Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 170 of 228
Found at i:51050846 original size:46 final size:46
Alignment explanation
Indices: 51050773--51050903 Score: 210
Period size: 46 Copynumber: 2.8 Consensus size: 46
51050763 ACAAGGCTAT
**
51050773 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATAGAAATACCATACCTACTTTTCAC
*
51050819 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATAGAAATACCATACCTACTTTTCAC
*
51050865 AACTCAGTATGGTTTTCTTCACTAGAAA-GCCATACCTAC
1 AACTCAGTATGGTTTTCTTCA-TAGAAATACCATACCTAC
51050904 ATTACACACT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 75 0.94
47 5 0.06
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATAGAAATACCATACCTACTTTTCAC
Found at i:51052182 original size:16 final size:17
Alignment explanation
Indices: 51052136--51052183 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
51052126 AAATTCTTTT
51052136 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
51052153 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
51052170 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
51052184 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:51071237 original size:17 final size:15
Alignment explanation
Indices: 51071205--51071238 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
51071195 AATTTGTAAA
51071205 AATAGAAAAAATTAT
1 AATAGAAAAAATTAT
51071220 AATAGTAAAAAATATAT
1 AATAG-AAAAAAT-TAT
51071237 AA
1 AA
51071239 AAAAGTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAGAAAAAATTAT
Found at i:51077709 original size:106 final size:109
Alignment explanation
Indices: 51077494--51077712 Score: 302
Period size: 106 Copynumber: 2.0 Consensus size: 109
51077484 ACATATAAAT
** * *
51077494 CTTATAGGGCCTATGCAAATTGAGAGCTTAGGCGGTGAAATGTTTTTTATTTTATTTTTTTGTAT
1 CTTATAGGGCCTATGCAAATTGAGAGCTTACACAGTGAAATG---TTTATCTTATTTTTTTGTAT
* *
51077559 TGATAATTTCTCAAGGCTTACATAGGTTGAGTTCTTAAGGGAAAAAC
63 TGACAATTTCTCAAAGCTTACATAGGTTGAGTTCTTAAGGGAAAAAC
51077606 CTTATAGGGCCTATGCAAATTGAGAGCTTACACAGTGAAATG-TT-TCTT-TTTTTTTGTATTGA
1 CTTATAGGGCCTATGCAAATTGAGAGCTTACACAGTGAAATGTTTATCTTATTTTTTTGTATTGA
* *
51077668 CGATTTTTCAAAGCTTACATAGGTTGAGTTCTTGAA-GGAAAAAC
66 CAATTTCTCAAAGCTTACATAGGTTGAGTTCTT-AAGGGAAAAAC
51077712 C
1 C
51077713 ATAAGTTTTT
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
106 52 0.53
107 5 0.05
108 2 0.02
112 39 0.40
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (109 bp):
CTTATAGGGCCTATGCAAATTGAGAGCTTACACAGTGAAATGTTTATCTTATTTTTTTGTATTGA
CAATTTCTCAAAGCTTACATAGGTTGAGTTCTTAAGGGAAAAAC
Found at i:51080457 original size:107 final size:107
Alignment explanation
Indices: 51080319--51080528 Score: 375
Period size: 107 Copynumber: 2.0 Consensus size: 107
51080309 CCGAATCTGA
* * *
51080319 AGAAGTTACATTAGTTTGTTTAAAAACCCCAGAAGTTAAATCCTAACTTTAGAAATAGAGAATTT
1 AGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACAGAGAATTT
51080384 CGAAAATAATATTTTTAGCAAAATACTTACTTGTTATTCAGG
66 CGAAAATAATATTTTTAGCAAAATACTTACTTGTTATTCAGG
* *
51080426 AGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAATTTTAGAAACCGAGAATTT
1 AGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACAGAGAATTT
51080491 CGAAAATAATATTTTTAGCAAAATACTTACTTGTTATT
66 CGAAAATAATATTTTTAGCAAAATACTTACTTGTTATT
51080529 TTGGAAATTT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (107 bp):
AGAAATTACATTAGTTTGTTTAAAAAACCCAGAAGTTAAATCCTAACTTTAGAAACAGAGAATTT
CGAAAATAATATTTTTAGCAAAATACTTACTTGTTATTCAGG
Found at i:51080977 original size:38 final size:38
Alignment explanation
Indices: 51080926--51081045 Score: 222
Period size: 38 Copynumber: 3.2 Consensus size: 38
51080916 GGTCCTAAGT
51080926 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
51080964 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
* *
51081002 TAGAAGATTACCTGAAACATATTAATAAACAAGTGAGC
1 TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
51081040 TAGAAG
1 TAGAAG
51081046 CTCAGTATGT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (38 bp):
TAGAAGATTACCTGAAACATATTAACAAACGAGTGAGC
Found at i:51084437 original size:18 final size:17
Alignment explanation
Indices: 51084395--51084438 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
51084385 TTTTAACAAA
51084395 AATATATAAAAATTCAAT
1 AATATA-AAAAATTCAAT
51084413 -ATGATAAAACAATTCAAT
1 AAT-ATAAAA-AATTCAAT
51084431 AATATAAA
1 AATATAAA
51084439 TAGTACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.22
18 16 0.70
19 2 0.09
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (17 bp):
AATATAAAAAATTCAAT
Found at i:51098625 original size:11 final size:11
Alignment explanation
Indices: 51098609--51098633 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51098599 ATGTTGCTTT
51098609 AAAAAATTTGC
1 AAAAAATTTGC
51098620 AAAAAATTTGC
1 AAAAAATTTGC
51098631 AAA
1 AAA
51098634 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (11 bp):
AAAAAATTTGC
Found at i:51107177 original size:30 final size:29
Alignment explanation
Indices: 51107086--51107179 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 29
51107076 TTAATATAAC
* *
51107086 ATTTGATACTTGACTTCACACTTTCTCATA
1 ATTTGATACTTGACTT-ATACTTTCTCCTA
* * ** *
51107116 ATTTGTTACTTAGA-TTTTTTTTTGTCC-A
1 ATTTGATACTT-GACTTATACTTTCTCCTA
51107144 ATTTGATACTTGGACTTATACTTTCTCCTA
1 ATTTGATACTT-GACTTATACTTTCTCCTA
51107174 ATTTGA
1 ATTTGA
51107180 AACCTAAACT
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
28 13 0.27
29 14 0.29
30 19 0.40
31 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (29 bp):
ATTTGATACTTGACTTATACTTTCTCCTA
Found at i:51110080 original size:30 final size:31
Alignment explanation
Indices: 51110041--51110127 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 31
51110031 GGGCATCAAT
51110041 ATTCATATTTACATATGCATA-CCTGTAATC
1 ATTCATATTTACATATGCATACCCTGTAATC
* * * * *
51110071 ATTCTTATTTGCTTATTCATACCCTGTAATA
1 ATTCATATTTACATATGCATACCCTGTAATC
* * * *
51110102 ATTTACATATACCTAT-CATACCCTGT
1 ATTCATATTTACATATGCATACCCTGT
51110128 GTTTGGTCAC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 27 0.60
31 18 0.40
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.43
Consensus pattern (31 bp):
ATTCATATTTACATATGCATACCCTGTAATC
Found at i:51112063 original size:44 final size:44
Alignment explanation
Indices: 51111975--51112064 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
51111965 CGAAAAAAAT
* * * *
51111975 AATAATAAATAATTTATAATACAAATGAAATATATTATGCATAA
1 AATAATAAATAATATATAACAAAAAAGAAATATATTATGCATAA
*
51112019 AATAATAAATGATATATAACAAAAAAGCAAATAT-TTGATG-ATAA
1 AATAATAAATAATATATAACAAAAAAG-AAATATATT-ATGCATAA
51112063 AA
1 AA
51112065 GATAATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 30 0.77
45 9 0.23
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (44 bp):
AATAATAAATAATATATAACAAAAAAGAAATATATTATGCATAA
Found at i:51124004 original size:16 final size:16
Alignment explanation
Indices: 51123983--51124036 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
51123973 TAGAGTGGAA
*
51123983 AGAAAAATGGAAGGGT
1 AGAAAAATGAAAGGGT
*
51123999 AGAAAATTGAAAGGGT
1 AGAAAAATGAAAGGGT
* * * *
51124015 ATAAAATTAAAAGGAT
1 AGAAAAATGAAAGGGT
51124031 AGAAAA
1 AGAAAA
51124037 CATAATTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (16 bp):
AGAAAAATGAAAGGGT
Found at i:51130755 original size:21 final size:21
Alignment explanation
Indices: 51130731--51130770 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51130721 ATGCTTGAGT
51130731 TATATA-GTTTTGGTCATGATA
1 TATATATGTTTTGG-CATGATA
51130752 TATATATGTTTTGGCATGA
1 TATATATGTTTTGGCATGA
51130771 AGTAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (21 bp):
TATATATGTTTTGGCATGATA
Found at i:51135078 original size:70 final size:70
Alignment explanation
Indices: 51134965--51135106 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
51134955 CAAACAGCAC
51134965 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
51135030 ATTGG
66 ATTGG
* * *
51135035 AAGACCTGATATAGCTTTTGTTGTAAACTTGTTATCAAGATTTAGTTTTTCTCCAATACGTAGAC
1 AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
51135100 ATTGG
66 ATTGG
51135105 AA
1 AA
51135107 TGTAATTAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (70 bp):
AAGACCTGATATAGCTTTTGCTGTAAACTTGTTAGCAAGATTTAGTTTTTCTCCAACACGTAGAC
ATTGG
Found at i:51143617 original size:21 final size:21
Alignment explanation
Indices: 51143589--51143629 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51143579 GAATTAGTAA
*
51143589 AATAAAAATAATATT-TATTT
1 AATAAAAACAATATTCTATTT
51143609 AATAGAAAACAATATTCTATT
1 AATA-AAAACAATATTCTATT
51143630 CTTAAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (21 bp):
AATAAAAACAATATTCTATTT
Found at i:51146468 original size:30 final size:31
Alignment explanation
Indices: 51146433--51146490 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
51146423 TTAATTATTA
*
51146433 AACTATTC-ATAATTTTTATTTAAGTCATTG
1 AACTATTCAATAATTTTTATTAAAGTCATTG
*
51146463 AACTATTCAATAGTTTTTATTAAAGTCA
1 AACTATTCAATAATTTTTATTAAAGTCA
51146491 CTGGATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (31 bp):
AACTATTCAATAATTTTTATTAAAGTCATTG
Found at i:51147026 original size:43 final size:43
Alignment explanation
Indices: 51146960--51147080 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 43
51146950 GTTTATGATA
*
