Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 287 of 433
Found at i:89621270 original size:33 final size:33
Alignment explanation
Indices: 89621233--89621374 Score: 88
Period size: 33 Copynumber: 4.2 Consensus size: 33
89621223 GGTCCAACCC
*
89621233 TGGTCTTACGTTCATAGTGCCATAACCCAATTA
1 TGGTCTTACGTTCATAGTGCCATAACCCAACTA
* * * * *
89621266 TGGTCTTATC-ATCAGAATGCCATAGCCCAGCTA
1 TGGTCTTA-CGTTCATAGTGCCATAACCCAACTA
* * * * * * * *** *
89621299 TGGCCTTACATATAAACACTACTATGGTCCAACCA
1 TGGTCTTACGT-T-CATAGTGCCATAACCCAACTA
*
89621334 TGGTCTTACGTTCATAGTGCCATAACCCAATTA
1 TGGTCTTACGTTCATAGTGCCATAACCCAACTA
89621367 TGGTCTTA
1 TGGTCTTA
89621375 TCTGTCAATT
Statistics
Matches: 76, Mismatches: 29, Indels: 8
0.67 0.26 0.07
Matches are distributed among these distances:
32 1 0.01
33 51 0.67
34 3 0.04
35 21 0.28
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (33 bp):
TGGTCTTACGTTCATAGTGCCATAACCCAACTA
Found at i:89621326 original size:101 final size:101
Alignment explanation
Indices: 89621137--89621376 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
89621127 AATTCATCCT
* * * ** * *
89621137 TTACATTCCTAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTTATAGGCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGC
* *
89621202 CTTACATATAAACACTGCCATGGTCCAACCCTGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGGTC
89621238 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGC
*
89621303 CTTACATATAAACACTACTATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGGTC
89621339 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATC
89621377 TGTCAATTCA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGC
CTTACATATAAACACTACCATGGTCCAACCATGGTC
Found at i:89621568 original size:31 final size:31
Alignment explanation
Indices: 89621530--89621591 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
89621520 ATAAATAAAC
89621530 ATTATAGTTTAACCATACGAACTTACTTGGA
1 ATTATAGTTTAACCATACGAACTTACTTGGA
89621561 ATTATAGTTTAACCATACGAACTTACTTGGA
1 ATTATAGTTTAACCATACGAACTTACTTGGA
89621592 TTGAATTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (31 bp):
ATTATAGTTTAACCATACGAACTTACTTGGA
Found at i:89631441 original size:66 final size:68
Alignment explanation
Indices: 89631365--89631551 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
89631355 TAGTACCACT
*
89631365 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
89631427 CACG
65 CACG
89631431 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
89631496 ATCACG
63 ATCACG
89631502 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
89631552 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:89631476 original size:71 final size:71
Alignment explanation
Indices: 89631388--89631551 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
89631378 CGATTTGTCT
89631388 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89631453 CTTTCA
66 CTTTCA
89631459 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
89631524 CTTTCA
66 CTTTCA
89631530 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
89631552 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:89634673 original size:20 final size:20
Alignment explanation
Indices: 89634650--89634723 Score: 51
Period size: 20 Copynumber: 3.7 Consensus size: 20
89634640 TCACTGCCGT
89634650 TCACTGTCGATCACCACCGA
1 TCACTGTCGATCACCACCGA
* * *
89634670 TCACCT-TCGATCAACGCCGT
1 TCA-CTGTCGATCACCACCGA
* *** * *
89634690 TTACCACCAATCACCACTGA
1 TCACTGTCGATCACCACCGA
89634710 TCACTGTCGATCAC
1 TCACTGTCGATCAC
89634724 TCGATGGATC
Statistics
Matches: 36, Mismatches: 16, Indels: 4
0.64 0.29 0.07
Matches are distributed among these distances:
19 1 0.03
20 33 0.92
21 2 0.06
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.23
Consensus pattern (20 bp):
TCACTGTCGATCACCACCGA
Found at i:89637486 original size:48 final size:47
Alignment explanation
Indices: 89637338--89637487 Score: 147
Period size: 48 Copynumber: 3.1 Consensus size: 47
89637328 CTAGGTTATC
* *
89637338 GGCATCAATATGTGATCCTATGTAAGACCATATCTGGGACATGGCACT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCA-T
* * ** ** * * *
89637386 GGTAACGACCTACGATGCCATGTAAGACCATGTTTGGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCA-T
* * *
89637434 GGCATCGATATGTGATCCCATGTAAGACCATATCCGGGATATGGTAT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCAT
89637481 GGGCATC
1 -GGCATC
89637488 CTACCATGTG
Statistics
Matches: 77, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
47 1 0.01
48 76 0.99
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (47 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCTGGGACATGGCAT
Found at i:89642929 original size:37 final size:37
Alignment explanation
Indices: 89642879--89642949 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
89642869 TACCAGTACG
89642879 TATCGACTACTCACTTGATAAGTTAGCCGAGTTGAAT
1 TATCGACTACTCACTTGATAAGTTAGCCGAGTTGAAT
89642916 TATCGACTACTCACTTGATAAGTTAGCCGAGTTG
1 TATCGACTACTCACTTGATAAGTTAGCCGAGTTG
89642950 TATATTTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (37 bp):
TATCGACTACTCACTTGATAAGTTAGCCGAGTTGAAT
Found at i:89646581 original size:92 final size:91
Alignment explanation
Indices: 89646410--89646581 Score: 236
Period size: 91 Copynumber: 1.9 Consensus size: 91
89646400 AACTTACCAT
* ** * *
89646410 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTA
* *
89646475 GCATGGTCTTACATGGGACCTTTCAA
66 ACATAGTCTTACATGGGACCTTTCAA
* * * *
89646501 TGCCATGTCTTGACATGATCTTCCATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
89646566 AACATAGTCTTACATG
65 AACATAGTCTTACATG
89646582 ATATCCTTAT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
91 36 0.52
92 33 0.48
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (91 bp):
TGCCATGTCTTGACATGATCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTA
ACATAGTCTTACATGGGACCTTTCAA
Found at i:89648804 original size:48 final size:48
Alignment explanation
Indices: 89648652--89648878 Score: 205
Period size: 48 Copynumber: 4.8 Consensus size: 48
89648642 TAGGGTTATG
** *
89648652 TACGATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCATCGATA
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
** ** * * * * *
89648700 TATAATTTCGTGTAAGACCATAG-CTGGG---T--TATCGGCATCAATA
1 TACGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGACA
** * *
89648743 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGACC
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
*
89648791 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
** * * *
89648839 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGG
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
89648879 TATCCTACCA
Statistics
Matches: 143, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
42 1 0.01
43 32 0.22
45 1 0.01
46 1 0.01
48 107 0.75
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
TACGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACA
Found at i:89648810 original size:91 final size:93
Alignment explanation
Indices: 89648655--89648878 Score: 247
Period size: 91 Copynumber: 2.4 Consensus size: 93
89648645 GGTTATGTAC
** * * ** *
89648655 GATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCATCGATATATAATTTCGTGTAAGACCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCA
*
89648720 TAG-CTGGG-T-TATCGGCATCAATATGT
66 T-GTCTGGGATGCATCGGCATCAATATGT
* * *
89648746 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGACCTACGATCCCATGTAAGACCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCA
* *
89648811 TGTCTGGGACATGGCATTGGCATCGATATGT
66 TGTCTGGG--AT-GCATCGGCATCAATATGT
* * *
89648842 GATCCCATGTAAGACCATATCCGGGATATGGCATTGG
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
89648879 TATCCTACCA
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
90 1 0.01
91 61 0.55
94 1 0.01
96 48 0.43
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (93 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATACAATCCCATGTAAGACCA
TGTCTGGGATGCATCGGCATCAATATGT
Found at i:89651106 original size:88 final size:89
Alignment explanation
Indices: 89650904--89651236 Score: 359
Period size: 88 Copynumber: 3.7 Consensus size: 89
89650894 TTAATAAAAC
* * * * ***
89650904 AAATATATAATTCAAA-AAAATTAATAATACGCAAC-AAATTAAATTTACAAATACATGGAAATA
1 AAATATAAAATTCAAACAACA--AATAATACG-GACTAAATTAAATTTACAGATACAAAAAAATA
* * * * *
89650967 AAAACATTTTAGAATATTAATACATGA
63 CAAACATTCTAAAAAATTAATACAAGA
* * **
89650994 AAATATAAAATTCAAGCAACAAATAATATGGACTAAATTAAATTTACAGACCCAAAAAAATACAA
1 AAATATAAAATTCAAACAACAAATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAA
*
89651059 GCATTCT-AAAAATTAATACAAGA
66 ACATTCTAAAAAATTAATACAAGA
* *
89651082 AAATAAAAAATTCAAACAAGAAATAATACGGACTAAATTAAATTTACAGATAC-AAAAAATACAA
1 AAATATAAAATTCAAACAACAAATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAA
**
89651146 ACATTCTAAAAAATTAATACACTA
66 ACATTCTAAAAAATTAATACAAGA
* * * * **
89651170 AAATATAAAGTTCGAACAATAAATAATACAGACTAAATTTGATTTACAGATACAAAAATAATACA
1 AAATATAAAATTCAAACAACAAATAATACGGACTAAATTAAATTTACAGATACAAAAA-AATACA
89651235 AA
65 AA
89651237 AATTTTGAAT
Statistics
Matches: 205, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
87 17 0.08
88 122 0.60
89 41 0.20
90 22 0.11
91 3 0.01
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (89 bp):
AAATATAAAATTCAAACAACAAATAATACGGACTAAATTAAATTTACAGATACAAAAAAATACAA
ACATTCTAAAAAATTAATACAAGA
Found at i:89651581 original size:26 final size:26
Alignment explanation
Indices: 89651501--89651581 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 26
89651491 AATTCGGTTG
