Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 289 of 378
Found at i:87231108 original size:16 final size:16
Alignment explanation
Indices: 87231087--87231129 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
87231077 GGAGTTTTGG
87231087 GTTTTCTTTATATTTT
1 GTTTTCTTTATATTTT
*
87231103 GTTTTCTTTATGTTTT
1 GTTTTCTTTATATTTT
*
87231119 GTATTCTTTAT
1 GTTTTCTTTAT
87231130 TCTTCTGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.07, G:0.09, T:0.72
Consensus pattern (16 bp):
GTTTTCTTTATATTTT
Found at i:87233025 original size:29 final size:28
Alignment explanation
Indices: 87232993--87233095 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
87232983 GTGACGAGAT
* *
87232993 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
87233022 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
87233051 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
87233080 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87233096 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:87241800 original size:30 final size:31
Alignment explanation
Indices: 87241766--87241828 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
87241756 TTTCATATCA
87241766 TTTCATA-TTCCATAACACTGGG-CGAAGCCT
1 TTTCATACTT-CATAACACTGGGCCGAAGCCT
**
87241796 TTTCATACTTCATATTACTGGGCCGAAGCCT
1 TTTCATACTTCATAACACTGGGCCGAAGCCT
87241827 TT
1 TT
87241829 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTCATACTTCATAACACTGGGCCGAAGCCT
Found at i:87242071 original size:24 final size:24
Alignment explanation
Indices: 87242020--87242163 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
87242010 GCTTTATCAT
* *
87242020 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
87242045 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
87242069 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
87242093 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
87242117 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
87242141 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87242164 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
24 98 0.89
25 12 0.11
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:87242247 original size:19 final size:20
Alignment explanation
Indices: 87242213--87242272 Score: 95
Period size: 19 Copynumber: 3.0 Consensus size: 20
87242203 TTATGATTAC
87242213 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87242233 ATCATGTGC-TATCATACAT
1 ATCATGTGCATATCATACAT
* *
87242252 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
87242272 A
1 A
87242273 CCATATTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87242347 original size:25 final size:25
Alignment explanation
Indices: 87242315--87242362 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87242305 ATACATAAAC
* * *
87242315 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
87242340 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87242363 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:87244009 original size:27 final size:27
Alignment explanation
Indices: 87243600--87243998 Score: 489
Period size: 27 Copynumber: 14.8 Consensus size: 27
87243590 GGGTATTTTA
* *
87243600 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
87243627 GTAATTTTGCAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
87243654 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87243681 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87243708 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * **
87243735 ATAATTATGTAAATCGGGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87243762 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
87243789 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87243816 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
87243843 GTAATTATATAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
87243870 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87243897 GTAATTCTGTAAA-CTAAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
87243924 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
87243951 GTAATTTTACAAATCGA-GGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
87243977 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
87243999 CTTTGGTAAT
Statistics
Matches: 322, Mismatches: 45, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
26 25 0.08
27 295 0.92
28 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:87244020 original size:27 final size:27
Alignment explanation
Indices: 87243950--87244199 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
87243940 AGGGTAAAAC
****
87243950 GGTAATTTTACAAATCGA-GGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
87243976 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
87244003 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
87244030 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
87244057 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
87244084 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
87244111 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
87244138 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
