAAAGAAATTAAAGAAATGACACGAGTAAGCTTTAC
66 TTTCTACAAAATGTAATCTACAAAGAAATTAAAGAAATGACACGAGTAAGCTTTAC
38391997 AAAATTCAAAAACTACCAAAATATCTTTAGAGAGTGTGATTCTTCGAGTTGATCCAATCGCCCGA
1 AAAATTCAAAAACTACCAAAATATCTTTAGAGAGTGTGATTCTTCGAGTTGATCCAATCGCCCGA
38392062 TTTCTACAAAATGTAATCTACAAAGAAATTAAAGAAATGACACGAGTAAGCTTTAC
66 TTTCTACAAAATGTAATCTACAAAGAAATTAAAGAAATGACACGAGTAAGCTTTAC
38392118 TAGATCTTAG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (121 bp):
AAAATTCAAAAACTACCAAAATATCTTTAGAGAGTGTGATTCTTCGAGTTGATCCAATCGCCCGA
TTTCTACAAAATGTAATCTACAAAGAAATTAAAGAAATGACACGAGTAAGCTTTAC
Found at i:38404651 original size:43 final size:43
Alignment explanation
Indices: 38404544--38404657 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
38404534 ACATTAGGTT
* * * *
38404544 ATCGAGATGTGATTACATGTAAGACCATGTTTGGGACATTAGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTAGGACAGTAGC
* * * * *
38404587 ATC-ATTATATGATTTCGTGTAAGACCCTGTCTAGGACAGTGGC
1 ATCGA-TATGTGATTACATGTAAGACCATGTCTAGGACAGTAGC
*
38404630 ATCGATATGTGATAACATGTAAGACCAT
1 ATCGATATGTGATTACATGTAAGACCAT
38404658 ATATGGGATG
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 53 0.96
44 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTAGGACAGTAGC
Found at i:38406881 original size:45 final size:44
Alignment explanation
Indices: 38406797--38406928 Score: 142
Period size: 45 Copynumber: 2.9 Consensus size: 44
38406787 CCGATATACC
* *
38406797 AGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTTTT
1 AGCTCGTATGAGCTTAC--TTTTCAGCTCA-TAGAGCTTACCATTTT
*
38406844 AGCTCGTATGAGCTTACTCTTCAGCTCGATAGAGCTTACCATTTT
1 AGCTCGTATGAGCTTACTTTTCAGCTC-ATAGAGCTTACCATTTT
*
38406889 AGCT--TAATAGAGCTTACTGTTTCAGTTCAATAGAGCTTAC
1 AGCTCGT-AT-GAGCTTACT-TTTCAGCTC-ATAGAGCTTAC
38406929 TGATCATTAG
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 37 0.49
46 19 0.25
47 16 0.21
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (44 bp):
AGCTCGTATGAGCTTACTTTTCAGCTCATAGAGCTTACCATTTT
Found at i:38406926 original size:68 final size:69
Alignment explanation
Indices: 38406796--38406929 Score: 157
Period size: 68 Copynumber: 2.0 Consensus size: 69
38406786 ACCGATATAC
** * * *
38406796 CAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGAGCTTACCGTTTTAGCTCGTATGAGCTTAC
1 CAGCTCGTAAGAGCTTACCATTTTCAGCTCAATAGAGCTTACCGTTTCAGCTCATATGAGCTTAC
38406861 TCTT
66 TCTT
* * *
38406865 CAGCTCG-ATAGAGCTTACCATTTT-AGCTTAATAGAGCTTACTGTTTCAGTTCA-ATAGAGCTT
1 CAGCTCGTA-AGAGCTTACCATTTTCAGCTCAATAGAGCTTACCGTTTCAGCTCATAT-GAGCTT
38406927 ACT
64 ACT
38406930 GATCATTAGC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
67 2 0.04
68 33 0.60
69 20 0.36
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (69 bp):
CAGCTCGTAAGAGCTTACCATTTTCAGCTCAATAGAGCTTACCGTTTCAGCTCATATGAGCTTAC
TCTT
Found at i:38406929 original size:23 final size:23
Alignment explanation
Indices: 38406805--38406958 Score: 125
Period size: 23 Copynumber: 6.6 Consensus size: 23
38406795 CCAGCTCGTA
*
38406805 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
* * *
38406829 AGAGCTTACCGTTTTAGCTC-GT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
38406851 ATGAGCTTACT-CTTCAGCTCGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
** * *
38406874 AGAGCTTACCATTTTAGCTTAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
38406897 AGAGCTTACTGTTTCAGTTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
*
38406920 AGAGCTTACTGATCATT-AGCTCAAG
1 AGAGCTTACTG-T--TTCAGCTCAAT
38406945 AGGAGCTTACTGTT
1 A-GAGCTTACTGTT
38406959 CATGGCTCGA
Statistics
Matches: 104, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
22 17 0.16
23 56 0.54
24 11 0.11
25 8 0.08
26 12 0.12
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:38415601 original size:48 final size:48
Alignment explanation
Indices: 38415544--38415671 Score: 168
Period size: 48 Copynumber: 2.7 Consensus size: 48
38415534 CGATTAGTGA
* * *
38415544 GAGCCAGTGTAAGGCCATGTCTGGGATATGGTATCAGCGTTGATATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCATTGATATG-T
* * *
38415593 -AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCATTGATATGT
* *
38415640 GTGCCAGTGTAAGACCATATCTGGGATATGGC
1 GAGCCAGTGTAAGACCATGTCTGGGATATGGC
38415672 GTCGGTCTCG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 67 0.99
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCAGCATTGATATGT
Found at i:38415687 original size:48 final size:49
Alignment explanation
Indices: 38415546--38415721 Score: 164
Period size: 48 Copynumber: 3.7 Consensus size: 49
38415536 ATTAGTGAGA
* * * * * *
38415546 GCCAGTGTAAGGCCATGTCTGGGATATGGTATCAGCGTTGATA--TGAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
* * * *
38415593 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGTG-T
1 -GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
* *
38415642 GCCAGTGTAAGACCATATCTGGGATATGGCGTCGGTC-TCGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCATCGG-CATCGATATGTGAT
** *
38415691 TTCA-TGTAAGACCATATCTAGGATATGGCAT
1 GCCAGTGTAAGACCATATCTGGGATATGGCAT
38415722 TGATATGAGA
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 101 0.94
49 5 0.05
50 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GCCAGTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGAT
Found at i:38415806 original size:42 final size:42
Alignment explanation
Indices: 38415693--38415808 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 42
38415683 TATGTGATTT
* * * **
38415693 CATGTAAGACCATATCTAGGATATGGCATTGATATGAGATTT
1 CATGTAAGACCATGTCTAGGACATGGCATCGATATGAGATGC
* * * * * *
38415735 CGTGTAAGACTATGTCTGGGACTTAGCATCGATGTGA-AGTGC
1 CATGTAAGACCATGTCTAGGACATGGCATCGATATGAGA-TGC
*
38415777 CATGTAAGACCATGTCTAGAACATGGCATCGA
1 CATGTAAGACCATGTCTAGGACATGGCATCGA
38415809 CACTGACGTG
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
41 1 0.02
42 55 0.98
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATGTCTAGGACATGGCATCGATATGAGATGC
Found at i:38418648 original size:11 final size:11
Alignment explanation
Indices: 38418612--38418667 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