89651501 TACACTACAAAACACTCTCA-TTTGCAA
1 TACACTACAAAACACTCTCATTTTG--A
* * **
89651528 TCCTCTACAAAA-AAACTCATTTGATGA
1 TACACTACAAAACACTCTCATTT--TGA
89651555 TACACTACAAAACACTCTCATTTTGA
1 TACACTACAAAACACTCTCATTTTGA
89651581 T
1 T
89651582 GGCTCTCTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
26 9 0.21
27 23 0.55
28 8 0.19
29 2 0.05
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.30
Consensus pattern (26 bp):
TACACTACAAAACACTCTCATTTTGA
Found at i:89652547 original size:6 final size:6
Alignment explanation
Indices: 89652536--89652580 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
89652526 AAAAATAATT
* *
89652536 ATTTTA ATTTTA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
89652581 GTTAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCA
Found at i:89653329 original size:2 final size:2
Alignment explanation
Indices: 89653322--89653350 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
89653312 TTTTCCACGT
89653322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89653351 GTATTCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89654160 original size:19 final size:19
Alignment explanation
Indices: 89654117--89654167 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
89654107 ATTATAAAAA
* *
89654117 AATAAAAAAACTAAATTTT
1 AATAAAAATATTAAATTTT
*
89654136 -AGAAAAATATTAAATTTT
1 AATAAAAATATTAAATTTT
89654154 AATAAAAAT-TTAAA
1 AATAAAAATATTAAA
89654168 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAAAAATATTAAATTTT
Found at i:89654225 original size:38 final size:37
Alignment explanation
Indices: 89654182--89654254 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
89654172 TAAAATTTAT
* *
89654182 TAAAAACTAGAAATTTTTTATAAAAAT-ACTAAAAAAA
1 TAAAAAATAGAAAATTTTTATAAAAATCA-TAAAAAAA
*
89654219 TAAAAAATTGAAAATTTTTATAAAAATCATAAAAAA
1 TAAAAAATAGAAAATTTTTATAAAAATCATAAAAAA
89654255 TTAACGACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (37 bp):
TAAAAAATAGAAAATTTTTATAAAAATCATAAAAAAA
Found at i:89654530 original size:28 final size:28
Alignment explanation
Indices: 89654472--89654536 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
89654462 ATAAAACTTT
* *
89654472 ATTTTTTTATATTTCTATATATTTTATA
1 ATTTTTTTATATTTCTATAAATTTTAAA
89654500 ATTTTTTTAT-TTT-TATAAAATTTTACAA
1 ATTTTTTTATATTTCTAT-AAATTTTA-AA
89654528 ATTTATTTT
1 ATTT-TTTT
89654537 TATGATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.09
27 10 0.31
28 15 0.47
29 4 0.12
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (28 bp):
ATTTTTTTATATTTCTATAAATTTTAAA
Found at i:89657788 original size:46 final size:47
Alignment explanation
Indices: 89657679--89657800 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
89657669 TGTCTTTGAC
** * *
89657679 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
89657729 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATCTATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
89657775 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
89657801 CTGTCTTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:89664047 original size:18 final size:18
Alignment explanation
Indices: 89664017--89664058 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
89664007 ATAGATTATG
*
89664017 ATTTTTAATGTTTTAATA
1 ATTTTTAATGTTTTAAGA
89664035 ATTTTCTAA-GTTTTAAGA
1 ATTTT-TAATGTTTTAAGA
89664053 ATTTTT
1 ATTTTT
89664059 TTTGAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTTTTAATGTTTTAAGA
Found at i:89665154 original size:56 final size:55
Alignment explanation
Indices: 89665054--89665161 Score: 164
Period size: 56 Copynumber: 1.9 Consensus size: 55
89665044 GTATCCATTG
89665054 GATGATAAATCATAACTTTTAATTTGAATAATGCTTATGAATAATTAAATTTGTAA
1 GATGATAAATCATAACTTTTAATTTGAATAATGCTTATGAATAATT-AATTTGTAA
* * *
89665110 GATGATAAATCATCACTTTTAATTTGAATAGTG-TTCATGGATAATTAATTTG
1 GATGATAAATCATAACTTTTAATTTGAATAATGCTT-ATGAATAATTAATTTG
89665162 CAATATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 8 0.17
56 40 0.83
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATAACTTTTAATTTGAATAATGCTTATGAATAATTAATTTGTAA
Found at i:89670656 original size:20 final size:20
Alignment explanation
Indices: 89670614--89670667 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
89670604 TAATAAAAAG
* *
89670614 TTTTATAAGTTTTATAATTT
1 TTTTATAATTTTTATAATAT
*
89670634 TTTTATAATTTTTATGATAT
1 TTTTATAATTTTTATAATAT
* *
89670654 TTTAATGATTTTTA
1 TTTTATAATTTTTA
89670668 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTTATAATTTTTATAATAT
Found at i:89671868 original size:6 final size:6
Alignment explanation
Indices: 89671859--89671886 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89671849 ATTAGAGGTG
89671859 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
89671887 CCAATTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:89677679 original size:48 final size:48
Alignment explanation
Indices: 89677627--89677761 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
89677617 ATCGATGTGT
*
89677627 GATCCCATGTAAGACCATATCCGAGATATGGCATTGGCATCGACCTAC
1 GATCCCATGTAAGACCATATCCGAGATATGGCATTGGCATCGACATAC
* * * ** * *
89677675 GATCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCATCGATATAT
1 GATCCCATGTAAGACCATATCCGAGATATGGCATTGGCATCGACATAC
89677723 GATCCCATGTAAGACCATATCC-AGGATATGGCATTGGCA
1 GATCCCATGTAAGACCATATCCGA-GATATGGCATTGGCA
89677762 CTCTATCATG
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCCGAGATATGGCATTGGCATCGACATAC
Found at i:89679321 original size:29 final size:29
Alignment explanation
Indices: 89679276--89679334 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
89679266 AGCATGAGTA
89679276 GAAGCTTTAATCATATTATCTTTTGGATT
1 GAAGCTTTAATCATATTATCTTTTGGATT
*
89679305 GAAGCTTTAATCGTATTATCTTTTGGATT
1 GAAGCTTTAATCATATTATCTTTTGGATT
89679334 G
1 G
89679335 TAGAATAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (29 bp):
GAAGCTTTAATCATATTATCTTTTGGATT
Found at i:89681257 original size:43 final size:43
Alignment explanation
Indices: 89681087--89681258 Score: 138
Period size: 43 Copynumber: 4.0 Consensus size: 43
89681077 CATAAGATTC
* ** * *
89681087 CGATATGTGATTTTGTGTAAGACCACGTCTGAGATGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * **
89681130 C-A-ATTTGAGATTTACGTGTAAGACTATGTCTGGGACATCAGCAT
1 CGATATTT--GA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
89681174 CG-TATTTGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCAT
* *
89681216 CGATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
89681259 TGTACAAGCT
Statistics
Matches: 98, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
41 3 0.03
42 28 0.29
43 37 0.38
44 26 0.27
45 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:89687914 original size:29 final size:28
Alignment explanation
Indices: 89687881--89687938 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
89687871 TTAAAAGAAG
*
89687881 ATTTTTTGGAAAATTTATAATAAAAATA
1 ATTTTTTGGAAAAATTATAATAAAAATA
89687909 ATTTTTTGGAAAAATTATAATAAAAATA
1 ATTTTTTGGAAAAATTATAATAAAAATA
89687937 AT
1 AT
89687939 AAGAAAGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (28 bp):
ATTTTTTGGAAAAATTATAATAAAAATA
Found at i:89693004 original size:41 final size:42
Alignment explanation
Indices: 89692959--89693053 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 42
89692949 CTCAGTCACA
*
89692959 CACACTAAGTGCCATATATATAGCCGAAGCTAT-TCCAT-TCG
1 CACACTAAGTGCCATATATATAGCCGAAGCCATCTCCATAT-G
* *
89693000 CACACTAAGTG-C-TTTATATAGCCGAAGCCATCTCGATATG
1 CACACTAAGTGCCATATATATAGCCGAAGCCATCTCCATATG
89693040 CACACTAAGTGCCA
1 CACACTAAGTGCCA
89693054 AACATAATCG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
39 17 0.36
40 17 0.36
41 13 0.28
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
CACACTAAGTGCCATATATATAGCCGAAGCCATCTCCATATG
Found at i:89697873 original size:33 final size:33
Alignment explanation
Indices: 89697827--89697892 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
89697817 TACCTTGGCC
*
89697827 GAAATTCTGAAGACACCATAGCTAGGGCTTTCT
1 GAAATTCTCAAGACACCATAGCTAGGGCTTTCT
*
89697860 GAAATTCTCAAGACACCATAGCTAGGGTTTTCT
1 GAAATTCTCAAGACACCATAGCTAGGGCTTTCT
89697893 TCAACTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (33 bp):
GAAATTCTCAAGACACCATAGCTAGGGCTTTCT
Found at i:89698755 original size:42 final size:42
Alignment explanation
Indices: 89698634--89698826 Score: 188
Period size: 43 Copynumber: 4.5 Consensus size: 42
89698624 TGAGTTTATG
* ** *
89698634 TGTAAGACCATATCTGGGATATGACATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* * * * * *
89698676 TATAAGATCATAGCTAGGCTATTGGCATCGATTTGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
* ** *
89698719 TGTAATACCATATCTGGGATATGGCATCGATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* ** * *
89698761 TGTAAGACCATAGCAAGGCTATTGGCATCGATTTGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
*
89698804 TGTAAGACCATATCTGAGATATG
1 TGTAAGACCATATCTGGGATATG
89698827 ACATTGGTAT
Statistics
Matches: 115, Mismatches: 34, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
42 51 0.44
43 64 0.56
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:89698767 original size:85 final size:85
Alignment explanation
Indices: 89698634--89698830 Score: 340
Period size: 85 Copynumber: 2.3 Consensus size: 85
89698624 TGAGTTTATG
* *
89698634 TGTAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTATAAGATCATAGCTAGGCTATT
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTATAAGACCATAGCAAGGCTATT
89698699 GGCATCGATTTGAGATCCCA
66 GGCATCGATTTGAGATCCCA
* * *
89698719 TGTAATACCATATCTGGGATATGGCATCGATATGAGATTTCGTGTAAGACCATAGCAAGGCTATT