51146960 ACAAACGCCGCTAAAGAACATGATCTTTAATGGCGCTTTACCC
1 ACAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTACCC
* * * *
51147003 ACAAACGCCGCTAAAGAATATGATATTTAGCGGCGCTTTACTC
1 ACAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTACCC
* *
51147046 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCG
1 ACAAACGCCGCTAAAGAACATGATCTTTAACGGCG
51147081 TTTTTGGTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGATCTTTAACGGCGCTTTACCC
Found at i:51147098 original size:43 final size:43
Alignment explanation
Indices: 51146945--51147104 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
51146935 ACTAATTTTT
* *
51146945 GCGGCGTTTATGATAACAAACGCCGCTAAAGAACATGATCTTTA
1 GCGGCGTTTTTGCT-ACAAACGCCGCTAAAGAACATGATCTTTA
** * ** * * *
51146989 ATGGCGCTTTACCCACAAACGCCGCTAAAGAATATGATATTTA
1 GCGGCGTTTTTGCTACAAACGCCGCTAAAGAACATGATCTTTA
* * *
51147032 GCGGCG-CTTTACTCACAAACGCCGCTAAAGAACATGACCTTTA
1 GCGGCGTTTTTGCT-ACAAACGCCGCTAAAGAACATGATCTTTA
* *
51147075 GCGGCGTTTTTGGTA-AAAGCGCCGATAAAG
1 GCGGCGTTTTTGCTACAAA-CGCCGCTAAAG
51147105 GTCATAAAAA
Statistics
Matches: 90, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.07
43 74 0.82
44 10 0.11
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
GCGGCGTTTTTGCTACAAACGCCGCTAAAGAACATGATCTTTA
Found at i:51152829 original size:17 final size:17
Alignment explanation
Indices: 51152804--51152868 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
51152794 GCATAACCCT
51152804 TAACCCCTAAATCCCCC
1 TAACCCCTAAATCCCCC
* **
51152821 TAACACCTAAAGCATAACCC
1 TAACCCCT-AA--ATCCCCC
*
51152841 TAACCCCTAAATCCCCA
1 TAACCCCTAAATCCCCC
51152858 TAACCCCTAAA
1 TAACCCCTAAA
51152869 GCATAACCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 22 0.58
18 2 0.05
19 2 0.05
20 12 0.32
ACGTcount: A:0.38, C:0.43, G:0.02, T:0.17
Consensus pattern (17 bp):
TAACCCCTAAATCCCCC
Found at i:51152854 original size:37 final size:37
Alignment explanation
Indices: 51152728--51152903 Score: 175
Period size: 37 Copynumber: 4.8 Consensus size: 37
51152718 ATAAAAATTA
* *
51152728 ATAACCCCTAAAT-CCCA-AATCCC-AAATCCCTAACCC
1 ATAACCCCTAAATCCCCATAA-CCCTAAA-GCATAACCC
**
51152764 ATAACCCCTAAATCCCTTTTAACCCTTAAAGCATAACCC
1 ATAACCCCTAAATCCC-CATAACCC-TAAAGCATAACCC
* *
51152803 TTAACCCCTAAATCCCCCTAACACCTAAAGCATAACCC
1 ATAACCCCTAAATCCCCATAAC-CCTAAAGCATAACCC
51152841 -TAACCCCTAAATCCCCATAACCCCTAAAGCATAACCC
1 ATAACCCCTAAATCCCCATAA-CCCTAAAGCATAACCC
* * *
51152878 CTAACCCATAAA-ACCCA-AACCCTAAA
1 ATAACCCCTAAATCCCCATAACCCTAAA
51152904 TCCATATACC
Statistics
Matches: 122, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
35 7 0.06
36 15 0.12
37 40 0.33
38 31 0.25
39 26 0.21
40 3 0.02
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.18
Consensus pattern (37 bp):
ATAACCCCTAAATCCCCATAACCCTAAAGCATAACCC
Found at i:51152887 original size:14 final size:14
Alignment explanation
Indices: 51152835--51152888 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
51152825 ACCTAAAGCA
51152835 TAACCC-TAACCCC
1 TAACCCATAACCCC
51152848 TAAATCCCCATAACCCC
1 T-AA--CCCATAACCCC
**
51152865 TAAAGCATAACCCC
1 TAACCCATAACCCC
51152879 TAACCCATAA
1 TAACCCATAA
51152889 AACCCAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.03
14 19 0.58
16 5 0.15
17 8 0.24
ACGTcount: A:0.39, C:0.43, G:0.02, T:0.17
Consensus pattern (14 bp):
TAACCCATAACCCC
Found at i:51153296 original size:114 final size:114
Alignment explanation
Indices: 51153096--51153360 Score: 406
Period size: 114 Copynumber: 2.3 Consensus size: 114
51153086 TTTAAATCCC
* * * *
51153096 TGAGCATTAGCGGCGCTTTCTTAAAAATGCCGTTAAATCCCCGAAAGCACAGAAAACGGCGCCGT
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCACAGAAAACGGCACCGT
* *
51153161 TGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCT
66 TGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCA
* ** * *
51153210 TGAGCATTAGCGGCGCTTTCTGAAAAACGCCGCTAAATCCCCAAAAGTTCAGGAAACGGCATCGT
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCACAGAAAACGGCACCGT
*
51153275 TGGGCTTAGGTTTTT-TTGCGGCGCTTTCCCAAAAACATCGCTAAAGCCA
66 TGGGCTTA-GTTTTTCTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCA
51153324 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
51153361 GCCCTGAGCA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
114 131 0.96
115 6 0.04
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (114 bp):
TGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCACAGAAAACGGCACCGT
TGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAACACCGCTAAAGCCA
Found at i:51153337 original size:41 final size:41
Alignment explanation
Indices: 51153292--51153401 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
51153282 AGGTTTTTTT
*
51153292 GCGGCGCTTTCCCAAAAACATCGCTAAAGCCATGAGCATTA
1 GCGGCGCTTTCCCAAAAACACCGCTAAAGCCATGAGCATTA
** * *
51153333 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACACCGCTAAAGCCATGAGCATTA
* * *
51153374 GTGGCGC-TTCCTGAAAAACGCCGCTAAA
1 GCGGCGCTTTCC-CAAAAACACCGCTAAA
51153402 TCCCCGAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 3 0.05
41 57 0.95
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACACCGCTAAAGCCATGAGCATTA
Found at i:51153391 original size:155 final size:155
Alignment explanation
Indices: 51153178--51153515 Score: 491
Period size: 155 Copynumber: 2.2 Consensus size: 155
51153168 AGTTTTTCTT
** * *
51153178 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAACGCCGC
* * * * **
51153243 TAAATCCCC-AAAAGTTCAGGAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAA
66 TAAATCCCCGAAAAGCTCA-AAAACGGCATCATTGGGCTTAGGTTTCTTTGCGGCAATTTCCCAA
*
51153307 AAACATC-GCTAAAGCCATGAGCATTA
130 AAAC-GCAGCTAAAGCCATGAGCATTA
*
51153333 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTCCTGAAAAACGCCGC
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAACGCCGC
* * *
51153398 TAAATCCCCGAAAAGCTCAAAAAGGGCGTCATTGGGCTTAGGTTTCTTTGCGGCAATTTCTCAAA
66 TAAATCCCCGAAAAGCTCAAAAACGGCATCATTGGGCTTAGGTTTCTTTGCGGCAATTTCCCAAA
*
51153463 AACGCAGCTAAAGCCTTGAGCATTA
131 AACGCAGCTAAAGCCATGAGCATTA
*
51153488 GCGACGCTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAA
51153516 TCCACGAAAG
Statistics
Matches: 164, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
154 1 0.01
155 155 0.95
156 8 0.05
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (155 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAACGCCGC
TAAATCCCCGAAAAGCTCAAAAACGGCATCATTGGGCTTAGGTTTCTTTGCGGCAATTTCCCAAA
AACGCAGCTAAAGCCATGAGCATTA
Found at i:51153451 original size:114 final size:112
Alignment explanation
Indices: 51153333--51153696 Score: 520
Period size: 114 Copynumber: 3.2 Consensus size: 112
51153323 ATGAGCATTA
* * * *
51153333 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGCTTCCTGAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
* * *
51153398 TAAATCCCCGAAAAGCTCAAAAAGGGCGTCATTGGGCTTAGGTTTCTTT
66 TAAATCCACG-AAAGCTCAAAAA-GGCGTCGTTGGGCTTAGGTTTTTTT
** * * *
51153447 GCGGCAATTTCTCAAAAACGCAGCTAAAGCCTTGAGCATTAGCGACGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
51153512 TAAATCCACGAAAGCTC--AAA--CGTCGTTGGGCTTAGGTTTTTTT
66 TAAATCCACGAAAGCTCAAAAAGGCGTCGTTGGGCTTAGGTTTTTTT
*
51153555 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
*
51153620 TAAATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAGGTTTTTTT
66 TAAATCCACGAAAGCTC-AAAAA-GGCGTCGTTGGGCTTAGGTTTTTTT
* *
51153669 GCGGCGCTTTCTAAAAAACACCGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
51153697 TCCCCGAAAT
Statistics
Matches: 223, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
108 97 0.43
111 6 0.03
113 7 0.03
114 113 0.51
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (112 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
TAAATCCACGAAAGCTCAAAAAGGCGTCGTTGGGCTTAGGTTTTTTT
Found at i:51153680 original size:73 final size:72
Alignment explanation
Indices: 51153596--51153768 Score: 265
Period size: 73 Copynumber: 2.4 Consensus size: 72
51153586 CTGAACATTA
*
51153596 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAG
51153661 GTTTTTTT
66 G-TTTTTT
* * * * *
51153669 GCGGCGCTTTCTAAAAAACACCGCTAAATCCCCGAAATCTCACAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAG
51153734 GTTTTTT
66 GTTTTTT
* *
51153741 GCGGCGCTTTCTCAAAAACGCCGTTAAA
1 GCGGCGCTTTCTAAAAAACGCCGCTAAA
51153769 GCCCTGAGCA
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 31 0.34
73 60 0.66
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAG
GTTTTTT
Found at i:51153801 original size:186 final size:181
Alignment explanation
Indices: 51153492--51153882 Score: 622
Period size: 186 Copynumber: 2.1 Consensus size: 181
51153482 GCATTAGCGA
*
51153492 CGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAAACGTCGTTGGGCTTAGGTTTTTTTGC
1 CGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCTCAAACGTCGTTGGGCTTAGGTTTTTTTGC
*
51153557 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAACGCCGCTA
66 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCACTTTCTTAAAAACGCCGCTA
*
51153622 AATCCACGAAAGCTCAAAAAACGGCATCGTTGGGCTTAGGTTTTTTTGCGG
131 AATCCACGAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTTTTTGCGG
* * *
51153673 CGCTTTCTAAAAAACACCGCTAAATCCCCGAAATCTCACAAAACGGCGTCGTTGGGCTTAGG-TT
1 CGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCT--C-AAA---CGTCGTTGGGCTTAGGTTT
* *