87244165 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
87244191 GGTAATTTT
1 GGTAATTTT
87244200 GTAAACCAAA
Statistics
Matches: 190, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.18
27 153 0.81
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:87244213 original size:26 final size:26
Alignment explanation
Indices: 87244076--87244216 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
87244066 ACAAATTAGG
* * *
87244076 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
87244103 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
87244130 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
87244156 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
87244183 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
87244209 AGTATTTT
1 GGTATTTT
87244217 AAATAGGGAT
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.29
27 70 0.71
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:87248985 original size:24 final size:25
Alignment explanation
Indices: 87248958--87249024 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
87248948 GTACATGTAT
**
87248958 GCTCATACAAGCTGTA-AACAGTAA
1 GCTCATACAAGCTAAATAACAGTAA
* *
87248982 GCTCCTCCAAGCTAAATAACAGTAA
1 GCTCATACAAGCTAAATAACAGTAA
* **
87249007 GCTCCTATGAGCTAAATA
1 GCTCATACAAGCTAAATA
87249025 TTGGTAAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (25 bp):
GCTCATACAAGCTAAATAACAGTAA
Found at i:87249019 original size:25 final size:25
Alignment explanation
Indices: 87248974--87249050 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
87248964 ACAAGCTGTA
***
87248974 AACAGTAAGCTCCTCCAAGCTAAAT
1 AACAGTAAGCTCCTATGAGCTAAAT
87248999 AACAGTAAGCTCCTATGAGCTAAAT
1 AACAGTAAGCTCCTATGAGCTAAAT
*** *
87249024 ATTGGTAAGCTCCTTTGAGCTAAAT
1 AACAGTAAGCTCCTATGAGCTAAAT
87249049 AA
1 AA
87249051 TGATAAGCTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (25 bp):
AACAGTAAGCTCCTATGAGCTAAAT
Found at i:87249057 original size:25 final size:25
Alignment explanation
Indices: 87248991--87249069 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
87248981 AGCTCCTCCA
*
87248991 AGCTAAATAA-CAGTAAGCTCCTATG
1 AGCTAAATAATGA-TAAGCTCCTATG
* * *
87249016 AGCTAAATATTGGTAAGCTCCTTTG
1 AGCTAAATAATGATAAGCTCCTATG
* *
87249041 AGCTAAATAATGATAAGCTCATACG
1 AGCTAAATAATGATAAGCTCCTATG
87249066 AGCT
1 AGCT
87249070 GGTCATTGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCTAAATAATGATAAGCTCCTATG
Found at i:87252453 original size:29 final size:29
Alignment explanation
Indices: 87252392--87252523 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
87252382 AATTTAAGCC
* *** * *
87252392 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
87252421 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
87252450 CGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
87252479 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
87252508 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
87252524 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:87256594 original size:24 final size:22
Alignment explanation
Indices: 87256567--87256613 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
87256557 GAACTTTAAT
87256567 ATCTCTTAGTATACTATTCATATG
1 ATCTCTTAGT-TACT-TTCATATG
* *
87256591 ATCTTTTCGTTACTTTCATATG
1 ATCTCTTAGTTACTTTCATATG
87256613 A
1 A
87256614 AAGTAGATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (22 bp):
ATCTCTTAGTTACTTTCATATG
Found at i:87257579 original size:78 final size:77
Alignment explanation
Indices: 87257485--87257666 Score: 229
Period size: 78 Copynumber: 2.3 Consensus size: 77
87257475 TCGTTCAAAC
* * ** * *
87257485 GCCTTCGGGACATAGCCCGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGGTATCA
1 GCCTTCGGG-CTTAGCCCGATATCATAACCAGCACAAAGGCCTTCGGG-CTTAACCCGGATATCA
87257550 CAACTCGCACAATT
64 CAACTCGCACAATT
* ** *
87257564 GCCTTCGGGCTTAGCCCGGATATCATAACTAGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCC-GATATCATAACCAGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
*
87257629 AATTCGCACAATT
65 AACTCGCACAATT
87257642 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCC-GATATCA
87257667 CTTGAACATT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 59 0.65
79 32 0.35
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (77 bp):
GCCTTCGGGCTTAGCCCGATATCATAACCAGCACAAAGGCCTTCGGGCTTAACCCGGATATCACA
ACTCGCACAATT
Found at i:87257599 original size:39 final size:39
Alignment explanation
Indices: 87257515--87257667 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
87257505 TATGGTAACC
** * *
87257515 CGCACAAAGGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
87257555 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
87257594 AGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
87257633 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
87257668 TTGAACATTC
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 88 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:87269513 original size:14 final size:15
Alignment explanation
Indices: 87269496--87269524 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
87269486 TCACGAAAAT
87269496 TTCACACAT-ATAAA
1 TTCACACATAATAAA
87269510 TTCACACATAATAAA