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTATAAGACCATAGCAAGGCTATT
89698784 GGCATCGATTTGAGATCCCA
66 GGCATCGATTTGAGATCCCA
*
89698804 TGTAAGACCATATCTGAGATATGACAT
1 TGTAAGACCATATCTGGGATATGACAT
89698831 TGGTATGGTA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 104 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (85 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATTTCGTATAAGACCATAGCAAGGCTATT
GGCATCGATTTGAGATCCCA
Found at i:89699576 original size:15 final size:15
Alignment explanation
Indices: 89699548--89699581 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
89699538 GTAATTGATG
*
89699548 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
89699563 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
89699578 TGTG
1 TGTG
89699582 TATATGCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:89710857 original size:91 final size:93
Alignment explanation
Indices: 89710728--89710896 Score: 261
Period size: 91 Copynumber: 1.8 Consensus size: 93
89710718 GCCCATAAGT
* * *
89710728 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAA-TCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89710792 CGAGCTC-GATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
89710819 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
89710884 CGAGTTCGGATGC
66 CGAGCTCGGATGC
89710897 TCAACCATCC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 54 0.78
92 10 0.14
93 5 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:89710893 original size:46 final size:46
Alignment explanation
Indices: 89710720--89710893 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
89710710 TGTAACCCGC
* * * * *
89710720 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
89710766 CCATAAGTGAACTCGGACTCAA-TCAACGAGCTCGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GAC-ATTTGCAT
* *
89710814 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
89710857 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
89710894 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 2 0.02
45 25 0.24
46 61 0.58
47 2 0.02
48 6 0.06
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:89713316 original size:30 final size:30
Alignment explanation
Indices: 89713272--89713360 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
89713262 CAAAGATAAC
89713272 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
89713301 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
89713331 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
89713361 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:89713320 original size:15 final size:15
Alignment explanation
Indices: 89713272--89713351 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
89713262 CAAAGATAAC
*
89713272 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
89713286 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
89713301 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
89713316 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
89713331 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
89713346 AAGAAA
1 AAGAAA
89713352 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:89713360 original size:15 final size:15
Alignment explanation
Indices: 89713283--89713360 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
89713273 AGAAAACCGA
89713283 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
89713298 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
89713312 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
89713327 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
89713343 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
89713358 ATA
1 ATA
89713361 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:89716465 original size:93 final size:93
Alignment explanation
Indices: 89716334--89716504 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
89716324 GCCCATAAGT
* * *
89716334 GAACTCGGACTCAACTCAATGAGCTTAAGCGTTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTTAAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89716399 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
** *
89716427 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTTAAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
89716491 ACGAGTTCGGATGC
65 ACGAGCTCGGATGC
89716505 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 67 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTAAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:89716487 original size:46 final size:46
Alignment explanation
Indices: 89716326--89716501 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
89716316 TGTAACCCGC
* ** * *
89716326 CCATAAGTGAACTCGGACTCAACTCAATGAGCTTAAG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * * *
89716372 CCATAAGTGAACTCGGACTCAATTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
89716422 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
89716465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89716502 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 2 0.02
46 58 0.55
47 27 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:89716520 original size:46 final size:46
Alignment explanation
Indices: 89716377--89716520 Score: 113
Period size: 46 Copynumber: 3.1 Consensus size: 46
89716367 CGCATCCATA
* *
89716377 AGTGAACTCGGACTCAATTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * *
89716426 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
89716470 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
89716516 AGTGA
1 AGTGA
89716521 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 33 0.44
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:89721567 original size:2 final size:2
Alignment explanation
Indices: 89721560--89721596 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
89721550 AAATGAATCG
89721560 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
89721597 GGTTATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89725479 original size:25 final size:25
Alignment explanation
Indices: 89725446--89725502 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
89725436 TAACTGAATG
*
89725446 GAACCCTAGATCAGGAGTTAGCTAT
1 GAACACTAGATCAGGAGTTAGCTAT
89725471 GAACACTAGATCAGGAGTTAGCTAT
1 GAACACTAGATCAGGAGTTAGCTAT
89725496 GAACACT
1 GAACACT
89725503 GAAGCGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
GAACACTAGATCAGGAGTTAGCTAT
Found at i:89725524 original size:26 final size:26
Alignment explanation
Indices: 89725488--89725539 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
89725478 AGATCAGGAG
89725488 TTAGCTATGAACACTGAAGCGAGTTA
1 TTAGCTATGAACACTGAAGCGAGTTA
89725514 TTAGCTATGAACACTGAAGCGAGTTA
1 TTAGCTATGAACACTGAAGCGAGTTA
89725540 GTTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (26 bp):
TTAGCTATGAACACTGAAGCGAGTTA
Found at i:89727262 original size:51 final size:51
Alignment explanation
Indices: 89727181--89727290 Score: 157
Period size: 51 Copynumber: 2.2 Consensus size: 51
89727171 TAGACTCCTT
89727181 CAACCTTATGGTGATTGTCCTTGATATTACGACTTTTGTAACAAATTGTCA
1 CAACCTTATGGTGATTGTCCTTGATATTACGACTTTTGTAACAAATTGTCA
* ** * * * *
89727232 CAACCTTATGGTGATTTTTGTTGATGTTACGACTTTTGTAGCATATTGTCG
1 CAACCTTATGGTGATTGTCCTTGATATTACGACTTTTGTAACAAATTGTCA
89727283 CAACCTTA
1 CAACCTTA
89727291 AAACTTGATG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (51 bp):
CAACCTTATGGTGATTGTCCTTGATATTACGACTTTTGTAACAAATTGTCA
Found at i:89729980 original size:40 final size:40
Alignment explanation
Indices: 89729768--89729973 Score: 326
Period size: 40 Copynumber: 5.2 Consensus size: 40
89729758 AACCCAAGTA
* *
89729768 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
89729807 CCTTCGGGACTTAGCCCAGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
**
89729847 CCTTCGGGACTTAGCCTAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89729887 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89729927 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
89729967 CCTTCGG
1 CCTTCGG
89729974 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.08
40 142 0.92
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:89730854 original size:23 final size:23
Alignment explanation
Indices: 89730824--89730870 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
89730814 TTGACAAAGC
89730824 ACATTTCTGAAAATGATAAGGCA
1 ACATTTCTGAAAATGATAAGGCA
89730847 ACATTTCTGAAAATGATAAGGCA
1 ACATTTCTGAAAATGATAAGGCA
89730870 A
1 A
89730871 TATAACAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
ACATTTCTGAAAATGATAAGGCA
Found at i:89731398 original size:13 final size:13
Alignment explanation
Indices: 89731380--89731405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89731370 ATTTTTATTT
89731380 TTAACATAAAATA
1 TTAACATAAAATA
89731393 TTAACATAAAATA
1 TTAACATAAAATA
89731406 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:89731745 original size:5 final size:5
Alignment explanation
Indices: 89731731--89731762 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
89731721 TTGTGTGTTC
89731731 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
89731763 TCACAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:89736166 original size:5 final size:5
Alignment explanation
Indices: 89736156--89736187 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
89736146 TTGTGTGTTC
89736156 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
89736188 TCACATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:89736170 original size:9 final size:9
Alignment explanation