51153737 TTTTGCGGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTAGCGGCACTTTCTTAAAAACG
60 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCACTTTCTTAAAAACG
*
51153802 CCGCTAAATCCACGAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTTTTTGCGG
125 CCGCTAAATCCACGAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTTTTTGCGG
* *
51153859 CGCTTTCTCAAAAACGTCGCTAAA
1 CGCTTTCTAAAAAACGCCGCTAAA
51153883 ACCCTGAGCA
Statistics
Matches: 192, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
181 32 0.17
183 1 0.01
184 3 0.02
186 140 0.73
187 16 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (181 bp):
CGCTTTCTAAAAAACGCCGCTAAATCCACGAAAGCTCAAACGTCGTTGGGCTTAGGTTTTTTTGC
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAGCGGCACTTTCTTAAAAACGCCGCTA
AATCCACGAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTTTTTGCGG
Found at i:51153806 original size:113 final size:111
Alignment explanation
Indices: 51153669--51153989 Score: 452
Period size: 114 Copynumber: 2.9 Consensus size: 111
51153659 AGGTTTTTTT
* * * *
51153669 GCGGCGCTTTCTAAAAAACACCGCTAAATCCCCGAAATCTCACAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAA-CTCA-AAAACGACATCGTTGGGCTTAG
* *
51153734 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGTTAAAGCCCTGAGCATTA
64 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTGAGCATTA
* *
51153782 GCGGCACTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACGACATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAA-CTCA-AAAACGACATCGTTGGGCTTAG
*
51153847 GTTTTTTTGCGGCGCTTTCTCAAAAACGTCGCTAAAACCCTGAGCATTA
64 G-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTGAGCATTA
* * *
51153896 GCGGCGCTTTCTTAAAAACGCCGCGAAATCCCCGAAAGT---AAACGACATCATTGGGCTTAGGT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAACTCAAAAACGACATCGTTGGGCTTAGGT
51153958 TTTTTGCGGCGCTTTCT-AGAAAACGCCGCTAA
66 TTTTTGCGGCGCTTTCTCA-AAAACGCCGCTAA
51153990 TTCTTATTTT
Statistics
Matches: 189, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 30 0.16
109 21 0.11
113 59 0.31
114 78 0.41
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (111 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAACTCAAAAACGACATCGTTGGGCTTAGGT
TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAACCCTGAGCATTA
Found at i:51155846 original size:16 final size:17
Alignment explanation
Indices: 51155825--51155859 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
51155815 AATTTAAAAG
*
51155825 ATATTTTTATAA-TTAA
1 ATATTTTTAGAATTTAA
51155841 ATATTTTTAGAATTTAA
1 ATATTTTTAGAATTTAA
51155858 AT
1 AT
51155860 GATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATTTTTAGAATTTAA
Found at i:51157769 original size:3 final size:3
Alignment explanation
Indices: 51157722--51157803 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
51157712 TTTAGCATTT
* * * * *
51157722 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
51157767 TTA TTG TTG TTA TTA TTA GTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
51157804 GTTCTTCATC
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.06
3 54 0.84
4 6 0.09
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:51157789 original size:19 final size:19
Alignment explanation
Indices: 51157761--51157806 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
51157751 TTATCATCTT
* *
51157761 TTATTA-TTATTGTTGTTA
1 TTATTAGTTATTATTATTA
51157779 TTATTAGTTATTATTATTA
1 TTATTAGTTATTATTATTA
51157798 TTATTAGTT
1 TTATTAGTT
51157807 CTTCATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (19 bp):
TTATTAGTTATTATTATTA
Found at i:51161929 original size:17 final size:18
Alignment explanation
Indices: 51161907--51161943 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
51161897 TTATTCTTTT
51161907 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
51161924 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
51161942 AT
1 AT
51161944 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:51162685 original size:10 final size:9
Alignment explanation
Indices: 51162668--51162702 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
51162658 CAAAAATAGG
51162668 AGAAAAAAA
1 AGAAAAAAA
51162677 AGAAGAAAAA
1 AGAA-AAAAA
51162687 AGAAAAAAAA
1 AG-AAAAAAA
51162697 AGAAAA
1 AGAAAA
51162703 GGAAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.33
10 14 0.58
11 2 0.08
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:51162709 original size:17 final size:17
Alignment explanation
Indices: 51162668--51162709 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
51162658 CAAAAATAGG
51162668 AGAAAAAAAAGAAGAAA
1 AGAAAAAAAAGAAGAAA
*
51162685 A-AAGAAAAAAAAAGAAA
1 AGAA-AAAAAAGAAGAAA
*
51162702 AGGAAAAA
1 AGAAAAAA
51162710 GGAGAGGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAGAAGAAA
Found at i:51163538 original size:10 final size:10
Alignment explanation
Indices: 51163511--51163547 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
51163501 TGAGTCAAAC
51163511 AAAAAAAATG
1 AAAAAAAATG
51163521 AATGAAAAAATG
1 AA--AAAAAATG
51163533 AAAAAAAATG
1 AAAAAAAATG
51163543 AAAAA
1 AAAAA
51163548 GTAAAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.60
12 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:51164909 original size:44 final size:43
Alignment explanation
Indices: 51164773--51165263 Score: 170
Period size: 44 Copynumber: 11.2 Consensus size: 43
51164763 AGTTGCAGAT
* * *
51164773 CTTGCCTTCCTGCATTGACAACGAAGTAGGTCGAAGATACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
* * * ** *
51164817 CTTGCC-TCTCT-CGATTG-TAGCGGAGCTGGTTC-AAGACAACGGAT
1 CTTGCCTTC-CTGC-ATTGACAGC-AAGCAGG-TCGAAGAC-ACAAAC
*
51164861 CTTGCCTTCCTGCATTAACAGCAAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
** * * * * *
51164905 CTTGCC-TCTCTCGGTTGTGA-TG-GAGCTGGTTGAAGACA-ATAGAT
1 CTTGCCTTC-CT-GCAT-TGACAGCAAGCAGGTCGAAGACACA-A-AC
51164949 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
** * * * * * *
51164993 CTTGCC-TCTCTCGGTTGTGA-TG-GAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTC-CT-GCAT-TGACAGCAAGCAGGTCGAAGACACAA-AC
** * *
51165037 CTTGCCTTCCTATATTGATAGCGAAGTAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
** * * * * *
51165081 CTTGCC-TCTCT-CAGTTGTGATG-GAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTGCA-TTGACA-GCAAGCAGGTCGAAGAC-ACAAAC
* * *
51165125 CTTGCCTTCCTACATTGACAGCGAAGTAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
** * * * * *
51165169 CTTGCC-TCTCTCGGTTGTGA-TG-GAGCTGGTTGAAGACAACAAAT
1 CTTGCCTTC-CT-GCAT-TGACAGCAAGCAGGTCGAAGAC-ACAAAC
* * *
51165213 CTTGTCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGC-AAGCAGGTCGAAGACACAAAC
51165257 CTTGCCT
1 CTTGCCT
51165264 CTCTCGGTTG
Statistics
Matches: 316, Mismatches: 89, Indels: 84
0.65 0.18 0.17
Matches are distributed among these distances:
42 10 0.03
43 82 0.26
44 131 0.41
45 84 0.27
46 9 0.03
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTGACAGCAAGCAGGTCGAAGACACAAAC
Found at i:51164930 original size:88 final size:88
Alignment explanation
Indices: 51164768--51165370 Score: 904
Period size: 88 Copynumber: 6.9 Consensus size: 88
51164758 AATGAAGTTG
* * * *
51164768 CAGATCTTGCCTTCCTGCATTGACAACGAAGTAGGTCGAAGATACAAACCTTGCCTCTCTCGATT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
51164833 GT-AGCGGAGCTGGTTCAAGACAA
66 GTGA-TGGAGCTGGTTGAAGACAA
* * *
51164856 CGGATCTTGCCTTCCTGCATTAACAGCAAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
51164921 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
*
51164944 TAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
51165009 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* ** * * *
51165032 AAGATCTTGCCTTCCTATATTGATAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCAGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
51165097 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * *
51165120 CAGATCTTGCCTTCCTACATTGACAGCGAAGTAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
51165185 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * *
51165208 CAAATCTTGTCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
51165273 GTGGTGGAGTTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * * *
51165296 AAGATCTTGCCTTCCTTCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
51165361 GT-AGTGGAGC
66 GTGA-TGGAGC
51165371 AGATCAAAGA
Statistics
Matches: 473, Mismatches: 40, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
88 472 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
GTGATGGAGCTGGTTGAAGACAA
Found at i:51165374 original size:43 final size:43
Alignment explanation
Indices: 51165237--51165380 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
51165227 TTGACAGCGA
* * *
51165237 AGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGGTGG
1 AGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGG
** * * * * * * * * *
51165280 AGTTGGTTGAAGACAAAAGATCTTGCCTTCCTTC-ATTGACAGCGA
1 AGCAGATCGAAGACACAAG-CCTTGCC-TCCCTCGGTTG-TAGTGG
51165325 AGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGG
1 AGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGG
*
51165368 AGCAGATCAAAGA
1 AGCAGATCGAAGA
51165381 TGGTGAATCT
Statistics
Matches: 71, Mismatches: 26, Indels: 8
0.68 0.25 0.08
Matches are distributed among these distances:
43 33 0.46