38418602 CATGGTATGT
38418612 ATGATATGCAC
1 ATGATATGCAC
* *
38418623 ATGACATG--T
1 ATGATATGCAC
38418632 ATGATATGCAC
1 ATGATATGCAC
*
38418643 ATGATATG--T
1 ATGATATGCAC
38418652 ATGATATGCAC
1 ATGATATGCAC
38418663 ATGAT
1 ATGAT
38418668 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38418667 original size:20 final size:20
Alignment explanation
Indices: 38418601--38418667 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
38418591 ATTTTGATAA
*
38418601 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38418621 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38418641 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38418661 ACATGAT
1 ACATGAT
38418668 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38418744 original size:24 final size:24
Alignment explanation
Indices: 38418717--38418870 Score: 263
Period size: 24 Copynumber: 6.4 Consensus size: 24
38418707 GAGGAAGTGC
*
38418717 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
38418741 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38418765 AAAAGGGCTTATGCCCCAGTGATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38418789 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
38418813 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
38418837 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
38418861 AAAAGAGGCT
1 AAAAG-GGCT
38418871 AGACCTCCAG
Statistics
Matches: 123, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
24 119 0.97
25 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:38422315 original size:49 final size:49
Alignment explanation
Indices: 38422246--38422542 Score: 551
Period size: 49 Copynumber: 6.0 Consensus size: 49
38422236 GTACATAATA
38422246 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
38422295 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38422344 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38422393 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38422442 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATG--TAT
*
38422493 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-ATATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
38422541 AT
1 AT
38422543 GTGGTAAAGC
Statistics
Matches: 243, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
48 5 0.02
49 191 0.79
50 4 0.02
51 43 0.18
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:38422567 original size:44 final size:42
Alignment explanation
Indices: 38422476--38422569 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 42
38422466 CGATGTGATG
* *
38422476 AATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCC
1 AATGTGAAAATGTATATATATATGTGATAAAGCCGAATGGCC
* * * * *
38422518 GATGTGATGAATGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGA-AAATGT-ATATATATATGTGATAAAGCCGAATGGCC
38422562 AATGTGAA
1 AATGTGAA
38422570 TGTTGTAACA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
42 6 0.15
43 5 0.12
44 30 0.73
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (42 bp):
AATGTGAAAATGTATATATATATGTGATAAAGCCGAATGGCC
Found at i:38422664 original size:37 final size:37
Alignment explanation
Indices: 38422623--38422695 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
38422613 TTCCAGGTGA
38422623 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
*
38422660 GACCCGATGACTATGTGTGGAGATTATGTCCGGGTA
1 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
38422696 AGACTTTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGGAGATTATGTCCGGGTAC
Found at i:38435231 original size:46 final size:46
Alignment explanation
Indices: 38435181--38435356 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
38435171 TGGTTGAGCA
38435181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38435227 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38435272 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38435320 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38435357 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38435337 original size:93 final size:93
Alignment explanation
Indices: 38435178--38435348 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38435168 GGATGGTTGA
* *
38435178 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38435243 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38435271 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38435336 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38435349 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38440949 original size:43 final size:42
Alignment explanation
Indices: 38440783--38440952 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 42
38440773 ATATCATACA
* * * *
38440783 ATGCCAACGTCCCAGACGTGGTTTTACATGCCATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AACCACATATCG
* * ** * * *
38440826 ATGCCACCGTCCTAGACAAGGTCTTACACGAATCAAATA-CA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAACCACATATCG
** *
38440867 ATGCCAATTTCCCAGAACTTGGTCTTACACGTAACCACATATCG
1 ATGCCAACGTCCCAG-ACGTGGTCTTACACG-AACCACATATCG
*
38440911 ATGCCAATGTCCCAGACGTGGTCTTACACAAGAA-CACATATC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC--GAACCACATATC
38440953 AGAAATGCTA
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 12 0.12
42 20 0.20
43 52 0.51
44 17 0.17
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAACCACATATCG
Found at i:38451572 original size:27 final size:27
Alignment explanation
Indices: 38451537--38451590 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
38451527 TATCATGTGA
* *
38451537 AATTAAATGGCAAATTATTGTTACATG
1 AATTAAATGGCAAATTACTATTACATG
* **
38451564 AATTGAATGTTAAATTACTATTACATG
1 AATTAAATGGCAAATTACTATTACATG
38451591 GGTTGTATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTAAATGGCAAATTACTATTACATG
Found at i:38451916 original size:49 final size:50
Alignment explanation
Indices: 38451836--38452076 Score: 252
Period size: 49 Copynumber: 4.8 Consensus size: 50
38451826 ATCTATTATG
* * ***