Indices: 89736156--89736186 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
89736146 TTGTGTGTTC
89736156 TTTATTTTA
1 TTTATTTTA
89736165 TTTATTTTA
1 TTTATTTTA
89736174 TTTTATTTTA
1 -TTTATTTTA
89736184 TTT
1 TTT
89736187 TTCACATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:89740029 original size:20 final size:20
Alignment explanation
Indices: 89740001--89740039 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
89739991 AAGACAGTTG
* *
89740001 TCTTTATTTAGTGTATCCCT
1 TCTTGATTTAGTATATCCCT
89740021 TCTTGATTTAGTATATCCC
1 TCTTGATTTAGTATATCCC
89740040 GCCATACGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.10, T:0.51
Consensus pattern (20 bp):
TCTTGATTTAGTATATCCCT
Found at i:89742616 original size:48 final size:48
Alignment explanation
Indices: 89742526--89743243 Score: 1132
Period size: 48 Copynumber: 15.0 Consensus size: 48
89742516 AGATAAATAT
* * *
89742526 ATATATGTGTGATATGTGTATGT-GTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
89742573 ATATATATAAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89742621 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
89742669 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89742717 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89742765 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * * *
89742813 ATATATGTGTGATATGTAGATGTGGTAAAGCTGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89742861 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
89742909 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
89742957 ATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89743005 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
89743053 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
89743101 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
89743149 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
89743197 ATATGTATGAGATAAGAATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
89743244 GTGTTGTAAC
Statistics
Matches: 614, Mismatches: 56, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
47 19 0.03
48 595 0.97
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:89743328 original size:37 final size:37
Alignment explanation
Indices: 89743278--89743374 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
89743268 ACATGAAACT
* *
89743278 TGGAGATTATGTCCGGGTAAGACCTGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACATG
89743315 TGGAGATTATGTCCGGGTAAGACCCGATGACTACATG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACATG
* *
89743352 TGGAGATTATTTCTGGGTAAGAC
1 TGGAGATTATGTCCGGGTAAGAC
89743375 TTCGTAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACATG
Found at i:89752770 original size:12 final size:11
Alignment explanation
Indices: 89752742--89752774 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
89752732 GGGACATATT
89752742 TGTAAAATG-G
1 TGTAAAATGTG
89752752 TGTAAAATGTG
1 TGTAAAATGTG
89752763 TGGTAAAATGTG
1 T-GTAAAATGTG
89752775 AATAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 2 0.10
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:89754286 original size:52 final size:52
Alignment explanation
Indices: 89754211--89754333 Score: 183
Period size: 52 Copynumber: 2.4 Consensus size: 52
89754201 TATCTAGGAT
* *
89754211 ATGACATTGTGCTAAGTGAAATAAAACCATGGCATCAAAGTGAAATAAGTCC
1 ATGACAATGTGCTAAGTGAAATAAAACCATGGCATCAAAGTCAAATAAGTCC
* ** *
89754263 ATGGCAATGTGCTAAGTGAAATAATTCCATGGCATCTAAGTCAAATAAGTCC
1 ATGACAATGTGCTAAGTGAAATAAAACCATGGCATCAAAGTCAAATAAGTCC
*
89754315 ATGACATTGTGCTAAGTGA
1 ATGACAATGTGCTAAGTGA
89754334 GAAATTTCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (52 bp):
ATGACAATGTGCTAAGTGAAATAAAACCATGGCATCAAAGTCAAATAAGTCC
Found at i:89754291 original size:28 final size:27
Alignment explanation
Indices: 89754218--89754333 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
89754208 GATATGACAT
**
89754218 TGTGCTAAGTGAAATAAAACCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
*
89754245 --T-CAAAGTGAAATAAGTCCATGGCAA
1 TGTGCTAAGTGAAATAAGTCCATGGC-A
*
89754270 TGTGCTAAGTGAAATAATTCCATGGCA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
* *
89754297 --T-CTAAGTCAAATAAGTCCATGACA
1 TGTGCTAAGTGAAATAAGTCCATGGCA
89754321 TTGTGCTAAGTGA
1 -TGTGCTAAGTGA
89754334 GAAATTTCTC
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
24 39 0.54
25 3 0.04
27 3 0.04
28 27 0.38
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
TGTGCTAAGTGAAATAAGTCCATGGCA
Found at i:89755273 original size:30 final size:31
Alignment explanation
Indices: 89755193--89755274 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
89755183 TCAGTCTCGA
89755193 CATAT-ACTGGGCCGAAGCCTTTGCATAAAT
1 CATATCACTGGGCCGAAGCCTTTGCATAAAT
* *
89755223 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTGCATAAAT
89755254 CATATCACT-GGCCGAAGCCTT
1 CATATCACTGGGCCGAAGCCTT
89755275 CACTGTAAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 16 0.33
31 32 0.67
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATAAAT
Found at i:89755531 original size:25 final size:25
Alignment explanation
Indices: 89755497--89755563 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
89755487 CTTTTAATAA
*
89755497 TGGGGCAAAGCCCTTTTTGATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
89755522 TGGGGCAAAGCCCTTTTCGGTAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
89755547 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
89755564 AGCACTTCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:89756432 original size:27 final size:27
Alignment explanation
Indices: 89756370--89756457 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
89756360 AGGCATATTC
89756370 GTCATTTTACCATACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * *
89756397 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACA
* * **
89756424 GTCTTTTTACC-TATTAGGGGTATTTTA
1 GTCATTTTACCATA-CAGGGGTATTACA
89756451 GTCATTT
1 GTCATTT
89756458 CATCCTACAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.06
27 44 0.92
28 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:89756518 original size:27 final size:27
Alignment explanation
Indices: 89756465--89756674 Score: 136
Period size: 27 Copynumber: 7.7 Consensus size: 27
89756455 TTTCATCCTA
* * * * *
89756465 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
89756492 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** * *
89756519 CAATGGTATTTCTATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
89756548 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * *
89756575 C-AGAGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTCGGTAATTTTATAAAC
** * *
89756602 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
*
89756629 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * *
89756656 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
89756675 CTATCCTACA
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.03
27 111 0.76
28 17 0.12
29 15 0.10
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:89756593 original size:56 final size:55
Alignment explanation
Indices: 89756485--89756654 Score: 168
Period size: 54 Copynumber: 3.1 Consensus size: 55
89756475 TTGGTAAATC
* *
89756485 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA-ATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGA-GGTATTT-TGGTAATTTT
* * *
89756540 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGAGGTATTTTGGTAATTTT
** * *** * *
89756595 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGAGGTATTTTGGTAATTTT
89756649 TACAAA
1 TACAAA
89756655 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 45 0.46
55 14 0.14
56 37 0.38
57 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGAGGTATTTTGGTAATTTT
Found at i:89756637 original size:54 final size:53
Alignment explanation
Indices: 89756550--89756674 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 53
89756540 TAGAAAGTCA
* *** * * *
89756550 AGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTCACAAACCAGAGGTATTTCGGTAATTTTACAAACT
*
89756603 GAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTCACAAACCAGAGGTATTTCGGTAATTTTACAAACT
*
89756657 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
89756675 CTATCCTACA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.02
54 60 0.98
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTCACAAACCAGAGGTATTTCGGTAATTTTACAAACT
Found at i:89756691 original size:54 final size:54
Alignment explanation
Indices: 89756550--89756716 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 54
89756540 TAGAAAGTCA
* *** * * * *
89756550 AGGGTATTTCTGTAATTTTGTAAATCAGAGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTTTACAAATAG
*
89756604 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAG
1 AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTTTACAAA-TAG
* ** * * *
89756659 -GGGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTTCAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTC-A-CAAACCAGGGGTATTTCGGTAATTTTACAAATAG
89756711 AGGGTA
1 AGGGTA
89756717 AAATGATAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 10 0.11
54 78 0.83
55 4 0.04
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (54 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTCGGTAATTTTACAAATAG
Found at i:89756714 original size:27 final size:27
Alignment explanation
Indices: 89756579--89756714 Score: 100
Period size: 27 Copynumber: 5.0 Consensus size: 27
89756569 GTAAATCAGA
* * *
89756579 GGTATTTTGGTAATTTTACAAATTGA-G
1 GGTATTTCGGTAATTTCAC-AATCGAGG
* * *
89756606 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTCGGTAATTTCACAATCGAGG
* * *
89756633 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAATCGAGG
* *
89756660 GGTATTTTGGTAA-TTCTATC-CTAC-AGG
1 GGTATTTCGGTAATTTC-A-CAAT-CGAGG
*
89756687 GGTATTTCAGTAATTTCACAATCGAGG
1 GGTATTTCGGTAATTTCACAATCGAGG
89756714 G
1 G
89756715 TAAAATGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
26 7 0.08
27 74 0.86
28 5 0.06
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTCACAATCGAGG
Found at i:89756740 original size:27 final size:27
Alignment explanation
Indices: 89756710--89756903 Score: 208
Period size: 27 Copynumber: 7.2 Consensus size: 27
89756700 TTTCACAATC
*
89756710 GAGGGTAAAATGATAATTTTGTAAATT
1 GAGGGTAAAATGATAATTTTATAAATT
* *
89756737 GAGGGTAAAATGGTAATTTTATAAATC
1 GAGGGTAAAATGATAATTTTATAAATT
* * * * *
89756764 AAGGGTAAAACGATGATTTTGTAAATC
1 GAGGGTAAAATGATAATTTTATAAATT
* *
89756791 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAATGATAATTTTATAAATT
* *
89756818 GAGGGTAAAACGATAATTTTGTAAATT
1 GAGGGTAAAATGATAATTTTATAAATT
* * * *
89756845 GAGGGTGAAACGATAATTCTATAAATC
1 GAGGGTAAAATGATAATTTTATAAATT
* * * *
89756872 AAGGGTAAAATGGTAATTCTACAAATT
1 GAGGGTAAAATGATAATTTTATAAATT
89756899 GAGGG
1 GAGGG
89756904 CATTTCAGTA
Statistics
Matches: 137, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGATAATTTTATAAATT
Found at i:89756816 original size:81 final size:81
Alignment explanation
Indices: 89756706--89756903 Score: 270
Period size: 81 Copynumber: 2.4 Consensus size: 81
89756696 GTAATTTCAC
* * * * *
89756706 AATCGAGGGTAAAATGATAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATAAATCAAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTATAAATCAAGGGTA
* * *
89756771 AAACGATGATTTTGTA
66 AAACGATAATTCTATA
* ** *
89756787 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTGTAAATTGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTATAAATCAAGGGTA
89756852 AAACGATAATTCTATA
66 AAACGATAATTCTATA
* *
89756868 AATCAAGGGTAAAATGGTAATTCTACAAATTGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGG
89756904 CATTTCAGTA
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 103 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.31
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGATAATTTTATAAATCAAGGGTA
AAACGATAATTCTATA
Found at i:89756903 original size:54 final size:54
Alignment explanation
Indices: 89756706--89756881 Score: 262
Period size: 54 Copynumber: 3.3 Consensus size: 54
89756696 GTAATTTCAC
* * *
89756706 AATCGAGGGTAAAATGATAATTTTGTAAATTGAGGGTAAAATGGTAATTTTATA
1 AATCAAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
* *
89756760 AATCAAGGGTAAAACGATGATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCAAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
** * * *
89756814 AATTGAGGGTAAAACGATAATTTTGTAAATTGAGGGTGAAACGATAATTCTATA
1 AATCAAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
89756868 AATCAAGGGTAAAA
1 AATCAAGGGTAAAA
89756882 TGGTAATTCT
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (54 bp):
AATCAAGGGTAAAACGATAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATA
Found at i:89759259 original size:31 final size:31
Alignment explanation
Indices: 89759211--89759292 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
89759201 TCAGTCTCGA
89759211 CATAT-ACTGGG-CGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89759240 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89759271 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
89759293 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
29 5 0.10
30 19 0.37
31 27 0.53
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:89759540 original size:25 final size:25
Alignment explanation
Indices: 89759512--89759581 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
89759502 CTCTTTTAAT
*
89759512 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
89759537 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
89759562 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
89759582 AGCACTTCTC
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:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:89760448 original size:27 final size:27
Alignment explanation
Indices: 89760387--89760450 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
89760377 GGCATATTCG
89760387 TCATTTTACCATACAGGGGTATTACGA
1 TCATTTTACCATACAGGGGTATTACGA
* * *
89760414 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGA
*
89760441 TCTTTTTACC
1 TCATTTTACC
89760451 TATTAGTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGA
Found at i:89760534 original size:27 final size:27
Alignment explanation
Indices: 89760504--89760611 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
89760494 GTAAATCTAC
89760504 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
89760531 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
89760557 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
89760587 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
89760612 AAAATTGAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:89760622 original size:27 final size:27
Alignment explanation
Indices: 89760567--89760749 Score: 187
Period size: 27 Copynumber: 6.8 Consensus size: 27
89760557 AGAAAGTCAA
**
89760567 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
89760594 GGGTATTTTGGTAATTTTA-AAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
89760619 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
89760647 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
89760674 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
89760701 GGGTATTTTGGTAATTCTATCCTA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
89760728 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
89760750 TCGAGAGTAA
Statistics
Matches: 134, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.17
27 106 0.79
28 4 0.03
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:89760664 original size:80 final size:81
Alignment explanation
Indices: 89760568--89760716 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 81
89760558 GAAAGTCAAG
* ** *
89760568 GGTATTTCTGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTA-AAA-TTGAGGGTATTTCG
1 GGTATTTCGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCG
89760630 GTAATTTCACAAACTAGT
64 GTAATTTCACAAACTAGT
*
89760648 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
89760713 AATT
66 AATT
89760717 CTATCCTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
80 40 0.66
81 19 0.31
82 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACTAGT
Found at i:89760863 original size:81 final size:81
Alignment explanation
Indices: 89760748--89760945 Score: 288
Period size: 81 Copynumber: 2.4 Consensus size: 81
89760738 GTAATTTCAC
* * * * *
89760748 AATCGAGAGTAAAATAGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
* *
89760813 AAACGGTAATTCTGTA
66 AAACGATAATTCTATA
* *
89760829 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
*
89760894 AGACGATAATTCTATA
66 AAACGATAATTCTATA
* *
89760910 AATCGAGGGTAAAATTGTAATTCTACAAATTGAGGG
1 AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGG
89760946 CATTTCAGTA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 105 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:89760939 original size:27 final size:27
Alignment explanation
Indices: 89760748--89760933 Score: 221
Period size: 27 Copynumber: 6.9 Consensus size: 27
89760738 GTAATTTCAC
* * *
89760748 AATCGAGAGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
89760775 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
*
89760802 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
89760829 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
89760856 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * * *
89760883 AATCGAGGGTGAGACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
89760910 AATCGAGGGTAAAATTGTAATTCT
1 AATCGAGGGTAAAATGGTAATTCT
89760934 ACAAATTGAG
Statistics
Matches: 136, Mismatches: 21, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 134 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:89766820 original size:124 final size:124
Alignment explanation
Indices: 89766598--89766822 Score: 326
Period size: 124 Copynumber: 1.8 Consensus size: 124
89766588 GAATTATGTG
* * * * * * *
89766598 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
89766663 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
89766722 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
89766787 GCTAAGTCCCGAAGAC-ATTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
89766823 CCGGGTTAAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 4 0.05
124 84 0.95
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:89766944 original size:40 final size:39
Alignment explanation
Indices: 89766817--89766946 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
89766807 TTGCTGGAAA
* *
89766817 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * * *
89766857 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGTGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTG-CAGTGG
*
89766897 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
89766937 TTATATCCGG
1 TTATATCCGG
89766947 TTGTATTCCG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 4 0.05
40 71 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:89771227 original size:21 final size:21
Alignment explanation
Indices: 89771201--89771244 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
89771191 CCATAACACA
*
89771201 TTGGCCTAAGGGGTTTGAAAC
1 TTGGCCCAAGGGGTTTGAAAC
89771222 TTGGCCCAAGGGGTTTGAAAC