44 18 0.25
45 20 0.28
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (43 bp):
AGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGG
Found at i:51165609 original size:132 final size:132
Alignment explanation
Indices: 51165361--51165641 Score: 420
Period size: 132 Copynumber: 2.1 Consensus size: 132
51165351 TCCCTCGGTT
* * *
51165361 GTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCTCAACACAGTGGAGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
* * ** *
51165426 CATTGGTCCTATCACCTTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCAC-TCTAA
66 CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACAT-TAA
51165490 GCA
130 GCA
* * *
51165493 GTAGTGGGGCAGATCGAAGATGGTGAATATTATCTTCCCAATACAATGGAGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
* * *
51165558 CATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGATTCTGTCCCATTAAG
66 CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACATTAAG
51165623 CA
131 CA
51165625 GTAGTGGAGCAGATCAA
1 GTAGTGGAGCAGATCAA
51165642 CAATAACGAA
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 131 0.99
133 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (132 bp):
GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTGTCACATTAAG
CA
Found at i:51167074 original size:3 final size:3
Alignment explanation
Indices: 51167027--51167107 Score: 58
Period size: 3 Copynumber: 26.7 Consensus size: 3
51167017 TTTAGCATTT
* * * * *
51167027 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
51167072 TTA TTG TTG TTA TTA TTA GTTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT
51167108 TCTTCATCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.06
3 53 0.84
4 6 0.10
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:51167459 original size:22 final size:22
Alignment explanation
Indices: 51167418--51167482 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
51167408 TTTATTGTTT
* *
51167418 TTTATGTTCATTTATGTATTTA-
1 TTTA-GTTTATTTATTTATTTAC
*
51167440 TTTATGTGTTCTTT-TTTATTTAC
1 TTTA-GT-TTATTTATTTATTTAC
51167463 TTTAGTTTATTTATTTATTT
1 TTTAGTTTATTTATTTATTT
51167483 GCTATGACTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTAGTTTATTTATTTATTTAC
Found at i:51167916 original size:110 final size:109
Alignment explanation
Indices: 51167589--51167903 Score: 468
Period size: 111 Copynumber: 2.9 Consensus size: 109
51167579 TCAAAAAAGG
* * * *
51167589 AAAAATTTTCTAAATGAGGCAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTT-AAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
51167654 GGGTGTCGGTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
** * * *
51167699 AAATTTTTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGC
1 AAA--AATTTTAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * *
51167764 TGGGTGTCGTTTTTTCTCATTCAATCAAATGGCTTAATATCCTTTT
64 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
51167810 AAAAATTTTAAAATAAGGCAATATTTTGCATTTAGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATATTTTGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
51167875 GGGTGTCGATTTTTCTCGTTCAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
51167904 TGCCAAATAT
Statistics
Matches: 182, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
109 26 0.14
110 59 0.32
111 93 0.51
112 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:51169981 original size:34 final size:34
Alignment explanation
Indices: 51169943--51170011 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
51169933 TAAAATCATC
*
51169943 AATTAAGTGAAATAGTGAATCACCATGTATTTTT
1 AATTAAGTGAAATAGTGAACCACCATGTATTTTT
*
51169977 AATTAGGTGAAATAGTGAACCACCATGTATTTTT
1 AATTAAGTGAAATAGTGAACCACCATGTATTTTT
51170011 A
1 A
51170012 GTTTCTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (34 bp):
AATTAAGTGAAATAGTGAACCACCATGTATTTTT
Found at i:51175458 original size:13 final size:13
Alignment explanation
Indices: 51175440--51175466 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51175430 AATTGATATG
51175440 TGTGAAAATTTTA
1 TGTGAAAATTTTA
51175453 TGTGAAAATTTTA
1 TGTGAAAATTTTA
51175466 T
1 T
51175467 TGTTTGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTA
Found at i:51176772 original size:43 final size:42
Alignment explanation
Indices: 51176678--51176785 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
51176668 GATTTGAAAT
* * * * *
51176678 TTACATGTAAGACCATGCCTGAGACATTGGCGTCGTATATGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATATGA
** * *
51176720 TTATGTGTAAGACCCTGTCTGGGACAGTGGTATCGTTATTTGA
1 TTACATGTAAGACCCTGTCTGGGACAGTGGCATCG-TATATGA
51176763 TTACATGTAAGACCAC-GTCTGGG
1 TTACATGTAAGACC-CTGTCTGGG
51176786 CCGTTGGCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 27 0.51
43 25 0.47
44 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACAGTGGCATCGTATATGA
Found at i:51178563 original size:13 final size:13
Alignment explanation
Indices: 51178545--51178569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51178535 ACAAACGATA
51178545 AAATTTTCACACG
1 AAATTTTCACACG
51178558 AAATTTTCACAC
1 AAATTTTCACAC
51178570 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:51179957 original size:41 final size:41
Alignment explanation
Indices: 51179894--51180120 Score: 366
Period size: 41 Copynumber: 5.5 Consensus size: 41
51179884 TTTAACATAT
* * *
51179894 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
51179935 TCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
51179976 TCACCGGCACTTAGCCTACTAGGTTTATAA-CTAGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCT-GATTCAGA
51180017 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
51180058 TCACCGGCACTTAGCCTGCTAGGTTTAGAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
51180099 TCACCGACACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
51180121 ACTTAAAGTC
Statistics
Matches: 174, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 170 0.98
42 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:51180156 original size:123 final size:123
Alignment explanation
Indices: 51179893--51180148 Score: 354
Period size: 123 Copynumber: 2.1 Consensus size: 123
51179883 ATTTAACATA
* *
51179893 TTCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACTGGCACTTAGCCTGCTAGG
1 TTCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* * ** * *
51179958 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTACTAGGTTTATAACTAGATTCAG
66 TTTAGAACCTGATTCAGATCACCGACACTTAGCCTACTAGACTTATAACCAAATTCAG
* * *
51180016 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* * *
51180081 TTTAGAACCTGATTTAGATCACCGACACTTAGCCTGCTAGACTTA-AAGTCCAAATT-AT
66 TTTAGAACCTGATTCAGATCACCGACACTTAGCCTACTAGACTTATAA--CCAAATTCAG
51180139 TTCACCAGCA
1 TTCACCAGCA
51180149 TCAAGCCTAC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
122 2 0.02
123 108 0.94
124 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (123 bp):
TTCACCAGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTAGAACCTGATTCAGATCACCGACACTTAGCCTACTAGACTTATAACCAAATTCAG
Found at i:51181933 original size:28 final size:28
Alignment explanation
Indices: 51181902--51181958 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
51181892 TATGTTTGTT
51181902 TTTATTATTATAA-CTTTATAATATATTA
1 TTTATTATTATAACCTTTATAAT-TATTA
51181930 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATTATAACCTTTATAATTATTA
51181958 T
1 T
51181959 AAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATTATAACCTTTATAATTATTA
Found at i:51181948 original size:15 final size:14
Alignment explanation
Indices: 51181902--51181955 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
51181892 TATGTTTGTT
*
51181902 TTTATTATTATAAC
1 TTTATAATTATAAC
*
51181916 TTTATAATATATTA-
1 TTTATAAT-TATAAC
*
51181930 TTTATTATTATAACC
1 TTTATAATTATAA-C
51181945 TTTATAATTAT
1 TTTATAATTAT
51181956 TATAAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAATTATAAC
Found at i:51182169 original size:14 final size:15
Alignment explanation
Indices: 51182150--51182178 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51182140 TTACGAAACT
51182150 TTCACACAT-ATAAA
1 TTCACACATAATAAA
51182164 TTCACACATAATAAA
1 TTCACACATAATAAA
51182179 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:51183494 original size:26 final size:26
Alignment explanation
Indices: 51183458--51183507 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
51183448 GAAACAAAGT
51183458 CAGAAATGTCTCA-TCACATACCATGG
1 CAGAAATGTCT-AGTCACATACCATGG
*
51183484 CAGAAATGTCTAGTCTCATACCAT
1 CAGAAATGTCTAGTCACATACCAT
51183508 CCCACCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (26 bp):
CAGAAATGTCTAGTCACATACCATGG
Found at i:51188032 original size:41 final size:41
Alignment explanation
Indices: 51187969--51188154 Score: 282
Period size: 41 Copynumber: 4.5 Consensus size: 41
51187959 TTTAACATAT
* * *
51187969 TCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
51188010 TTACTGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
51188051 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* * *
51188092 TCACCGGAACTTAGCCTGCTAGGTTTAGAACCTGATTTAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
51188133 TCACCGACACTTAGCTTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
51188155 ACTTAAAGTC