1 TTCACACATAATAAA
87269525 CACTGAAAAT
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:87274668 original size:44 final size:43
Alignment explanation
Indices: 87274584--87274752 Score: 141
Period size: 42 Copynumber: 4.0 Consensus size: 43
87274574 CTATTCTACA
** * * *
87274584 TGTAAGACCACATCTGAGACATTGACATCG-ATTTCTATTTTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTT-GATTTT-CG
87274628 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTCG
* * ** * *
87274670 TGTAAGAACC-TGTCTAGGACAGTGGCATCAAATTTGA-TTACA
1 TGTAAG-ACCATGTCTGGGACATTGGCATCGTATTTGATTTTCG
* * * *
87274712 TGTAAGACCGTGTCTGGGACGTTGGCATTGTATATG-TTTTC
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTC
87274753 TGATATATCC
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.05
42 58 0.57
43 3 0.03
44 31 0.31
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTTCG
Found at i:87294531 original size:25 final size:25
Alignment explanation
Indices: 87294493--87294540 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
87294483 AGATGTAGCC
*
87294493 TAAGGTTTAGGACTGAAGCATCTAG
1 TAAGGTTTAAGACTGAAGCATCTAG
87294518 TAAGGTTTAAGACTGAAGCATCT
1 TAAGGTTTAAGACTGAAGCATCT
87294541 GGTATCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (25 bp):
TAAGGTTTAAGACTGAAGCATCTAG
Found at i:87296089 original size:58 final size:58
Alignment explanation
Indices: 87296020--87296132 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
87296010 AGTGAGGGGC
** *
87296020 CTTAGCCCCTTTTTCGGTAACAGTAGTAATTTGGGCCTGAGCCCATTTCAGTAACTGT
1 CTTAGCCCCTTTTTAAGTAACAGTAGCAATTTGGGCCTGAGCCCATTTCAGTAACTGT
* *
87296078 CTTAGCCCCTTTTTAAGTAACAGTAGCAGTTTGGGCTTGAGCCCATTTCAGTAAC
1 CTTAGCCCCTTTTTAAGTAACAGTAGCAATTTGGGCCTGAGCCCATTTCAGTAAC
87296133 AGTGGCAGTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (58 bp):
CTTAGCCCCTTTTTAAGTAACAGTAGCAATTTGGGCCTGAGCCCATTTCAGTAACTGT
Found at i:87296131 original size:34 final size:34
Alignment explanation
Indices: 87296093--87296164 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
87296083 CCCCTTTTTA
* *
87296093 AGTAACAGTAGCAGTTTGGG-CTTGAGCCCATTTC
1 AGTAACAGTAGCAGTCTGGGACTT-AGCCCATATC
*
87296127 AGTAACAGTGGCAGTCTGGGACTTAGCCCATATC
1 AGTAACAGTAGCAGTCTGGGACTTAGCCCATATC
87296161 AGTA
1 AGTA
87296165 CAATATGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
AGTAACAGTAGCAGTCTGGGACTTAGCCCATATC
Found at i:87296934 original size:16 final size:18
Alignment explanation
Indices: 87296897--87296934 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
87296887 CACTCTTCGA
87296897 TTTTCTGGCTTTTCAAGC
1 TTTTCTGGCTTTTCAAGC
87296915 -TTTC-GGCTTTTCAA-C
1 TTTTCTGGCTTTTCAAGC
87296930 TTTTC
1 TTTTC
87296935 AGCCCTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 14 0.74
17 4 0.21
ACGTcount: A:0.11, C:0.24, G:0.13, T:0.53
Consensus pattern (18 bp):
TTTTCTGGCTTTTCAAGC
Found at i:87301187 original size:34 final size:34
Alignment explanation
Indices: 87301149--87301224 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 34
87301139 AGCTAGATGG
87301149 TTTCAATACTACCTAAGTAGTATCA-ATAAGAACA
1 TTTCAATACTACCTAAGTAGTATCAGA-AAGAACA
*
87301183 TTTC-A-A-TACCTAAGTAGTATCAGAAATAACA
1 TTTCAATACTACCTAAGTAGTATCAGAAAGAACA
*
87301214 TATCAATACTA
1 TTTCAATACTA
87301225 TTATTTCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
31 25 0.69
32 3 0.08
33 2 0.06
34 6 0.17
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (34 bp):
TTTCAATACTACCTAAGTAGTATCAGAAAGAACA
Found at i:87302033 original size:36 final size:34
Alignment explanation
Indices: 87301986--87302081 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
87301976 TTCTAGTGAA
*
87301986 GGGCCTAAGCCCTTTTTTCAGTAACAGTAATAGTCT
1 GGGCCTAAGCCC--ATTTCAGTAACAGTAATAGTCT
* ** *
87302022 GGGCCTGAGCCCATTTCAGTAACAGTGGTAGTTT
1 GGGCCTAAGCCCATTTCAGTAACAGTAATAGTCT
* *
87302056 GGGCCTTAGCCCATATCAGT-ACAGTA
1 GGGCCTAAGCCCATTTCAGTAACAGTA
87302082 TGCAAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
33 5 0.10
34 36 0.69
36 11 0.21
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAATAGTCT
Found at i:87302044 original size:34 final size:34
Alignment explanation
Indices: 87302001--87302081 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
87301991 TAAGCCCTTT
87302001 TTTCAGTAACAGTAATAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAATAGTCTGGGCCTGAGCCCA
** * *
87302035 TTTCAGTAACAGTGGTAGTTTGGGCCTTAGCCCA
1 TTTCAGTAACAGTAATAGTCTGGGCCTGAGCCCA
*
87302069 TATCAGT-ACAGTA
1 TTTCAGTAACAGTA
87302082 TGCAAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 5 0.12
34 36 0.88
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (34 bp):
TTTCAGTAACAGTAATAGTCTGGGCCTGAGCCCA
Found at i:87318510 original size:46 final size:46
Alignment explanation
Indices: 87318460--87318629 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
87318450 TGGTTGAGCA
*
87318460 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
87318506 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
87318553 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
87318599 -CCGAGCT--TTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87318630 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