1 TTGGCCCAAGGGGTTTGAAAC
89771243 TT
1 TT
89771245 TAACCACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.30
Consensus pattern (21 bp):
TTGGCCCAAGGGGTTTGAAAC
Found at i:89774790 original size:18 final size:18
Alignment explanation
Indices: 89774769--89775087 Score: 133
Period size: 18 Copynumber: 17.3 Consensus size: 18
89774759 GAACAATTTT
* *
89774769 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
89774787 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
89774805 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* * * *
89774823 CTATTTAGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
89774841 TTGATCGGTTATCTAGTAACAGTCAA
1 TT-A-----T-TC-AGTAACAATCAA
* *
89774867 TTATTCAATAA-AATCGGA
1 TTATTCAGTAACAATC-AA
*
89774885 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
* *
89774902 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
89774920 TTCATTCATTGACAATCAA
1 TT-ATTCAGTAACAATCAA
* ***
89774939 TTATTTAGTAATGGTCAA
1 TTATTCAGTAACAATCAA
* * *
89774957 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
**
89774975 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
89774993 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
89775011 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* * *
89775030 -TATCCAATAACAGTCAA
1 TTATTCAGTAACAATCAA
* * *
89775047 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* * *
89775065 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
89775083 TTATT
1 TTATT
89775088 TTATACCTTT
Statistics
Matches: 222, Mismatches: 63, Indels: 32
0.70 0.20 0.10
Matches are distributed among these distances:
17 17 0.08
18 171 0.77
19 19 0.09
20 1 0.00
24 1 0.00
25 2 0.01
26 11 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:89774809 original size:36 final size:36
Alignment explanation
Indices: 89774769--89775087 Score: 151
Period size: 36 Copynumber: 8.6 Consensus size: 36
89774759 GAACAATTTT
* *
89774769 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * * *
89774805 TTATTCAATAATAACCAGCTATTTAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
89774841 TTGATCGGTTATCTAGTAACAGTCAATTATTCAATAA-AATCGGA
1 TT-A-----T-TC-AGTAACAATCAGTTATTCAGTAACAATC-AA
* * *
89774885 -TATTCAGTAACAATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAACAA-TCAGTTATTCAGTAACAATCAA
* * * * ***
89774920 TTCATTCATTGACAATCAATTATTTAGTAATGGTCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * **
89774957 TTATTCAGTAATATTCAGTTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
89774993 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * * *
89775030 -TATCCAATAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
89775065 TTATTCAATAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
89775088 TTATACCTTT
Statistics
Matches: 211, Mismatches: 56, Indels: 32
0.71 0.19 0.11
Matches are distributed among these distances:
35 10 0.05
36 158 0.75
37 20 0.09
42 2 0.01
43 6 0.03
44 15 0.07
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:89774973 original size:10 final size:10
Alignment explanation
Indices: 89774958--89775021 Score: 61
Period size: 8 Copynumber: 7.0 Consensus size: 10
89774948 AATGGTCAAT
89774958 TATTCAGTAA
1 TATTCAGTAA
89774968 TATTCAGT--
1 TATTCAGTAA
89774976 TATTCAGTAA
1 TATTCAGTAA
*
89774986 TGA-TCA--AT
1 T-ATTCAGTAA
89774994 TATTCAGTAA
1 TATTCAGTAA
89775004 TATTCAGT--
1 TATTCAGTAA
89775012 TATTCAGTAA
1 TATTCAGTAA
89775022 CAGTCTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
7 1 0.02
8 21 0.48
10 21 0.48
11 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (10 bp):
TATTCAGTAA
Found at i:89775275 original size:59 final size:56
Alignment explanation
Indices: 89775156--89775275 Score: 134
Period size: 59 Copynumber: 2.1 Consensus size: 56
89775146 ACCAACACAC
* * * * * *
89775156 CAGTACGGCACATAGTGCCTCATCGGCCGAAACCGAAACAGTAACAGTACCAGTAG
1 CAGTACGGCACAGAGTACCTCATCGGACGAAACCGAAACAGTAACAATAACAGTAA
*
89775212 CAGTACGGTACACAGAGTACCTCATCGGAAC-AAATCCGAAACAGTAACAATAACGGTAA
1 CAGTACGG--CACAGAGTACCTCATCGG-ACGAAA-CCGAAACAGTAACAATAACAGTAA
89775271 CAGTA
1 CAGTA
89775276 ACAATATCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
56 8 0.15
58 19 0.36
59 26 0.49
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (56 bp):
CAGTACGGCACAGAGTACCTCATCGGACGAAACCGAAACAGTAACAATAACAGTAA
Found at i:89775315 original size:6 final size:6
Alignment explanation
Indices: 89775304--89775338 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
89775294 AGTGTCGAAT
* *
89775304 CAGTAA CAGTAA CGGTAA CGGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
89775339 GTCGGCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:89775561 original size:19 final size:21
Alignment explanation
Indices: 89775522--89775561 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89775512 AATATAATTC
*
89775522 TATTCACTTTTCACTAATAAA
1 TATTCAATTTTCACTAATAAA
89775543 TATTCAATTTT-AC-AATAAA
1 TATTCAATTTTCACTAATAAA
89775562 CACATGTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (21 bp):
TATTCAATTTTCACTAATAAA
Found at i:89776840 original size:20 final size:18
Alignment explanation
Indices: 89776806--89776850 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
89776796 AAACTTTCAA
89776806 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
89776824 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
89776844 -TTTCCCT
1 TTTTCCCT
89776851 GCTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:89778040 original size:145 final size:143
Alignment explanation
Indices: 89777826--89778125 Score: 573
Period size: 145 Copynumber: 2.1 Consensus size: 143
89777816 GTGAGTTAAA
*
89777826 ATTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
89777891 TGAGTGAGTTCGAATGTTTAACAAAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTG
66 TGAGTGAGTTCGAATGTTTAAC--AAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTG
89777956 TGTGTGTGCATGAGT
129 TGTGTGTGCATGAGT
89777971 ATTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
1 ATTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
89778036 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
66 TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
89778101 TGTGTGCATGAGT
131 TGTGTGCATGAGT
89778114 ATTCGGCCATGC
1 ATTCGGCCATGC
89778126 TATAGAATTT
Statistics
Matches: 154, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
143 68 0.44
145 86 0.56
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.39
Consensus pattern (143 bp):
ATTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGA
TGAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTG
TGTGTGCATGAGT
Found at i:89778799 original size:29 final size:29
Alignment explanation
Indices: 89778766--89778896 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
89778756 TGACGAGATC
*
89778766 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
89778795 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
89778824 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
89778853 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
89778882 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
89778897 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:89786900 original size:31 final size:31
Alignment explanation
Indices: 89786822--89786934 Score: 117
Period size: 31 Copynumber: 3.7 Consensus size: 31
89786812 TTAGTCTTGA
* *
89786822 CATAT-ACTGGGCTGAAGCC-TTTCATTTAAC
1 CATATCACTGGGCCGAAGCCTTTTCA-TAAAC
* *
89786852 GAT-T-ACTGGGCTGAAGCCTTTTCATAAAC
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
* *
89786881 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAC
* *
89786912 CATTTCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
89786935 ACTGTAAACG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
29 21 0.30
30 8 0.11
31 42 0.59
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAC
Found at i:89787005 original size:42 final size:42
Alignment explanation
Indices: 89786958--89787049 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
89786948 TGGCCCATAG
* ** *
89786958 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
89787000 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
89787042 GCCCATTT
1 GCCCATTT
89787050 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:89787242 original size:26 final size:26
Alignment explanation
Indices: 89787194--89787290 Score: 180
Period size: 26 Copynumber: 3.8 Consensus size: 26
89787184 CCTCTTTAAT
89787194 AACTGGGGCA-AAG-CCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
89787218 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
89787244 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
89787270 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
89787291 GCACTTCCTC
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
24 10 0.14
25 3 0.04
26 58 0.82
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:89788137 original size:27 final size:27
Alignment explanation
Indices: 89788097--89788159 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
89788087 TATTCGTTAT
* *
89788097 TTTACCATATAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
89788124 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
89788151 TTTACCCTA
1 TTTACCCTA
89788160 ATAGGATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.33
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:89788359 original size:54 final size:53
Alignment explanation
Indices: 89788301--89788440 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 53
89788291 TGTAAATTAG