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 132 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:51189965 original size:28 final size:28
Alignment explanation
Indices: 51189934--51189990 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
51189924 TATGTTTGTT
51189934 TTTATTATTATAA-CTTTATAATATATTA
1 TTTATTATTATAACCTTTATAAT-TATTA
51189962 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATTATAACCTTTATAATTATTA
51189990 T
1 T
51189991 AAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATTATAACCTTTATAATTATTA
Found at i:51189980 original size:15 final size:14
Alignment explanation
Indices: 51189934--51189987 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
51189924 TATGTTTGTT
*
51189934 TTTATTATTATAAC
1 TTTATAATTATAAC
*
51189948 TTTATAATATATTA-
1 TTTATAAT-TATAAC
*
51189962 TTTATTATTATAACC
1 TTTATAATTATAA-C
51189977 TTTATAATTAT
1 TTTATAATTAT
51189988 TATAAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAATTATAAC
Found at i:51190199 original size:14 final size:15
Alignment explanation
Indices: 51190182--51190210 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51190172 TTACGAAAAT
51190182 TTCACACAT-ATAAA
1 TTCACACATAATAAA
51190196 TTCACACATAATAAA
1 TTCACACATAATAAA
51190211 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:51197827 original size:49 final size:48
Alignment explanation
Indices: 51197728--51197903 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 48
51197718 CTCCCAATTC
* * * * *
51197728 ACGGTGGTTATACGGTCAC-AGGTTGAAGCATAAATAGAGCGCCCAATTG
1 ACGGTGGTTATACAGTCACGA-GTTCAAGTATAACTAGAGC-CCCAGTTG
*
51197777 ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTTGAGCCCCTAGTTG
1 ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTAGAGCCCC-AGTTG
* * * * * *
51197826 ACAGTGGTTATGCAATCATG-GATTCAAGTATAACTCG-GCCCCCCGATTG
1 ACGGTGGTTATACAGTCACGAG-TTCAAGTATAACTAGAG-CCCCAG-TTG
* * *
51197875 ACGGTGGTTATGCGGTCGCGAGTTCAAGT
1 ACGGTGGTTATACAGTCACGAGTTCAAGT
51197904 TTCATGCTAC
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
48 6 0.06
49 96 0.92
50 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (48 bp):
ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTAGAGCCCCAGTTG
Found at i:51198494 original size:49 final size:50
Alignment explanation
Indices: 51198415--51198528 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 50
51198405 GTGGCATGAA
* *
51198415 ACTTGAACTCGTGA-TCGCATAATCACCGTCAACTGGGGGCCCGAATTAT
1 ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAATTAT
* * * * *
51198464 ACTTGAACCCGTGACT-GCATAACCATCGTCAACTGGGCGTCCTAGTTAT
1 ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAATTAT
*
51198513 ACTTCAACTCGTGACT
1 ACTTGAACTCGTGACT
51198529 ATATAATCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 54 0.98
50 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (50 bp):
ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAATTAT
Found at i:51202096 original size:10 final size:11
Alignment explanation
Indices: 51202072--51202096 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51202062 TTAAAATAAC
51202072 AAAAATCCATA
1 AAAAATCCATA
51202083 AAAAATCCATA
1 AAAAATCCATA
51202094 AAA
1 AAA
51202097 TTCATAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAATCCATA
Found at i:51205392 original size:29 final size:29
Alignment explanation
Indices: 51205333--51205394 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
51205323 TTTTTATATC
* *
51205333 ATAAAAAATTAAAATAGATTATATATTAA
1 ATAAAAAATTAAAATAAATTAAATATTAA
*
51205362 ATAAAAAATTAAATTAAATTAAAT-TTCAA
1 ATAAAAAATTAAAATAAATTAAATATT-AA
51205391 ATAA
1 ATAA
51205395 TCCAAATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (29 bp):
ATAAAAAATTAAAATAAATTAAATATTAA
Found at i:51207626 original size:60 final size:60
Alignment explanation
Indices: 51207506--51207629 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 60
51207496 AGTCAGTCTT
** * * * *
51207506 CTATTAGTAAATTTCTTTCTTGATCATTCTATTATGAAAAGTTACAAAATGATCACCCAA
1 CTATTAGTAAATTTCTTTCTTGATCACCCAACTATGAAAAGTCACAAAATGACCACCCAA
* * * *
51207566 CTATTAGTAAATTTCTTTTTTGATCACCCAACTATGAAAAGTCATAAAATGGCCATCCAA
1 CTATTAGTAAATTTCTTTCTTGATCACCCAACTATGAAAAGTCACAAAATGACCACCCAA
51207626 CTAT
1 CTAT
51207630 CCAATTTTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (60 bp):
CTATTAGTAAATTTCTTTCTTGATCACCCAACTATGAAAAGTCACAAAATGACCACCCAA
Found at i:51208420 original size:17 final size:18
Alignment explanation
Indices: 51208398--51208435 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
51208388 GTGCATCAAA
*
51208398 TTTTCTC-CATCAATTCT
1 TTTTCTCTCATAAATTCT
51208415 TTTTCTCTCATAAATTCT
1 TTTTCTCTCATAAATTCT
51208433 TTT
1 TTT
51208436 CTAGTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTCTCTCATAAATTCT
Found at i:51214103 original size:21 final size:22
Alignment explanation
Indices: 51214063--51214104 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
51214053 AAATTGGTTT
* *
51214063 ATTAAAATTGTAAAATATAACC
1 ATTAAAAATGTAAAACATAACC
51214085 ATTAAAAAT-TAAAACATAAC
1 ATTAAAAATGTAAAACATAAC
51214105 TAGTAAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
ATTAAAAATGTAAAACATAACC
Found at i:51221329 original size:13 final size:13
Alignment explanation
Indices: 51221311--51221346 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
51221301 TTTAAGACCC
*
51221311 TAAATATTTTTAT
1 TAAATATTTATAT
51221324 TAAATATTTATAT
1 TAAATATTTATAT
51221337 TAAATATTTA
1 TAAATATTTA
51221347 CAGAGTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:51226397 original size:43 final size:43
Alignment explanation
Indices: 51226344--51226489 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
51226334 ATTGATTTGA
* * * *
51226344 GATTTACGTGTAAGACCATGTCTGGGACATTGGCGTCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGAACACTGGCATCGTATAT
*
51226387 GATTAACGTGTAAGACCATGTCTAGAACACTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGAACACTGGCATCGTATAT
* * * * *
51226430 GATTTACGTGTAAGACTC-TATCTAGGACAGTGACATCGATATTT
1 GATTTACGTGTAAGAC-CATGTCTAGAACACTGGCATCG-TATAT
*
51226474 GA-TTACATGTAAGACC
1 GATTTACGTGTAAGACC
51226490 TCTTTTGGGA
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 81 0.91
44 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGAACACTGGCATCGTATAT
Found at i:51228774 original size:43 final size:43
Alignment explanation
Indices: 51228713--51228797 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
51228703 CACGACATTC
51228713 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
1 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
51228756 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTT
1 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTT
51228798 GTGCGGTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (43 bp):
TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
Found at i:51230163 original size:3 final size:3
Alignment explanation
Indices: 51230108--51230184 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
51230098 TATATAAACG
* * * * * *
51230108 AAT AAT -AT AAT AGT AAT AGT AAA AAT ATT GAT AAT AAT GAA- AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
51230152 AGT AGT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51230185 TAAAAATATT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
2 3 0.05
3 52 0.91
4 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51231308 original size:19 final size:19
Alignment explanation
Indices: 51231273--51231324 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
51231263 TTATTGGACT
*
51231273 ATTTA-ATTTTTT-GTTTG
1 ATTTATATTTTTTATTTTG
*
51231290 GTTTATATTTTTTATTTTG
1 ATTTATATTTTTTATTTTG
51231309 ATTTGAT-TTTTTTATT
1 ATTT-ATATTTTTTATT
51231325 ACGGGCCTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 4 0.14
18 7 0.24
19 16 0.55
20 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (19 bp):
ATTTATATTTTTTATTTTG
Found at i:51232229 original size:26 final size:27
Alignment explanation
Indices: 51232200--51232258 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
51232190 TTCACAATTC
51232200 AAAATAACATTT-A-TAAAATAATATAT
1 AAAATAACATTTAACTAAAATAA-ATAT
* *
51232226 AAAAT-ATATTTAACTAAATTAAATAT
1 AAAATAACATTTAACTAAAATAAATAT
51232252 AAAATAA
1 AAAATAA
51232259 TTTTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 5 0.18
26 15 0.54
27 8 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAATAACATTTAACTAAAATAAATAT
Found at i:51232275 original size:26 final size:26
Alignment explanation
Indices: 51232215--51232275 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
51232205 AACATTTATA
*
51232215 AAATAATATATAAAATATATTTAACT
1 AAATAAAATATAAAATATATTTAACT
* *
51232241 AAATTAAATATAAAATAATTTTTAA-T
1 AAATAAAATATAAAAT-ATATTTAACT
*
51232267 ATATAAAAT
1 AAATAAAAT
51232276 GCCATAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATAAAATATAAAATATATTTAACT
Found at i:51257606 original size:155 final size:154
Alignment explanation
Indices: 51257260--51257888 Score: 700
Period size: 155 Copynumber: 4.1 Consensus size: 154
51257250 GGATGTTGCA
* * * **
51257260 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGA-T-T
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTT-TTTAATAAGTCAAGATTAT
* * * *
51257323 -ACTGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAG-TTAGGGTTT