38451836 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTAAATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * * *
38451886 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATGACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAT-AATT
* * * * * * * **
38451936 CGATCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* *
38451986 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
38452036 -GGTCGCATGTGTAGTACTAAATGCAGGCTACTATGCGTACC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
38452077 AGACAACCTT
Statistics
Matches: 157, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.47
50 46 0.29
51 37 0.24
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Found at i:38452111 original size:150 final size:150
Alignment explanation
Indices: 38451836--38452112 Score: 380
Period size: 150 Copynumber: 1.8 Consensus size: 150
38451826 ATCTATTATG
* **
38451836 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTAAATGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAACATACCGGATAATTGGTCGCATGTGTAGT
* * ** ** * *
38451901 ACTAAGTGCAGGCTACTATGCGTACCTGATGACTTCGATCACGTGTGTAGTACTAAGTGCAGACT
66 ACTAAATGCAGGCTACTATGCGTACCAGACAACTTCGATCACAAGTGTAGAAATAAGTGCAGACT
38451966 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
**
38451986 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCATACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAACATACCGGATAATTGGTCGCATGTGTAGT
*
38452051 ACTAAATGCAGGCTACTATGCGTACCAGACAACCTT-G-TCTACAAGTG-AGAAAATATGTGCAG
66 ACTAAATGCAGGCTACTATGCGTACCAGACAA-CTTCGATC-ACAAGTGTAG-AAATAAGTGCAG
38452113 GCAACTGAGT
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
149 4 0.04
150 103 0.94
151 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTAAACATACCGGATAATTGGTCGCATGTGTAGT
ACTAAATGCAGGCTACTATGCGTACCAGACAACTTCGATCACAAGTGTAGAAATAAGTGCAGACT
ACTACGTGTATCAGATGGTT
Found at i:38456726 original size:40 final size:39
Alignment explanation
Indices: 38456682--38456850 Score: 128
Period size: 40 Copynumber: 4.2 Consensus size: 39
38456672 CTCGATTGTC
* *
38456682 TTCGGGACATAGCCCGGTTATAGTGATTCGCAC-AATTGCA
1 TTCGGGACATAGCCCGGTT-TAGTAACTCGCACGAA-TGCA
*
38456722 TTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGAATGCC
1 TTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACGAATGCA
* * * * *
38456762 TTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAATGCC
1 TTCGGGACATAGCCCGG-TTTAGTAACTCGCAC-GAATGCA
* * * * *
38456803 TTCGGGAC-TCAACCCAGTTTTGGTAACTCGCACAAATGCC
1 TTCGGGACAT-AGCCC-GGTTTAGTAACTCGCACGAATGCA
38456843 TTCGGGAC
1 TTCGGGAC
38456851 TTAACCCAGT
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 73 0.65
41 38 0.34
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
TTCGGGACATAGCCCGGTTTAGTAACTCGCACGAATGCA
Found at i:38456851 original size:40 final size:40
Alignment explanation
Indices: 38456709--38456893 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
38456699 TTATAGTGAT
* * * * * * *
38456709 TCGCACAATTGCATTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCAGTTTTGGTAAC
* *
38456749 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCAGTTTTGGTAAC
*
38456789 TCGCACAAAATGCCTTCGGGACTCAACCCAGTTTTGGTAAC
1 TCGCAC-AAATGCCTTCGGGACTTAACCCAGTTTTGGTAAC
*
38456830 TCGCACAAATGCCTTCGGGACTTAACCCAGTTTTGGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCAGTTTTGGTAAC
*
38456870 TTAGCACAAA-GCCTTCGGGACTTA
1 -TCGCACAAATGCCTTCGGGACTTA
38456894 GCCCGGATAC
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 85 0.65
41 45 0.35
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCAGTTTTGGTAAC
Found at i:38461454 original size:25 final size:25
Alignment explanation
Indices: 38461404--38461454 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
38461394 CCCTTATAAC
* * *
38461404 GTGAAAATGACCTTTTTGCCCTTAG
1 GTGAAAATGACCTTTATACCCCTAG
38461429 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
38461454 G
1 G
38461455 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:38461513 original size:10 final size:10
Alignment explanation
Indices: 38461498--38461532 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
38461488 TTTGTACATA
38461498 ATATGCCATG
1 ATATGCCATG
38461508 ATATGCACATG
1 ATATGC-CATG
38461519 ATATGCCATG
1 ATATGCCATG
38461529 ATAT
1 ATAT
38461533 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:38461517 original size:21 final size:21
Alignment explanation
Indices: 38461493--38461532 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38461483 ACTGATTTGT
38461493 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
38461514 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
38461533 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:38461538 original size:21 final size:20
Alignment explanation
Indices: 38461492--38461544 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
38461482 TACTGATTTG
*
38461492 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
38461513 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
38461534 TACATATATGC
1 TACATATATGC
38461545 ATGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:38461611 original size:25 final size:25
Alignment explanation
Indices: 38461578--38461647 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38461568 GAGGAAGTGA
*
38461578 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38461603 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
38461628 AAAAAGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38461648 ATTATAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:38461903 original size:31 final size:31
Alignment explanation
Indices: 38461868--38461951 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
38461858 CGTTTACAGT
38461868 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
38461899 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
38461930 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
38461952 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:38463773 original size:27 final size:27
Alignment explanation