89788301 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTT-GATAATTTCACAAACCAA
* * * *
89788355 GGGTATTTTGGTAATTTTACAAACT-AGGGGTGCTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGT-ATTTGATAATTTCACAAACCAA
* * *
89788409 GGGTATTTTAGTAATTTTATAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
89788441 AAATAGTAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 69 0.93
55 4 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTGATAATTTCACAAACCAA
Found at i:89788438 original size:27 final size:27
Alignment explanation
Indices: 89788219--89788494 Score: 146
Period size: 27 Copynumber: 10.1 Consensus size: 27
89788209 ACAAACCAAA
* * * *
89788219 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTATAAATCAAG
*
89788246 GGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTT-TAGTAA-TTTTATAAA-TCAAG
* * * *
89788275 GGTATTTCTA-TAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTATAAATCAAG
* * **
89788302 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
* * * *
89788329 GGTA-TTTCGATAATTTCACAAACCAAG
1 GGTATTTTAG-TAATTTTATAAATCAAG
* * *
89788356 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTAGTAATTTTATAAATC-AAG
** * * *
89788383 GGTGCTTTGGTAATTTTACAAACCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*
89788410 GGTATTTTAGTAATTTTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
*** *
89788437 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTATAAATCAAG
**** * *
89788464 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTATAAATCAAG
89788491 GGTA
1 GGTA
89788495 AAATGGTAAT
Statistics
Matches: 201, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
26 6 0.03
27 160 0.80
28 19 0.09
29 16 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTATAAATCAAG
Found at i:89788439 original size:81 final size:81
Alignment explanation
Indices: 89788228--89788440 Score: 189
Period size: 81 Copynumber: 2.6 Consensus size: 81
89788218 AGGTATTTCA
** * *
89788228 GTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCTATAACTTT
1 GTAATTTTACAAACCAAGGGTATTT-TAGTAA-TTTTACAAA-TCAAGGGTATTTCTATAACTTT
** * *
89788292 GTAAATTAGGGGTATTTTG
63 ACAAACTAGGGGTACTTTG
*** * * * * *
89788311 GTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAACCAAGGGTATTT-TGGTAATTTTA
1 GTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAATCAAGGGTATTTCT-ATAACTTTA
*
89788374 CAAACTAGGGGTGCTTTG
64 CAAACTAGGGGTACTTTG
* *
89788392 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTA
1 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAAGGGTA
89788441 AAATAGTAAT
Statistics
Matches: 101, Mismatches: 25, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
80 1 0.01
81 68 0.67
82 13 0.13
83 19 0.19
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (81 bp):
GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCTATAACTTTACA
AACTAGGGGTACTTTG
Found at i:89788450 original size:54 final size:54
Alignment explanation
Indices: 89788301--89788505 Score: 171
Period size: 54 Copynumber: 3.8 Consensus size: 54
89788291 TGTAAATTAG
* * ** * *
89788301 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGATAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAAT-GGTAATTTTACAAACCAA
* * ****
89788355 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTGCTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTAAAATGGTAATTTTACAAACCAA
* * * * *
89788409 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATGGTAATTTTACAAACCAA
**** * *
89788463 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATT
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATGGTAATT
89788506 CTGTAAATCG
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 120 0.95
55 5 0.04
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATGGTAATTTTACAAACCAA
Found at i:89788477 original size:81 final size:81
Alignment explanation
Indices: 89788392--89788621 Score: 205
Period size: 81 Copynumber: 2.9 Consensus size: 81
89788382 GGGTGCTTTG
* *** * *
89788392 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
89788457 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * * * *
89788473 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
* *
89788538 AGTCGAGGGTAAAAC-
66 AATCAAGGGTAAAACA
* ** * * * * * *
89788553 GATAATTATGTAAATCAGGGGTAAAATGGTAATTAC-GTAAATCG-GGGAAAAACAGTAATTCTG
1 G-TAATTCTACAAACCAAGGGTAAAATAGTAATT-CTATAAATCGAGGGTAAAACAGTAATTCTA
89788616 TAAATC
64 TAAATC
89788622 GGGGGTACTT
Statistics
Matches: 125, Mismatches: 22, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
80 23 0.18
81 101 0.81
82 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:89788495 original size:27 final size:27
Alignment explanation
Indices: 89788418--89788628 Score: 232
Period size: 27 Copynumber: 7.9 Consensus size: 27
89788408 AGGGTATTTT
* * *
89788418 AGTAATTTTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89788445 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89788472 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89788499 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89788526 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89788553 -GATAATTATGTAAATC-AGGGGTAAAAT
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
89788580 GGTAATTAC-GTAAATCG-GGGAAAAAC
1 AGTAATT-CTGTAAATCGAGGGTAAAAC
*
89788606 AGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
89788629 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.14
27 135 0.84
28 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:89788664 original size:27 final size:27
Alignment explanation
Indices: 89788634--89788723 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
89788624 GGGTACTTTG
*
89788634 GTAATTTTACAAGTCGAAGCTATTTCA
1 GTAATTTTACAAATCGAAGCTATTTCA
* *
89788661 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGCTATTTCA
* * * *
89788688 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GCTATTTCA
89788715 GTAATTTTA
1 GTAATTTTA
89788724 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGCTATTTCA
Found at i:89788730 original size:28 final size:27
Alignment explanation
Indices: 89788654--89788732 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
89788644 AAGTCGAAGC
*
89788654 TATTTCAGTAATTTTACAAA-TCGAGGG
1 TATTTCAGTAATTTTACAAACT-AAGGG
*
89788681 TATTTCAGTATTTTTACAAACTAAGGG
1 TATTTCAGTAATTTTACAAACTAAGGG
* *
89788708 TATTTCGGTAATTTTAGTAAACTAA
1 TATTTCAGTAATTTTA-CAAACTAA
89788733 AGTATTCTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 37 0.82
28 8 0.18
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAACTAAGGG
Found at i:89792464 original size:43 final size:43
Alignment explanation
Indices: 89792396--89792727 Score: 398
Period size: 43 Copynumber: 7.7 Consensus size: 43
89792386 GCCACAAAAC
* * *
89792396 TTAGCGGCGTTTTTTTCTAAAAACGCCGCTAAAGACCTGTACTT
1 TTAGCGGCGCTTTTAT-AAAAAACGCCGCTAAAGACCTGTACTT
* *
89792440 TTAGCGGCACTTTTATAAAAAACGCCGTTAAAGACCTGTACTT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
* * * * * *
89792483 TTAGCGTCGCTTTTTTAAGAAACGCCGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
* *
89792526 TTAGCAGCGCTTTTATAAAAAACGCCGCGAAAGACCTGTACTT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
* * * * * *
89792569 TTAGCGGCGCTTTTTTAAGAAACGCCGCGAAAGACCAGGACCT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
* *
89792612 TTAGCGGCGCTTTT-TGAAAAACGCCGCTAAAGACCTATACTT
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
* ** *
89792654 TTAGCGGCGCTTTTTATAAAAAATGCCGCTAGGGACCTGTGCTT
1 TTAGCGGCGC-TTTTATAAAAAACGCCGCTAAAGACCTGTACTT
*
89792698 TTAGCGGCGCTTTT-TGAAAAACGCCGCTAA
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAA
89792728 TTTGCCCAGT
Statistics
Matches: 243, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
42 44 0.18
43 154 0.63
44 45 0.19
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCTGTACTT
Found at i:89793047 original size:21 final size:21
Alignment explanation
Indices: 89793023--89793066 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
89793013 GTTCTGCTCT
89793023 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
89793044 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCTCGCTGCTGCCTCC
89793065 GC
1 GC
89793067 TCTAAGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.57, G:0.20, T:0.23
Consensus pattern (21 bp):
GCCTCCCTCGCTGCTGCCTCC
Found at i:89794510 original size:68 final size:70
Alignment explanation
Indices: 89794438--89794635 Score: 285
Period size: 71 Copynumber: 2.8 Consensus size: 70
89794428 ACACCCTGTA
* * * * *
89794438 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGGAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
89794500 ATAAAT
65 ATAAAT
*
89794506 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
89794571 ATAAAT
65 ATAAAT
*
89794577 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
89794636 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:89794561 original size:71 final size:71
Alignment explanation
Indices: 89794472--89794635 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
89794462 GAGATGTATC
*
89794472 CCATGTAGACAAGAGAGCTACGTGGAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
89794537 AGGACA
66 AGGACA
89794543 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
89794608 AGGACA
66 AGGACA
89794614 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
89794636 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:89800799 original size:21 final size:22
Alignment explanation
Indices: 89800770--89800810 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
89800760 ACTCTAAATT
89800770 TAAATCCCTAAACCTGAGACTC
1 TAAATCCCTAAACCTGAGACTC