65 AATTGAATTTCAACCCTTCCAAG-AAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTT
* *
51257386 ACCCTAATTTGTATAGCTATGTGGTG
129 ACCCTAATTTGTATAACTATGTTGTG
* * * * *
51257412 GAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCTAGATCATA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
* *
51257477 ATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCATTGCCAAATAGTTTAGAGTTTA
66 ATTGAATTTCAACCCTTCCAAGAAA-ATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTA
* * **
51257542 CCCTTATTTGTATAATTACATTGTG
130 CCCTAATTTGTATAACTATGTTGTG
* **
51257567 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAA-ACATGTCAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATA-A-GTCAAGATTA
* * * *
51257631 TAATTGAATTTTAACCCTT--AAAAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* * *
51257694 TACCC-AATTTTTATAGCTATGTTATG
128 TACCCTAATTTGTATAACTATGTTGTG
* ** * * *
51257720 AAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGTAATATAATTTAATACG-CTAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGT-TTTTAATAAGTC-AAGATTA
* * * ** *
51257784 TAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATTCACCCATGGCCAAATAGTTTAGGGTT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* *
51257849 TACCCTAATTTGTATAATTGTGTTGTG
128 TACCCTAATTTGTATAACTATGTTGTG
51257876 AAAATTGTATAAG
1 AAAATTGTATAAG
51257889 TTTGATTAAA
Statistics
Matches: 400, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
151 12 0.03
152 42 0.10
153 82 0.20
154 93 0.23
155 117 0.29
156 54 0.14
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (154 bp):
AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
ATTGAATTTCAACCCTTCCAAGAAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTAC
CCTAATTTGTATAACTATGTTGTG
Found at i:51257852 original size:309 final size:306
Alignment explanation
Indices: 51257260--51257888 Score: 798
Period size: 309 Copynumber: 2.0 Consensus size: 306
51257250 GGATGTTGCA
* * * * *
51257260 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGATTAC
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
* *
51257325 TGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAGTTAGGGTTTACCC
66 TGAATTTCAACCCTT-CAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCC
* * * ** *
51257390 TAATTTGTATAGCTATGTGGTGGAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATG
130 TAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATA
* * * **
51257455 TTTTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCA
195 TATTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCA
* *
51257520 TTGCCAAATAGTTTAGAGTTTACCCTTATTTGTATAATTACATTGTG
260 TGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
* * *
51257567 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAAACATGTCAAGATTAT
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGA-T-T
* * * * *
51257632 AATTGAATTTTAACCCTT-AA-AAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATTT
64 -ACTGAATTTCAACCCTTCAAGAAAAA-TTATGAAATTTGCCCATTGCCAAATAG-TTAGGATTT
* * *
51257695 ACCC-AATTTTTATAGCTATGTTATGAAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGT
126 ACCCTAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGT
* * * * *
51257759 AATATAATTTAATACG-CTAAGATTATAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATT
191 AATAT-ATTTAATAAGTCT-AGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATT
* ***
51257823 CACCCATGGCCAAATAGTTTAGGGTTTACCCTAATTTGTATAATTGTGTTGTG
254 CACCCATGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
51257876 AAAATTGTATAAG
1 AAAATTGTATAAG
51257889 TTTGATTAAA
Statistics
Matches: 274, Mismatches: 41, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
307 58 0.21
308 84 0.31
309 117 0.43
310 15 0.05
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (306 bp):
AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
TGAATTTCAACCCTTCAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCCT
AATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATAT
ATTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCAT
GGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
Found at i:51258538 original size:13 final size:13
Alignment explanation
Indices: 51258520--51258565 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
51258510 GACCTCCTTG
51258520 AATTAAATTATTA
1 AATTAAATTATTA
51258533 AATTAAA--ATT-
1 AATTAAATTATTA
51258543 AATTAAAATTATTA
1 AATT-AAATTATTA
51258557 AA-TAAATTA
1 AATTAAATTA
51258566 AATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 6 0.21
13 11 0.38
14 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Found at i:51258546 original size:23 final size:22
Alignment explanation
Indices: 51258520--51258572 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
51258510 GACCTCCTTG
51258520 AATTAAATTATTAAATTAAAATT-
1 AATTAAATTATTAAA-T-AAATTA
51258543 AATTAAAATTATTAAATAAATTA
1 AATT-AAATTATTAAATAAATTA
51258566 AATTAAA
1 AATTAAA
51258573 ATTAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.29
23 9 0.32
24 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAATTATTAAATAAATTA
Found at i:51258548 original size:10 final size:9
Alignment explanation
Indices: 51258520--51258571 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
51258510 GACCTCCTTG
51258520 AATTAAATT
1 AATTAAATT
51258529 -ATTAAATT
1 AATTAAATT
51258537 -A--AAATT
1 AATTAAATT
51258543 AATTAAAATT
1 AATT-AAATT
*
51258553 -ATTAAATA
1 AATTAAATT
51258561 AATTAAATT
1 AATTAAATT
51258570 AA
1 AA
51258572 AATTAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 5 0.14
7 1 0.03
8 13 0.36
9 12 0.33
10 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:51258559 original size:18 final size:18
Alignment explanation
Indices: 51258521--51258567 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
51258511 ACCTCCTTGA
51258521 ATTAAATT-ATT-AAATT
1 ATTAAATTAATTAAAATT
51258537 A--AAATTAATTAAAATT
1 ATTAAATTAATTAAAATT
*
51258553 ATTAAATAAATTAAA
1 ATTAAATTAATTAAA
51258568 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 7 0.27
18 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATTAAAATT
Found at i:51258573 original size:23 final size:24
Alignment explanation
Indices: 51258520--51258576 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
51258510 GACCTCCTTG
51258520 AATT-AAATTATTAAATTAAAATT
1 AATTAAAATTATTAAATTAAAATT
51258543 AATTAAAATTATTAAA-T-AAATT
1 AATTAAAATTATTAAATTAAAATT
51258565 AAATTAAAATTA
1 -AATTAAAATTA
51258577 AAGAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 16 0.50
24 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTAAAATTATTAAATTAAAATT
Found at i:51260762 original size:19 final size:20
Alignment explanation
Indices: 51260711--51260773 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
51260701 ACAATTTTAA
* *
51260711 AATCAAGTGAAAATGATTTC
1 AATCAAGTCAAAATAATTTC
*
51260731 AATCAAGTCAAAATCATTTC
1 AATCAAGTCAAAATAATTTC
51260751 AA-CACA-TCAAAATAATTTTC
1 AATCA-AGTCAAAATAA-TTTC
51260771 AAT
1 AAT
51260774 AAAGACAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (20 bp):
AATCAAGTCAAAATAATTTC
Found at i:51262352 original size:29 final size:29
Alignment explanation
Indices: 51262303--51262360 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
51262293 TAACATTATT
* *
51262303 TTATATTTATATATTACATATATAAATAA
1 TTATATATATATATTACATATAAAAATAA
*
51262332 TTATATATATTTATCTA-ATATAAAAATAA
1 TTATATATATATAT-TACATATAAAAATAA
51262361 ATTAATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATATATATATATTACATATAAAAATAA
Found at i:51286599 original size:12 final size:12
Alignment explanation
Indices: 51286584--51286630 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
51286574 AAACAGCTAA
51286584 AACAACAAAAAT
1 AACAACAAAAAT
*
51286596 AACAGCAAAAAGT
1 AACAACAAAAA-T
*
51286609 -GCAACAAAAAT
1 AACAACAAAAAT
*
51286620 AACAGCAAAAA
1 AACAACAAAAA
51286631 CAACTCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.68, C:0.17, G:0.09, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:51286641 original size:24 final size:24
Alignment explanation
Indices: 51286584--51286634 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
51286574 AAACAGCTAA
*
51286584 AACAACAAAAATAACAGCAAAAAG
1 AACAACAAAAATAACAGCAAAAAC
**
51286608 TGCAACAAAAATAACAGCAAAAAC
1 AACAACAAAAATAACAGCAAAAAC
51286632 AAC
1 AAC
51286635 TCCAAAACAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.20, G:0.08, T:0.06
Consensus pattern (24 bp):
AACAACAAAAATAACAGCAAAAAC
Found at i:51291464 original size:9 final size:10
Alignment explanation
Indices: 51291445--51291475 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
51291435 TAAGAGTTTC
51291445 AAAAAGAAAA
1 AAAAAGAAAA
51291455 AAAAAGAAAA
1 AAAAAGAAAA
51291465 AACAAAGAAAA
1 AA-AAAGAAAA
51291476 CATGCCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.60
11 8 0.40
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:51296442 original size:4 final size:4
Alignment explanation
Indices: 51296433--51296514 Score: 164
Period size: 4 Copynumber: 20.5 Consensus size: 4
51296423 GTAATTAGGA
51296433 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
51296481 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
51296515 TTGAATTGTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 78 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:51298648 original size:54 final size:54