Indices: 38463732--38463785 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
38463722 TGTCATGTGA
* *
38463732 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
38463759 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
38463786 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:38464203 original size:49 final size:49
Alignment explanation
Indices: 38464038--38464211 Score: 206
Period size: 51 Copynumber: 3.5 Consensus size: 49
38464028 TGAGGTCACG
* * * *
38464038 TGTGTAGTACGAAGTGCAAGCTACTACGTGTACAGGATAATT-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCA
* * * * * * *
38464086 TGTGTAGTACTAAGTGTAGGCTACTATGCGCACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT-GGTCGCA
*
38464137 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCA
*
38464186 TGTGTAGTACTAAGTGCAGCCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
38464212 TGTGTACTAG
Statistics
Matches: 103, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 32 0.31
49 30 0.29
50 2 0.02
51 39 0.38
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCA
Found at i:38464225 original size:49 final size:49
Alignment explanation
Indices: 38464038--38464225 Score: 191
Period size: 49 Copynumber: 3.8 Consensus size: 49
38464028 TGAGGTCACG
* * *
38464038 TGTGTAGTACGAAGTGCAAGCTACTACGTGTA-CAGGATAATT-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA-GATAATTGGTCGCA
* * * * * * *
38464086 TGTGTAGTACTAAGTGTAGGCTACTATGCGCACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCGCA
* *
38464137 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * *
38464186 TGTGTAGTACTAAGTGCAGCCTACTATGTGTACTAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
38464226 CCTTGTCTAC
Statistics
Matches: 113, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 31 0.27
49 41 0.36
50 2 0.02
51 39 0.35
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:38464257 original size:100 final size:99
Alignment explanation
Indices: 38464033--38464213 Score: 245
Period size: 99 Copynumber: 1.8 Consensus size: 99
38464023 TATTGTGAGG
* ** * *
38464033 TCACGTGTGTAGTACGAAGTGCAAGCTACTACGTGTACAGGATAATTGTCGCATGTGTAGTACTA
1 TCACGTGTGTAGAAATAAGTGCAGGCTACTACGCGTACAGGATAATTGTCGCATGTGTAGTACTA
* * *
38464098 AGTGTAGGCTACTATGCGCACCCGATAACTTCGA
66 AGTGCAGCCTACTATGCGCACCAGATAACTTCGA
* * * *
38464132 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGTATGTGTAGTACT
1 TCACGTGTGTAGAAATAAGTGCAGGCTACTACGCGTACAGGATAATT-GTCGCATGTGTAGTACT
38464197 AAGTGCAGCCTACTATG
65 AAGTGCAGCCTACTATG
38464214 TGTACTAGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
99 43 0.58
100 31 0.42
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (99 bp):
TCACGTGTGTAGAAATAAGTGCAGGCTACTACGCGTACAGGATAATTGTCGCATGTGTAGTACTA
AGTGCAGCCTACTATGCGCACCAGATAACTTCGA
Found at i:38469669 original size:40 final size:40
Alignment explanation
Indices: 38469614--38469778 Score: 190
Period size: 40 Copynumber: 4.2 Consensus size: 40
38469604 ATGATACCCA
* *
38469614 GGCTAAGTCCCGAAGGCATTTATGCGAGTGATTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCG
*
38469654 GGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCG
* * ** *
38469694 GGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCG
* * ** *
38469734 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCG
38469773 GGCTAA
1 GGCTAA
38469779 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCG
Found at i:38471269 original size:46 final size:46
Alignment explanation
Indices: 38471219--38471394 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38471209 TGGTTGAGCA
38471219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38471265 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38471310 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38471358 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38471395 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38471375 original size:93 final size:93
Alignment explanation
Indices: 38471216--38471387 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
38471206 GGATGGTTGA
* * *
38471216 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38471281 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38471309 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38471374 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38471388 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38474341 original size:27 final size:27
Alignment explanation
Indices: 38474288--38474341 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
38474278 TGTCATGTGA
* *
38474288 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
** *
38474315 AATTGAATGTTAAATTACTATTCCATG
1 AATTGAATGGCAAATTACTATTACATG
38474342 GGTTGTATGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:38474711 original size:49 final size:50
Alignment explanation
Indices: 38474541--38474730 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 50
38474531 TGAGGTAACG
* ** * *
38474541 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATAA-TTAGGTCACA
* * ** *
38474592 TGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACT-AGATAATTAGGTCACA
* *
38474642 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTGGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATAATTAGGTCACA
* * *
38474691 TGTGTAGTACTAAGTGCAGGCTGCTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATAA
38474731 CCTTGTCTAC
Statistics
Matches: 116, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 41 0.35
50 42 0.36
51 33 0.28
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATAATTAGGTCACA
Found at i:38476777 original size:13 final size:13
Alignment explanation
Indices: 38476759--38476783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38476749 TCGAGCACAC
38476759 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
38476772 GCCCGTGTCCCT
1 GCCCGTGTCCCT
38476784 CACATGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:38486042 original size:40 final size:40
Alignment explanation
Indices: 38486005--38486190 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