43 29 0.28
45 9 0.09
46 30 0.29
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87318890 original size:18 final size:19
Alignment explanation
Indices: 87318853--87318890 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
87318843 GATAAGGTGG
87318853 TAAGATGATGAATGATGTT
1 TAAGATGATGAATGATGTT
87318872 TAAGATG-TGATAT-ATGTT
1 TAAGATGATGA-ATGATGTT
87318890 T
1 T
87318891 TGGTGGTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (19 bp):
TAAGATGATGAATGATGTT
Found at i:87326036 original size:46 final size:46
Alignment explanation
Indices: 87325986--87326158 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
87325976 TGGTTGAGCA
*
87325986 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
87326032 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
87326079 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
87326125 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
87326159 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87326142 original size:93 final size:93
Alignment explanation
Indices: 87325983--87326153 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87325973 GGATGGTTGA
* *
87325983 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
87326048 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
87326076 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
87326141 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
87326154 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87326419 original size:19 final size:20
Alignment explanation
Indices: 87326382--87326419 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87326372 ATAAGGTGGT
87326382 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
87326402 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
87326420 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:87330402 original size:5 final size:5
Alignment explanation
Indices: 87330392--87330463 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
87330382 TATGTCTTTC
** *
87330392 AAAAT AAAAT --AAT AAAAT TGAAT GAAAAT AAAAAT CAAAAG AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT -AAAAT AAAAT
87330438 AAAAAT AAAAAT AAAAT AAAAT AAAA
1 -AAAAT -AAAAT AAAAT AAAAT AAAA
87330464 ATAAGAGTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
3 3 0.05
5 29 0.53
6 23 0.42
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:87330431 original size:6 final size:6
Alignment explanation
Indices: 87330416--87330483 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
87330406 AAATTGAATG
* *
87330416 AAAATA AAAATC AAAA-G AAAATA AAAATA AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
87330461 AAAATA AGAGTA AATAATA AAAA
1 AAAATA AAAATA AA-AATA AAAA
87330484 AATAGGAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 14 0.27
6 33 0.63
7 5 0.10
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:87330435 original size:17 final size:17
Alignment explanation
Indices: 87330415--87330483 Score: 77
Period size: 17 Copynumber: 4.0 Consensus size: 17
87330405 AAAATTGAAT
*
87330415 GAAAATAAAAATCAAAA
1 GAAAATAAAAATAAAAA
87330432 GAAAATAAAAATAAAAA
1 GAAAATAAAAATAAAAA
*
87330449 TAAAAT-AAAATAAAAA
1 GAAAATAAAAATAAAAA
* *
87330465 TAAGAGTAAATAATAAAAA
1 GAA-AATAAA-AATAAAAA
87330484 AATAGGAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
16 13 0.28
17 23 0.50
18 2 0.04
19 8 0.17
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (17 bp):
GAAAATAAAAATAAAAA
Found at i:87330474 original size:22 final size:22
Alignment explanation
Indices: 87330392--87330467 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 22
87330382 TATGTCTTTC
** *
87330392 AAAATAAAATAATAAAATTGAATG
1 AAAAT-AAA-AATAAAATAAAATA
*
87330416 AAAATAAAAATCAAAAGAAAATA
1 AAAATAAAAAT-AAAATAAAATA
87330439 AAAATAAAAATAAAATAAAATA
1 AAAATAAAAATAAAATAAAATA
87330461 AAAATAA
1 AAAATAA
87330468 GAGTAAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 20 0.43
23 21 0.46
24 5 0.11
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAAATA
Found at i:87330486 original size:11 final size:10
Alignment explanation
Indices: 87330416--87330487 Score: 54
Period size: 11 Copynumber: 6.6 Consensus size: 10
87330406 AAATTGAATG
87330416 AAAATAAAAA
1 AAAATAAAAA
*
87330426 TCAAAAGAAAATA
1 --AAAATAAAA-A
87330439 AAAATAAAAA
1 AAAATAAAAA
87330449 TAAAATAAAATA
1 -AAAATAAAA-A
* *
87330461 AAAATAAGAG
1 AAAATAAAAA
*
87330471 TAAATAATAAA
1 AAAATAA-AAA
87330482 AAAATA
1 AAAATA
87330488 GGAGGATTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 7 0.15
11 31 0.65
12 9 0.19
13 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:87348089 original size:29 final size:29
Alignment explanation
Indices: 87348054--87348127 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87348044 GTTGTGAGAT
* *
87348054 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
87348083 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
87348112 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87348128 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:87355844 original size:29 final size:29
Alignment explanation