Alignment explanation
Indices: 51298587--51298695 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
51298577 GTGATTCTTG
*
51298587 TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
1 TCCAAAAAAATTAATTAGGAGTTATTTAAGTCAAATATATAAAGAGACTATAGA
51298641 TCCAAAAAAATTAATTAGGAGTTATTTAAGTCAAATATATAAAGAGACTATAGA
1 TCCAAAAAAATTAATTAGGAGTTATTTAAGTCAAATATATAAAGAGACTATAGA
51298695 T
1 T
51298696 TTTAATTATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (54 bp):
TCCAAAAAAATTAATTAGGAGTTATTTAAGTCAAATATATAAAGAGACTATAGA
Found at i:51299781 original size:12 final size:13
Alignment explanation
Indices: 51299762--51299794 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
51299752 CAATTCAAAC
51299762 TAAAAAAAACAAT
1 TAAAAAAAACAAT
*
51299775 TAAAAAAAACAGT
1 TAAAAAAAACAAT
51299788 TAAAAAA
1 TAAAAAA
51299795 TCATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (13 bp):
TAAAAAAAACAAT
Found at i:51299903 original size:20 final size:18
Alignment explanation
Indices: 51299878--51299919 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
51299868 ATAATTTCTC
*
51299878 ATAATTTCTTTATTTTTTAT
1 ATAATTT-TTAATTTTTT-T
51299898 ATAATTTTTAATTTTTTT
1 ATAATTTTTAATTTTTTT
51299916 ATAA
1 ATAA
51299920 AATTTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATAATTTTTAATTTTTTT
Found at i:51301851 original size:23 final size:23
Alignment explanation
Indices: 51301824--51301876 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
51301814 CTTCGATGGC
* * *
51301824 CTTCTTCGAGTGTTCTTTTCAAT
1 CTTCTTCGAGTGGTCTCTTAAAT
*
51301847 CTTCTTTGAGTGGTCTCTTAAAT
1 CTTCTTCGAGTGGTCTCTTAAAT
51301870 CTTCTTC
1 CTTCTTC
51301877 TAATTGATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (23 bp):
CTTCTTCGAGTGGTCTCTTAAAT
Found at i:51313195 original size:25 final size:27
Alignment explanation
Indices: 51313139--51313198 Score: 90
Period size: 25 Copynumber: 2.3 Consensus size: 27
51313129 ATTTTCTCAA
51313139 AATTTTA-CCAGGGTTAAAATCATCAT
1 AATTTTATCCAGGGTTAAAATCATCAT
*
51313165 AATTTTATCCAGGG-TAAAA-CGTCAT
1 AATTTTATCCAGGGTTAAAATCATCAT
51313190 AATTTTATC
1 AATTTTATC
51313199 GTTGGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 14 0.44
26 12 0.38
27 6 0.19
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (27 bp):
AATTTTATCCAGGGTTAAAATCATCAT
Found at i:51318973 original size:42 final size:43
Alignment explanation
Indices: 51318864--51318979 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
51318854 CTCGTACAAT
* * * *
51318864 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTAACGAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACGAC
* * *
51318907 GCCACTATCCCAGACAGGGTCTTACACGTAATC-A-TATACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTA-ACGAC
* *
51318949 GCCAATGTCCCAAACATGATCTTACACGTAA
1 GCCAATGTCCCAGACATGGTCTTACACGTAA
51318980 ATATCAAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.03
42 31 0.52
43 27 0.45
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACGAC
Found at i:51321248 original size:19 final size:19
Alignment explanation
Indices: 51321177--51321249 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
51321167 TAATTATTTA
*
51321177 TATTTAATCATATAATAAAT
1 TATTTAAT-ATTTAATAAAT
51321197 TA-TTAATATAATTAATATAAT
1 TATTTAATAT--TTAATA-AAT
*
51321218 T-TATT-ATTTTTAATAAAT
1 TAT-TTAATATTTAATAAAT
51321236 TATTTAATATTTAA
1 TATTTAATATTTAA
51321250 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
18 8 0.19
19 19 0.44
20 7 0.16
21 7 0.16
22 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTTAATATTTAATAAAT
Found at i:51321295 original size:16 final size:17
Alignment explanation
Indices: 51321259--51321295 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
51321249 AATTTTATTT
*
51321259 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
51321276 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
51321291 TAATA
1 TAATA
51321296 TTATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:51322485 original size:21 final size:21
Alignment explanation
Indices: 51322459--51322508 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
51322449 GCCTTTCAGC
* *
51322459 CACACGGTCGTGT-CTCTTAGT
1 CACACGGTCATGTACCCTT-GT
*
51322480 CACACGGCCATGTACCCTTGT
1 CACACGGTCATGTACCCTTGT
51322501 CACACGGT
1 CACACGGT
51322509 TTGAACTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.18, C:0.34, G:0.22, T:0.26
Consensus pattern (21 bp):
CACACGGTCATGTACCCTTGT
Found at i:51325442 original size:42 final size:42
Alignment explanation
Indices: 51325381--51325466 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
51325371 GTAGATTCTA
* * *
51325381 CACAGTTCATGTGAGCAGCATCATGTAGCTAACATCTCGACC
1 CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
*
51325423 CACAGCTCATGTTAACAGCATCATGTAGCTAACATCCCGACC
1 CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
51325465 CA
1 CA
51325467 TTTCACAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (42 bp):
CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
Found at i:51326631 original size:53 final size:53
Alignment explanation
Indices: 51326538--51326643 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
51326528 AAGTGAAAGA
* * *
51326538 TGAACCACACGGTCACAGAGAGTTACATGGCCTGGCGACACGGCCGTGTGACC
1 TGAACCACACGATCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
* * * *
51326591 TGAACCACACGATCACAGAGGGTTACACGACCTTGTGACACGGTCGTGTGACC
1 TGAACCACACGATCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
51326644 CTATATTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.25, C:0.29, G:0.28, T:0.17
Consensus pattern (53 bp):
TGAACCACACGATCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
Found at i:51327704 original size:17 final size:17
Alignment explanation
Indices: 51327682--51327715 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51327672 TAGAACTAAA
*
51327682 GTAGAGTTGTAGAACTG
1 GTAGAGTCGTAGAACTG
51327699 GTAGAGTCGTAGAACTG
1 GTAGAGTCGTAGAACTG
51327716 CAGTTGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (17 bp):
GTAGAGTCGTAGAACTG
Found at i:51332618 original size:27 final size:26
Alignment explanation
Indices: 51332550--51332618 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
51332540 GCGGACCACC
51332550 CCGTGTTTAATGTCCCAACAGACTAT
1 CCGTGTTTAATGTCCCAACAGACTAT
* * * *
51332576 CCTATGTTTAACGTCCCATCGGACTAT
1 CC-GTGTTTAATGTCCCAACAGACTAT
*
51332603 CTCGTGTTTATTGTCC
1 C-CGTGTTTAATGTCC
51332619 TGTCAGACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (26 bp):
CCGTGTTTAATGTCCCAACAGACTAT
Found at i:51332888 original size:45 final size:44
Alignment explanation
Indices: 51332830--51332956 Score: 155
Period size: 45 Copynumber: 2.8 Consensus size: 44
51332820 ATCACCAAAT
* * * *
51332830 GTCATAGCGTCTTTCATCTATGGTCTTACTCATTTCTATCATGAT
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTT-TATCATGAC
* * * *
51332875 GTCATAATATCTTTTAGCTATGGTCTTACTCATCTTTGTCATGAC
1 GTCATAACATCTTTCAACTATGGTCTTACTCAT-TTTATCATGAC
*
51332920 GTCATAGCATCTTTCAACTATGGTCTTACTCATTTTA
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTTTA
51332957 GGCATATAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 3 0.04
45 64 0.93
46 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (44 bp):
GTCATAACATCTTTCAACTATGGTCTTACTCATTTTATCATGAC
Found at i:51335581 original size:19 final size:19
Alignment explanation
Indices: 51335559--51335630 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
51335549 GGGGCATTGG
*
51335559 TTTTGGTTTTAGTTTAGGA
1 TTTTGATTTTAGTTTAGGA
* *
51335578 TTTTGATTTGAGGTTTTGGA
1 TTTTGATTTTA-GTTTAGGA
* *
51335598 -TTTGATTTTAGTTTGGGG
1 TTTTGATTTTAGTTTAGGA
51335616 TCTTT-ATTTTAGTTT
1 T-TTTGATTTTAGTTT
51335631 CGGTTTGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.14
19 28 0.64
20 10 0.23
ACGTcount: A:0.14, C:0.01, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTTGATTTTAGTTTAGGA
Found at i:51336367 original size:24 final size:24
Alignment explanation
Indices: 51336312--51336369 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
51336302 GGGTTTCAAT
* *
51336312 TTTGGGTTTTAGATTCAATTTTGG
1 TTTGGGATTTAGATTCAATTTTGA
*
51336336 TTTGGGGATTT-GATTTCAGTTTTGA
1 TTT-GGGATTTAGA-TTCAATTTTGA
51336361 TTTGGGATT
1 TTTGGGATT
51336370 GCGATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.16, C:0.03, G:0.28, T:0.53
Consensus pattern (24 bp):
TTTGGGATTTAGATTCAATTTTGA
Found at i:51336375 original size:25 final size:25
Alignment explanation
Indices: 51336325--51336376 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
51336315 GGGTTTTAGA
* *
51336325 TTCAATTTTGGTTTGGGGATTTGAT
1 TTCAATTTTGATTTGGGGATTCGAT
*
51336350 TTCAGTTTTGATTT-GGGATTGCGAT
1 TTCAATTTTGATTTGGGGATT-CGAT
51336375 TT
1 TT
51336377 TGGTTTGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (25 bp):
TTCAATTTTGATTTGGGGATTCGAT
Found at i:51338715 original size:25 final size:26
Alignment explanation
Indices: 51338674--51338723 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
51338664 ATTTGTTGAA
*
51338674 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTTAAGTTTAGGGTTTCAATTTT
*
51338700 AGTTTT-AGTTTAGGGTTTTAATTT
1 AGTTTTAAGTTTAGGGTTTCAATTT
51338724 GGGGTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (26 bp):
AGTTTTAAGTTTAGGGTTTCAATTTT