38485995 GCTACTCGTT
*
38486005 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
38486045 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38486085 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38486125 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38486166 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38486191 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38486900 original size:2 final size:2
Alignment explanation
Indices: 38486893--38486918 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38486883 TGTGCAAACA
38486893 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
38486919 GTGCAAGAGC
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):
AT
Found at i:38495560 original size:80 final size:81
Alignment explanation
Indices: 38495391--38495576 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 81
38495381 GCTACTCGTT
** *
38495391 CAAATGCCTTCGGGAGATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
38495455 GATTTAGTAGCTCGCA
66 GATATAGTAGCTAGCA
* **
38495471 CAAATGCCTTCGGGACTTCA-CCCGGATT-TAGTAACTGGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTT-AGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
38495533 CAGATATAGTCA-CTTAGCA
64 CAGATATAGT-AGC-TAGCA
38495552 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38495577 CATCATTCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
79 4 0.04
80 76 0.83
81 12 0.13
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
GATATAGTAGCTAGCA
Found at i:38495570 original size:40 final size:39
Alignment explanation
Indices: 38495391--38495576 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 39
38495381 GCTACTCGTT
** *
38495391 CAAATGCCTTCGGGAGATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ACTAGCA
* *
38495431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTAGCA
*
38495471 CAAATGCCTTCGGGACTTCA-CCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATTTAGT-ACTAGCA
* * *
38495511 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TAGCA
38495552 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38495577 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
39 5 0.04
40 107 0.84
41 15 0.12
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTAGCA
Found at i:38498516 original size:40 final size:40
Alignment explanation
Indices: 38498457--38498598 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
38498447 AAATTGAATG
* * *
38498457 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
38498497 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
38498537 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
38498577 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
38498599 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:38498599 original size:40 final size:39
Alignment explanation
Indices: 38498496--38498624 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
38498486 TGCTGGAAAT
* * *
38498496 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
38498536 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
38498576 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
38498616 TATATCCGG
1 TATATCCGG
38498625 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:38500344 original size:40 final size:40
Alignment explanation
Indices: 38500125--38500337 Score: 263
Period size: 40 Copynumber: 5.3 Consensus size: 40
38500115 GCTACTCGTT
* * *
38500125 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACCCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
38500165 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
38500205 CAAATGCCTTCGGATCTTTGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
38500245 CAAATGCCTTCGGATCTTAGTCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
38500285 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
38500326 CAAA-GCCTTCGG
1 CAAATGCCTTCGG
38500338 GACTTAGCCT
Statistics
Matches: 156, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 144 0.92
41 9 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:38501065 original size:2 final size:2
Alignment explanation
Indices: 38501058--38501089 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38501048 ATGTGCAAAC
38501058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38501090 GTGCAAGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38502990 original size:41 final size:43
Alignment explanation
Indices: 38502920--38503031 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 43
38502910 ATGCCATTAC
* * *
38502920 ATATCGATGCC-ACTCTCCCATACAGGGTCTTACACG-AATCAA
1 ATATCGATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCAA
* * * *
38502962 ATA-CGATGCTAATGTCCCAGACATGGTCTTACATGTAATCAC
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAATCAA
*
38503004 ATATCGATGCCAACGTCTCAGACATGGT
1 ATATCGATGCCAACGTCCCAGACATGGT
38503032 TTTTGGAACG
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 24 0.42
42 12 0.21
43 21 0.37
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATATCGATGCCAACGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:38503026 original size:43 final size:42
Alignment explanation
Indices: 38502901--38503031 Score: 124
Period size: 43 Copynumber: 3.1 Consensus size: 42
38502891 ATCCCAAATG
* * *
38502901 TGGTCTTACATGCCATTACATATCGATGCC-AC-TCTCCCATACA
1 TGGTCTTACATG-AATCACATATCGATGCCAACGTCT--CAGACA
* * * * * *
38502944 GGGTCTTACACGAATCAAATA-CGATGCTAATGTCCCAGACA
1 TGGTCTTACATGAATCACATATCGATGCCAACGTCTCAGACA
38502985 TGGTCTTACATGTAATCACATATCGATGCCAACGTCTCAGACA
1 TGGTCTTACATG-AATCACATATCGATGCCAACGTCTCAGACA
38503028 TGGT
1 TGGT
38503032 TTTTGGAACG
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
41 21 0.30
42 15 0.22
43 33 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
TGGTCTTACATGAATCACATATCGATGCCAACGTCTCAGACA
Found at i:38511786 original size:20 final size:20
Alignment explanation
Indices: 38511748--38511788 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38511738 TAAATTCTAA
* **
38511748 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