*
89800792 TAAA-CCCTAAACCTTAGAC
1 TAAATCCCTAAACCTGAGAC
89800811 CACAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.39, C:0.32, G:0.07, T:0.22
Consensus pattern (22 bp):
TAAATCCCTAAACCTGAGACTC
Found at i:89801921 original size:40 final size:40
Alignment explanation
Indices: 89801785--89801924 Score: 208
Period size: 41 Copynumber: 3.5 Consensus size: 40
89801775 GTTATATGAC
* * *
89801785 TTTTAACGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-AT
*
89801826 TTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTA-T
* *
89801867 TTTTAGCGGCGTTTTAACAAAAGCGCCGCTAATGATCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
89801907 TTTTAGCGGCGTTTTACC
1 TTTTAGCGGCGTTTTACC
89801925 TGTTACTCTG
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 18 0.20
41 72 0.80
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
Found at i:89809890 original size:2 final size:2
Alignment explanation
Indices: 89809883--89809913 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
89809873 GTTTTGGATG
89809883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89809914 GCAAATGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:89817480 original size:40 final size:40
Alignment explanation
Indices: 89817421--89817562 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
89817411 AAATTGAATG
* *
89817421 ATATCCGGGCTAA-ACCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
89817461 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
89817501 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
89817541 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
89817563 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:89817563 original size:40 final size:39
Alignment explanation
Indices: 89817460--89817572 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
89817450 TGCTGGAAAT
* * **
89817460 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
89817500 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
89817540 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
89817573 ACATGCTTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:89819091 original size:45 final size:46
Alignment explanation
Indices: 89818988--89819102 Score: 144
Period size: 45 Copynumber: 2.5 Consensus size: 46
89818978 ATATCTAGCT
* * *
89818988 TAAGATCGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGA
1 TAAGACCGAATGGCCAATGTGATGAATGTG-AAGAGTGAATATGTGA
*
89819035 TAAGGCCGAATGGCCAATGTGAT-ATATGTG-AGAGTGAATATGTGA
1 TAAGACCGAATGGCCAATGTGATGA-ATGTGAAGAGTGAATATGTGA
*
89819080 TAAGACCGAATGACCAATTGTGA
1 TAAGACCGAATGGCCAA-TGTGA
89819103 AAGTGTGCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 28 0.47
46 6 0.10
47 26 0.43
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (46 bp):
TAAGACCGAATGGCCAATGTGATGAATGTGAAGAGTGAATATGTGA
Found at i:89819227 original size:39 final size:40
Alignment explanation
Indices: 89819172--89819256 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
89819162 AAGTGAATTG
* * * *
89819172 TGCTGAGATTGCATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
* *
89819211 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
89819251 TGCTGG
1 TGCTGG
89819257 TGAATTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 17 0.44
40 22 0.56
ACGTcount: A:0.18, C:0.22, G:0.32, T:0.28
Consensus pattern (40 bp):
TGCTGGGATTGCATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:89819911 original size:2 final size:2
Alignment explanation
Indices: 89819904--89819942 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
89819894 GAATTAAGTT
89819904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89819943 TCATGTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89828782 original size:43 final size:43
Alignment explanation
Indices: 89828650--89828798 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 43
89828640 CAATGCCGAC
* * * * *
89828650 GTCCCAGACGTGGTCTTACATGTAATTCAAAATCTATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAAAATCGATGCCTGT
* *
89828693 GTCCCAGACAGGGTCTTACACG-AAATCAGATAT-GATG-CTGAT
1 GTCCCAGACATGGTCTTACACGTAAATCA-AAATCGATGCCTG-T
* ** *
89828735 GTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACGTAAATCAAAATCGATGCCTGT
* *
89828778 GTCCCAAACACGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
89828799 AATGTCACAG
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 31 0.36
43 49 0.58
44 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAAATCGATGCCTGT
Found at i:89832861 original size:40 final size:37
Alignment explanation
Indices: 89832759--89832907 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 37
89832749 AAATTGAATG
* * * *
89832759 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCT---AGTT
*
89832799 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGT---T
*
89832839 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTT
* *
89832876 TTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
89832908 AAATCGTGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
37 30 0.32
38 2 0.02
39 3 0.03
40 60 0.63
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (37 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTT
Found at i:89832890 original size:37 final size:37
Alignment explanation
Indices: 89832798--89832948 Score: 142
Period size: 40 Copynumber: 3.9 Consensus size: 37
89832788 TGCTGGAAAT
* *
89832798 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGT-G
89832837 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-
1 -TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTG
* * *
89832875 TTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGT-G
* * * *
89832914 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCG
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCG
89832949 GGTTACCATA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
37 31 0.33
38 2 0.02
39 6 0.06
40 55 0.59
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (37 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTG
Found at i:89832920 original size:77 final size:77
Alignment explanation
Indices: 89832800--89832948 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 77
89832790 CTGGAAATTA
* * * *
89832800 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
89832865 TCGTGCGAGTTT
66 TCGTGCGAGTTT
* * * * *
89832877 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ATATCCGGGCTAAGACCCGAAGGCA
*
89832941 TTGGTGCG
65 TTCGTGCG
89832949 GGTTACCATA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
76 1 0.02
77 60 0.98
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTTT
Found at i:89840928 original size:39 final size:40
Alignment explanation
Indices: 89840870--89840970 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
89840860 AAATTGAATG
* *
89840870 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
89840909 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
89840949 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
89840971 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:89840963 original size:40 final size:40
Alignment explanation
Indices: 89840870--89841052 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
89840860 AAATTGAATG
* * * * *
89840870 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89840909 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
89840949 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
89840989 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
89841029 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
89841053 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:89850847 original size:26 final size:26
Alignment explanation
Indices: 89850817--89850873 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
89850807 CCTTTGTTTG
89850817 CATATATGTCATGCTTCATTTCCATA
1 CATATATGTCATGCTTCATTTCCATA
89850843 CATATATGTCATGCTTCATTTCCATA
1 CATATATGTCATGCTTCATTTCCATA
89850869 CATAT
1 CATAT
89850874 TTCACAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (26 bp):
CATATATGTCATGCTTCATTTCCATA
Found at i:89851131 original size:42 final size:42
Alignment explanation
Indices: 89851012--89851143 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
89851002 AGATACTCAT
* * *
89851012 AATCAAGTACAATGCCGACGTCCCAGACGTGGTCTTACATGTA
1 AATCAA-TACAATGCCGATGTCCCAGACATGGTCTTACACGTA
* * ** * * *
89851055 ATTCAATATCGATGCCTCTATCCCGGACAGGGTCTTACACG-A
1 AATCAATA-CAATGCCGATGTCCCAGACATGGTCTTACACGTA
*
89851097 AATCAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTA
1 AATCA-ATACAATGCCGATGTCCCAGACATGGTCTTACACGTA
89851140 AATC
1 AATC
89851144 TCAATCGAGG
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
AATCAATACAATGCCGATGTCCCAGACATGGTCTTACACGTA
Found at i:89851174 original size:85 final size:85
Alignment explanation
Indices: 89851019--89851178 Score: 198
Period size: 85 Copynumber: 1.9 Consensus size: 85
89851009 CATAATCAAG
* * * *
89851019 TACAATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAATATCGATGCCTCTATCCCGGACA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTATCCCAGACA
*
89851084 GGGTCTTACACGAAATCAGA
66 CGGTCTTACACGAAATCAGA
* * * * *
89851104 TACAATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCGTGTGTCCCAGA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTATCCCAGA
89851167 CACGGTCTTACA
64 CACGGTCTTACA
89851179 TGATGTCATA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 57 0.90
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (85 bp):
TACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTATCCCAGACA
CGGTCTTACACGAAATCAGA
Done.