Found at i:51338730 original size:26 final size:25
Alignment explanation
Indices: 51338674--51338733 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
51338664 ATTTGTTGAA
* *
51338674 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTT-AGTTTAGGGTTTCAATTTG
*
51338700 AGTTTTAGTTTAGGGTTTTAATTTGG
1 AGTTTTAGTTTAGGGTTTCAATTT-G
*
51338726 GGTTTTAG
1 AGTTTTAG
51338734 AGTTTGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (25 bp):
AGTTTTAGTTTAGGGTTTCAATTTG
Found at i:51338733 original size:21 final size:20
Alignment explanation
Indices: 51338716--51338762 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51338706 AGTTTAGGGT
51338716 TTTAATTTGGGGTTTTAGAG
1 TTTAATTTGGGGTTTTAGAG
** *
51338736 TTTGGTTTGGGGTTTT-GAT
1 TTTAATTTGGGGTTTTAGAG
51338755 TTTAATTT
1 TTTAATTT
51338763 CAATTTAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (20 bp):
TTTAATTTGGGGTTTTAGAG
Found at i:51339499 original size:12 final size:13
Alignment explanation
Indices: 51339472--51339505 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
51339462 TCAATTTCAG
51339472 TTTGGGGTTACAA
1 TTTGGGGTTACAA
*
51339485 TTTTGGGTT-CAA
1 TTTGGGGTTACAA
51339497 TTTGGGGTT
1 TTTGGGGTT
51339506 TTGATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.06, G:0.32, T:0.47
Consensus pattern (13 bp):
TTTGGGGTTACAA
Found at i:51348824 original size:16 final size:16
Alignment explanation
Indices: 51348803--51348835 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51348793 TTATGCTGCC
51348803 TTAGTTGGCACATCAT
1 TTAGTTGGCACATCAT
51348819 TTAGTTGGCACATCAT
1 TTAGTTGGCACATCAT
51348835 T
1 T
51348836 CAAAATATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (16 bp):
TTAGTTGGCACATCAT
Found at i:51355512 original size:25 final size:25
Alignment explanation
Indices: 51355476--51355528 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
51355466 AAAAGATTTA
*
51355476 GAATGTATGAGCTATGCAGAGGTGC
1 GAATGTACGAGCTATGCAGAGGTGC
*
51355501 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGAGGTGC
51355526 GAA
1 GAA
51355529 CCCTAATGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.13, G:0.38, T:0.21
Consensus pattern (25 bp):
GAATGTACGAGCTATGCAGAGGTGC
Found at i:51357960 original size:16 final size:15
Alignment explanation
Indices: 51357916--51357963 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
51357906 TTAGTCCTGC
51357916 AATACTCAATTCATG
1 AATACTCAATTCATG
*
51357931 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
51357946 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
51357963 A
1 A
51357964 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:51358757 original size:12 final size:13
Alignment explanation
Indices: 51358734--51358766 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
51358724 CGCGTCTGTT
51358734 TCTTTCTTCTTTC
1 TCTTTCTTCTTTC
*
51358747 TCTTT-TTCTTTT
1 TCTTTCTTCTTTC
51358759 TCTTTCTT
1 TCTTTCTT
51358767 TCCTTTCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTCTTCTTTC
Found at i:51358761 original size:25 final size:26
Alignment explanation
Indices: 51358732--51358798 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
51358722 TTCGCGTCTG
*
51358732 TTTCTTTC-TTCTTTCTCTTTTTC-TT
1 TTTCTTTCTTTCTTT-TCTGTTTCGTT
*
51358757 TTTCTTTCTTTCCTTTCTGTTTCGTT
1 TTTCTTTCTTTCTTTTCTGTTTCGTT
*
51358783 TTACTTTCTTTCTTTT
1 TTTCTTTCTTTCTTTT
51358799 TATTTATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.73
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTTCTGTTTCGTT
Found at i:51361583 original size:3 final size:3
Alignment explanation
Indices: 51361575--51361606 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51361565 GCTTTGCTAT
51361575 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
51361607 ATGCTCTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:51364933 original size:25 final size:25
Alignment explanation
Indices: 51364905--51364958 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
51364895 ATATACTTAA
51364905 ATATTAA-GTAAACATATTATAATAT
1 ATATTAACGTAAA-ATATTATAATAT
* * *
51364930 ATATTAACTTTAATTATTATAATAT
1 ATATTAACGTAAAATATTATAATAT
51364955 ATAT
1 ATAT
51364959 AATAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATTAACGTAAAATATTATAATAT
Found at i:51369336 original size:60 final size:62
Alignment explanation
Indices: 51369262--51369421 Score: 166
Period size: 61 Copynumber: 2.6 Consensus size: 62
51369252 GAAAAAAAAT
* *
51369262 ATTTATT-AATTTTTTAGAGTTAGGACTAAATTGATAGA-TTTTGTAAATATTGAGGGCCAA
1 ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
** * * * * **
51369322 ATTTATTGAA-TTTTTAGAATTACAACTAAAATGACAAATTTTTGTCAACATTGAGGGTTAA
1 ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
* * *
51369383 ATTTGTTGAATTTTTTATATTTAGGA-TCAAATTGATAGA
1 ATTTATTGAATTTTTTAGAATTAGGACT-AAATTGATAGA
51369422 ACGTGTAAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
60 29 0.37
61 30 0.38
62 19 0.24
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (62 bp):
ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
Found at i:51380471 original size:6 final size:6
Alignment explanation
Indices: 51380460--51380501 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
51380450 AATCGACATA
*
51380460 TATATT TATATT TATATT TATATT TATATT TATATT TGTATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT
51380502 AAATCACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:51382776 original size:16 final size:16
Alignment explanation
Indices: 51382755--51382787 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51382745 TATAATCATT
51382755 TTAAATTACTAG-TATA
1 TTAAATTA-TAGATATA
51382771 TTAAATTATAGATATA
1 TTAAATTATAGATATA
51382787 T
1 T
51382788 ATTAGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATTATAGATATA
Found at i:51383145 original size:11 final size:11
Alignment explanation
Indices: 51383123--51383181 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
51383113 TTCTACTTTT
*
51383123 TCAATTCACTC
1 TCAATTCTCTC
51383134 TCAACTT-TCTC
1 TCAA-TTCTCTC
*
51383145 TCAATT-TATTC
1 TCAATTCT-CTC
51383156 TCAATTCTCTC
1 TCAATTCTCTC
*
51383167 TCAATTCTCAC
1 TCAATTCTCTC
51383178 TCAA
1 TCAA
51383182 CTCAATTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 3 0.07
11 35 0.85
12 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:51383149 original size:22 final size:22
Alignment explanation
Indices: 51383123--51383205 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
51383113 TTCTACTTTT
51383123 TCAATTCACTCTCAACTTTCTC
1 TCAATTCACTCTCAACTTTCTC
* *
51383145 TCAATTTATTCTCAA-TTCTCTC
1 TCAATTCACTCTCAACTT-TCTC
* *
51383167 TCAATTCTCACTCAACTCAATTCTC
1 TCAATTCACTCTCAACT---TTCTC
*
51383192 TCAGTTCACTCTCA
1 TCAATTCACTCTCA
51383206 TTTTTTTATT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.04
22 28 0.60
23 1 0.02
25 15 0.32
26 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.01, T:0.41
Consensus pattern (22 bp):
TCAATTCACTCTCAACTTTCTC
Found at i:51397101 original size:28 final size:28
Alignment explanation
Indices: 51397041--51397139 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
51397031 TTTAATAAGT
* *
51397041 TCGCACACTTAGTGC-TTAAAAATAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
51397068 TTGCACAGTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
**
51397096 TCGCACACTTAGTGCTTTACAATCGAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
51397124 TTGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
51397140 AATCTCATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
27 13 0.21
28 49 0.79
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:51399425 original size:16 final size:16
Alignment explanation
Indices: 51399404--51399437 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51399394 CCAATATCCA
* *
51399404 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
51399420 ATTATCACATTTACAC
1 ATTATCACATTTACAC
51399436 AT
1 AT
51399438 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:51400806 original size:4 final size:4
Alignment explanation
Indices: 51400797--51400824 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
51400787 TGCCATTGGT
51400797 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
51400825 CCACCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:51408996 original size:96 final size:96
Alignment explanation
Indices: 51408815--51409073 Score: 385
Period size: 96 Copynumber: 2.7 Consensus size: 96
51408805 GGATTAAGGT
* * * * *
51408815 TTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTCGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
* * * *
51408879 GTTTATGGTTTTTAAGAAAAAATTAATTAAA
66 GTTAAGGGTTTTTAAGAAAAAATCAAATAAA
51408910 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
*
51408975 GTTAAGGGTTTTTAAGGAAAAATCAAATAAA
66 GTTAAGGGTTTTTAAGAAAAAATCAAATAAA
* * * *
51409006 TTAGGGTTTAAGGCTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGGTTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
51409071 GTT
66 GTT
51409074 TGTTAATTTA
Statistics
Matches: 149, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
95 39 0.26
96 110 0.74
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (96 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGT
GTTAAGGGTTTTTAAGAAAAAATCAAATAAA
Done.