38511768 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
38511788 A
1 A
38511789 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:38511820 original size:27 final size:26
Alignment explanation
Indices: 38511790--38511852 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
38511780 AGATAATTAG
38511790 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
38511817 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
38511844 AATATAAAT
1 AATA-AAAT
38511853 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:38511839 original size:15 final size:15
Alignment explanation
Indices: 38511819--38511848 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38511809 ATAATCCTAA
*
38511819 TAATTATCTTAATAT
1 TAATTATCCTAATAT
38511834 TAATTATCCTAATAT
1 TAATTATCCTAATAT
38511849 AAATAAAATG
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:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:38515478 original size:46 final size:46
Alignment explanation
Indices: 38515418--38515633 Score: 308
Period size: 46 Copynumber: 4.7 Consensus size: 46
38515408 TTTGACATGA
* * * * * *
38515418 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** **
38515464 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
38515510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
38515556 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
38515602 TGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC
38515634 TCAGGTTGCC
Statistics
Matches: 155, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 151 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:38515575 original size:92 final size:92
Alignment explanation
Indices: 38515418--38515682 Score: 332
Period size: 92 Copynumber: 3.0 Consensus size: 92
38515408 TTTGACATGA
* * * * * *
38515418 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
***
38515483 CATGGTCTTGTTCATTTCATATCACAT
66 CATGGTCTTACACATTTCATATCACAT
38515510 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCTTTCAA
* **
38515574 CCATGGTCTTACACATTTTATATCAGGT
65 CCATGGTCTTACACATTTCATATCACAT
* *
38515602 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--TCAGGTTGCCATAGTATCTTTCAAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
38515659 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATTTCATATCA
38515683 GAGAGCACAC
Statistics
Matches: 157, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
84 46 0.29
87 1 0.01
90 3 0.02
91 4 0.03
92 103 0.66
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACAT
Found at i:38515651 original size:38 final size:38
Alignment explanation
Indices: 38515596--38515671 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
38515586 ACATTTTATA
*
38515596 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
*
38515634 TCAGGTTGCCATAGTATCTTTCAATCATGGTCTTACAC
1 TCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
38515672 ATTTCATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (38 bp):
TCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACAC
Found at i:38516099 original size:11 final size:11
Alignment explanation
Indices: 38516083--38516134 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
38516073 TATACTAAAT
38516083 AAATAATAATA
1 AAATAATAATA
*
38516094 AAATAAT-ATT
1 AAATAATAATA
* *
38516104 AAATATCTCATA
1 AAATA-ATAATA
*
38516116 AAATATTAATA
1 AAATAATAATA
38516127 AAATAATA
1 AAATAATA
38516135 TTTATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:38525185 original size:17 final size:19
Alignment explanation
Indices: 38525143--38525186 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38525133 ATGAAATTTT
*
38525143 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38525162 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38525180 AA-TATTA
1 AATTATTA
38525187 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38527011 original size:28 final size:28
Alignment explanation
Indices: 38526979--38527047 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
38526969 GCGTAGATCA
38526979 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
38527007 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
38527035 CGATA-TACCCCTA
1 CGAAATTACCCCTA
38527048 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:38528281 original size:17 final size:18
Alignment explanation
Indices: 38528255--38528295 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
38528245 TAAAAGGGTA
*
38528255 TTTTTGGAAATGGT-AAG
1 TTTTTCGAAATGGTCAAG
*
38528272 TTTTTCGAAATGTTCAAG
1 TTTTTCGAAATGGTCAAG
38528290 TTTTTC
1 TTTTTC
38528296 TATTTGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTTTCGAAATGGTCAAG
Found at i:38529452 original size:17 final size:19
Alignment explanation
Indices: 38529410--38529453 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38529400 ATGAAATTTT
*
38529410 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
38529429 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
38529447 AA-TATTA
1 AATTATTA
38529454 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:38531279 original size:28 final size:28
Alignment explanation
Indices: 38531247--38531315 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
38531237 GCGTAGATCA
38531247 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
38531275 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
38531303 CGATA-TACCCCTA
1 CGAAATTACCCCTA
38531316 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:38534009 original size:28 final size:28
Alignment explanation
Indices: 38533920--38533996 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
38533910 ATGTACTATT
38533920 ATACCCCTATGTATGCAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
*
38533948 ATACCCCTATGTATGTAAAATTACCATA
1 ATACCCCTATGTATGCAAAATTACCATA
*
38533976 ATACCCTTATGTATGCAAAAT
1 ATACCCCTATGTATGCAAAAT
38533997 GACCTTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATA
Found at i:38534175 original size:27 final size:27
Alignment explanation