Indices: 87355809--87355882 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87355799 GTTGTGAGAT
* *
87355809 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
87355838 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
87355867 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87355883 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:87373781 original size:41 final size:41
Alignment explanation
Indices: 87373723--87373870 Score: 176
Period size: 41 Copynumber: 3.6 Consensus size: 41
87373713 GAGCTTGGTC
87373723 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * *
87373764 TCGAAGGGCTTTAGAGCCAGTG-TCATAACTGGACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * *
87373804 CCGAAGGGCCTTTGAGCCAGTGGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
87373845 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
87373871 GAATCGGGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
39 4 0.04
40 34 0.38
41 48 0.54
43 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:87373882 original size:41 final size:41
Alignment explanation
Indices: 87373712--87373882 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
87373702 GGTCTAAATC
*
87373712 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAAC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAAT
* * * * *
87373753 CGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAACT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA-T
* * * * *
87373794 GGA-CTTAGT-TCCGAAGGGCCTTTGAGCCAGTGGT-CTAAT
1 CGAGCTTGGTCT-CGAAGGGCTTTTGAGCCAGTGCTAATAAT
*
87373833 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAAGAAT
1 -CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAAT
*
87373875 CGGGCTTG
1 CGAGCTTG
87373883 ATTCCGAAGG
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 35 0.33
41 65 0.61
42 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAAT
Found at i:87374415 original size:13 final size:13
Alignment explanation
Indices: 87374397--87374422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87374387 CGAAATGCTT
87374397 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
87374410 ATTCTCTGTTTTA
1 ATTCTCTGTTTTA
87374423 TAGATTTTGT
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:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTCTCTGTTTTA
Found at i:87376253 original size:47 final size:47
Alignment explanation
Indices: 87376181--87376407 Score: 303
Period size: 47 Copynumber: 4.7 Consensus size: 47
87376171 CCCTTCGGGA
* * * * * * *
87376181 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGTC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
* *
87376229 C-TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87376275 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87376324 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87376371 CTTATCACATATATACACACCTTCACATTCATCACAT
1 CTTATCACATATAT--ACACTTTCACATTCATCACAT
87376408 AAAATCCTAA
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
46 2 0.01
47 97 0.59
48 1 0.01
49 64 0.39
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87376343 original size:96 final size:96
Alignment explanation
Indices: 87376181--87376407 Score: 336
Period size: 96 Copynumber: 2.4 Consensus size: 96
87376171 CCCTTCGGGA
* * * *
87376181 CTTATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGTCCTATCACATATATA
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCACTAGGTCCTATCACATATATA
* *
87376243 CACTTTCACATTCATCACATTGGCCATTCGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
87376275 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGG-CCTTATCACATATATA
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCACTAGGTCC-TATCACATATATA
87376339 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
87376371 CTTATCACATATATACACACCTTCACATTCATCACAT
1 CTTATCACATATATATACACCTTCACATTCATCACAT
87376408 AAAATCCTAA
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
94 10 0.08
95 3 0.02
96 105 0.87
97 3 0.02
ACGTcount: A:0.29, C:0.32, G:0.07, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCACTAGGTCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87382735 original size:40 final size:40
Alignment explanation
Indices: 87382664--87382801 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
87382654 CAACCAAGTA
** *
87382664 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
87382703 CCTTCAGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
87382743 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
87382783 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
87382802 TTATCATCCG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 12 0.13
40 77 0.87
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:87390953 original size:40 final size:40
Alignment explanation
Indices: 87390908--87391074 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
87390898 CGGAATATAA
87390908 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
87390948 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87390988 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87391028 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87391067 CCGGATAT
1 CCGGATAT