Indices: 38534117--38534206 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
38534107 AGGAAGCGTC
*
38534117 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
38534145 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
38534172 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
38534201 CTGGTG
1 CTGGTG
38534207 ACTCCGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:38534217 original size:29 final size:28
Alignment explanation
Indices: 38534128--38534217 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
38534118 TGGTGGCTAT
* * *
38534128 GCCACAAATTATCTATTCTGGTGGC-CC
1 GCCACAAAATATCTGTTCTGGTGACACC
* * *
38534155 TGCCAC-ATATATCTGTTCTGGTGGCACT
1 -GCCACAAAATATCTGTTCTGGTGACACC
*
38534183 GCCACAAAATATCTGTATCTGGTGACTCC
1 GCCACAAAATATCTGT-TCTGGTGACACC
*
38534212 GTCACA
1 GCCACA
38534218 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 21 0.42
28 15 0.30
29 14 0.28
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (28 bp):
GCCACAAAATATCTGTTCTGGTGACACC
Found at i:38534225 original size:55 final size:56
Alignment explanation
Indices: 38534117--38534231 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
38534107 AGGAAGCGTC
* *
38534117 CTGGTGGCTATGCCACAAATTATCTATTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
* * *
38534172 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCC-GTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTGAC-CCTGCCACATATATCTGTAT
38534228 CTGG
1 CTGG
38534232 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 19 0.37
57 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:38534698 original size:18 final size:18
Alignment explanation
Indices: 38534659--38534699 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
38534649 TAATAAGGCC
* *
38534659 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
38534677 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
38534695 TTTTA
1 TTTTA
38534700 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:38536596 original size:49 final size:49
Alignment explanation
Indices: 38536527--38537083 Score: 853
Period size: 49 Copynumber: 11.4 Consensus size: 49
38536517 TTTACCACAT
* * *
38536527 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* * *
38536576 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* * * *
38536625 ATATACATAGACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* * *
38536674 ATATACATATACTTTCGCATTCATCGCATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* * *
38536723 ATATACATAGACTTTCGCATTCATCGCATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
*
38536772 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* *
38536821 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* * *
38536870 ATATATATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* *
38536919 ATATATATACATTTTCACATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* *
38536968 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
* *
38537017 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
*
38537066 ATATATATACATTTTCAC
1 ATATACATACATTTTCAC
38537084 GAATCTTGAT
Statistics
Matches: 490, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 490 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (49 bp):
ATATACATACATTTTCACATTCATCGCATCGGCCATTAGGCCTTATCAC
Found at i:38540967 original size:40 final size:40
Alignment explanation
Indices: 38540923--38541105 Score: 307
Period size: 40 Copynumber: 4.6 Consensus size: 40
38540913 CCAGCATGAT
* * * *
38540923 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38540963 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
38541003 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38541042 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
38541082 TGCTCTTCGGAACTTAG-CCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
38541106 AACCACAAGC
Statistics
Matches: 136, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 45 0.33
40 91 0.67
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:38541060 original size:79 final size:79
Alignment explanation
Indices: 38540923--38541105 Score: 305
Period size: 79 Copynumber: 2.3 Consensus size: 79
38540913 CCAGCATGAT
* * *
38540923 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
38540988 CATCACTAGCACGAA
65 CATCACTAGCACGAA
*
38541003 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
38541067 CATCACTAGCACGAA
65 CATCACTAGCACGAA
38541082 TGCTCTTCGGAACTTAGCCGGATA
1 TGCTCTTCGGAACTTAGCCGGATA
38541106 AACCACAAGC
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 7 0.07
79 59 0.61
80 31 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAC
ATCACTAGCACGAA
Found at i:38541163 original size:119 final size:118
Alignment explanation
Indices: 38540923--38541218 Score: 318
Period size: 119 Copynumber: 2.5 Consensus size: 118
38540913 CCAGCATGAT
* *
38540923 TGCTCTTCGGGACCTAGCCCGGATGCATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATA
* * * **
38540988 CATCACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACATCACTAGCAGAA
65 AACCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAA
* *
38541042 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
* **
38541107 ACCACAAGCAC-AATTGC-CTTCGGGTCTTAACCCGGGTATAACAACTCAC-A-CA-AA
66 ACCACAAGCACGAA-TGCTCCTCGGAACTTAACCC-GG-AT-AC-A-TCACTAGCAGAA
* * ** *
38541161 TGC-CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC-CTTCGGGACTTAGCC
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGAACTTAGCC
38541219 CGGGTATCAT
Statistics
Matches: 151, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
117 13 0.09
118 54 0.36
119 74 0.49
120 4 0.03
121 2 0.01
122 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (118 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATAA
ACCACAAGCACGAATGCTCCTCGGAACTTAACCCGGATACATCACTAGCAGAA
Found at i:38541165 original size:40 final size:40
Alignment explanation
Indices: 38540951--38541225 Score: 154
Period size: 40 Copynumber: 6.9 Consensus size: 40
38540941 CCGGATGCAT
* ** * * *
38540951 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACAT-
1 CACTAGCACAAATGC-CTTCGGGTCTTAGCCCGGGTATATA
* * ** * * *
38540991 CACTAGCACGAATGCTCCTCGGAACTTAGTCCGGATACAT-
1 CACTAGCACAAATGC-CTTCGGGTCTTAGCCCGGGTATATA
* ** * * *
38541031 CACTAGCA-GAATGCTCTTCGGAACTTAGTCCGGATACAT-
1 CACTAGCACAAATGC-CTTCGGGTCTTAGCCCGGGTATATA
* ** *
38541070 CACTAGCACGAATGCTCTTCGGAACTTAG-CC-GG-ATAAA
1 CACTAGCACAAATGC-CTTCGGGTCTTAGCCCGGGTATATA
* * *
38541108 CCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATA-A
1 -CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATATA
* *
38541148 CAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATATATT
1 C-ACT-AGCACAAATGCCTTCGGGTCTTAGCCCGGGTATATA
* *
38541189 CACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTAT
38541226 CATTCAAATG
Statistics
Matches: 206, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.01
38 11 0.05
39 56 0.27
40 132 0.64
41 5 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGTATATA
Found at i:38544334 original size:49 final size:49
Alignment explanation
Indices: 38544265--38544672 Score: 604
Period size: 49 Copynumber: 8.4 Consensus size: 49
38544255 TTTACCACAT
* *
38544265 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
38544314 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
38544363 ATATACATATACTTTCGCATTCACCACATCGGCCATTAGGCC-TATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
38544411 ATATACATATACTTTCGCATTCATCGCATCGGCCATTAGGCC-TATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
38544459 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
38544508 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
38544557 ATATATATACATTTTCACATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
38544606 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
38544655 ATATACATACATTTTCAC
1 ATATACATACATTTTCAC
38544673 GAATCTTGAT
Statistics
Matches: 344, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
48 92 0.27
49 252 0.73
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (49 bp):
ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:38556905 original size:43 final size:41
Alignment explanation
Indices: 38556850--38557001 Score: 112
Period size: 43 Copynumber: 3.6 Consensus size: 41
38556840 ATATCGTACA
* *
38556850 ATACCAACGTCCCAAACGTGGTCTTACATGCCATCACATATCG
1 ATACC-ACGTCCCAAACGTGGTCTTACACG-AATCACATATCG
*
38556893 ATACCACTGTCCCAGATA-G-GGTCTTACACGAATCAAATA-CG
1 ATACCAC-GTCCCA-A-ACGTGGTCTTACACGAATCACATATCG
* * * * * *
38556934 ATGCCAATGACCCAGACATGGTCTTACACATAATCACATATCG
1 ATACC-ACGTCCCAAACGTGGTCTTACAC-GAATCACATATCG
* *
38556977 ATGACAACGTCCCAAATGTGGTCTT
1 AT-ACCACGTCCCAAACGTGGTCTT
38557002 TGGAATGAGG
Statistics
Matches: 83, Mismatches: 17, Indels: 18
0.70 0.14 0.15
Matches are distributed among these distances:
39 1 0.01
41 21 0.25
42 18 0.22
43 39 0.47
44 3 0.04
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
ATACCACGTCCCAAACGTGGTCTTACACGAATCACATATCG
Found at i:38559118 original size:6 final size:6
Alignment explanation
Indices: 38559100--38559242 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
38559090 AAGAAACGTT
* * *
38559100 ATCAGA A-CTAGA ATCAGA ATCAGA ATCATA ATCAGA ATTAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
38559147 GTGACAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAGT ATCAGGTA A-CAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
38559198 ATCAAA ATCAGA ATCAGT ATCAGGTA A-GAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
38559243 GTGAATGCAA
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
5 6 0.06
6 91 0.84
7 8 0.07
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:38559170 original size:43 final size:43
Alignment explanation
Indices: 38559109--38559219 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
38559099 TATCAGAACT
* * * * *
38559109 AGAATCAGAATCAGAATCATAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAAAATCAGAATCAGGTAAC
*
38559152 AGAATCAGAATCAGAATCAGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAAAATCAGAATCAGGTAAC
* *
38559195 AGAATCAAAATCAGAATCAGTATCA
1 AGAATCAGAATCAGAATCAGAATCA
38559220 GGTAAGAGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATCAAAATCAGAATCAGGTAAC
Found at i:38559238 original size:37 final size:37
Alignment explanation
Indices: 38559115--38559238 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 37
38559105 AACTAGAATC
* * * * *
38559115 AGAATCAGAATCATAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAAAATCAGAATCAGAATCAGGTAAG
* *
38559152 AGAATCAGAATCAGAATCAGAATCAAAATCA-GTATCAG
1 AGAATCAGAATCAAAATCAGAATCAGAATCAGGTA--AG
*
38559190 -GTAA-CAGAATCAAAATCAGAATCAGTATCAGGTAAG
1 AG-AATCAGAATCAAAATCAGAATCAGAATCAGGTAAG
*
38559226 AGAATCAAAATCA
1 AGAATCAGAATCA
38559239 GAATGTGAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
36 6 0.08
37 59 0.83
38 6 0.08
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAAAATCAGAATCAGAATCAGGTAAG
Found at i:38559239 original size:31 final size:31
Alignment explanation
Indices: 38559163--38559242 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
38559153 GAATCAGAAT
* *
38559163 CAGAATCAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
38559194 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
38559225 GAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
38559243 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:38559698 original size:27 final size:27
Alignment explanation
Indices: 38559667--38559791 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
38559657 TTACCCCATG
38559667 AGGGT-TTCTCGGTAATTCTACCCTACA
1 AGGGTATT-TCGGTAATTCTACCCTACA
* *
38559694 GGGGTATTTCAGT-ATTCCTACCCTACA
1 AGGGTATTTCGGTAATT-CTACCCTACA
*
38559721 AGGGTATTTCGATAATTCTACCCTACA
1 AGGGTATTTCGGTAATTCTACCCTACA
* * *
38559748 GGGGTATTTTGGTAATTCTACCTTACA
1 AGGGTATTTCGGTAATTCTACCCTACA
*
38559775 AGGGTATTTTGGTAATT
1 AGGGTATTTCGGTAATT
38559792 TCACAAACCA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.04
27 77 0.91
28 5 0.06
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTCTACCCTACA
Done.