87391075 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87391058 original size:80 final size:79
Alignment explanation
Indices: 87390924--87391074 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
87390914 ATAATCACGT
*
87390924 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
87390989 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
87391004 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
87391067 CCGGATAT
64 CCGGATAT
87391075 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:87398933 original size:40 final size:40
Alignment explanation
Indices: 87398888--87399054 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
87398878 CGGAATATAA
87398888 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
87398928 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87398968 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87399008 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
87399047 CCGGATAT
1 CCGGATAT
87399055 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87399038 original size:80 final size:79
Alignment explanation
Indices: 87398904--87399054 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
87398894 ATAATCACGT
*
87398904 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
87398969 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
87398984 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
87399047 CCGGATAT
64 CCGGATAT
87399055 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:87400312 original size:56 final size:54
Alignment explanation
Indices: 87400249--87400358 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 54
87400239 CCCCCTTTTC
87400249 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTCTTTTCTTT
*** *
87400305 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
87400359 TTTTTTTTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
54 14 0.29
56 30 0.62
57 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (54 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTCTTTTCTTT
Found at i:87404530 original size:39 final size:40
Alignment explanation
Indices: 87404475--87404645 Score: 233
Period size: 39 Copynumber: 4.3 Consensus size: 40
87404465 GGACTAAGAT
* *
87404475 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
87404514 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
87404553 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * *
87404593 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
87404633 CCGAAGGCATTTG
1 CCGAAGGCATTTG
87404646 AGCTAGTCGT
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 42 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:87407840 original size:43 final size:43
Alignment explanation
Indices: 87407792--87407877 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
87407782 GTTACATGTA
* * * *
87407792 TCGCATCCATTATGAACTCTGACCACTCAATGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
*
87407835 TCGCATCCATAATGAACTCAGACCACTTAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
87407878 CTCATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
Found at i:87409450 original size:27 final size:27
Alignment explanation
Indices: 87409409--87409462 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87409399 TGTCATGTGA
* *
87409409 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
87409436 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
87409463 GGTTATATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:87409838 original size:50 final size:50
Alignment explanation
Indices: 87409707--87409890 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 50
87409697 ATCTATTGTG
* * * * *
87409707 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GATT
* * * * *
87409758 CGATGACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATT
* * * *
87409808 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATT
* *
87409858 -GGTCGCATGTGTAGTACTAAGTGCAGACTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
87409891 TGCGTACCAG
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 30 0.26
50 46 0.40
51 38 0.33
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATT
Found at i:87418000 original size:51 final size:52
Alignment explanation
Indices: 87417945--87418051 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 52
87417935 CTACCTTATA
* *
87417945 ACATGTATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-TT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGCTT
* * *
87417996 ACATGTATCGCATCCATTATGAACTCGGACCACTCAACGAGTTCGAATGCTT
1 ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGCTT
87418048 ACAT
1 ACAT
87418052 CTATAATGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 44 0.88
52 6 0.12
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (52 bp):
ACATGTATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGAATGCTT
Found at i:87421370 original size:40 final size:40
Alignment explanation
Indices: 87421289--87421467 Score: 166
Period size: 40 Copynumber: 4.5 Consensus size: 40
87421279 GCTCGATTGT
* * * * *
87421289 CTTCGGGACATAGCCCGG-TTATAGTGATTCGTACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* * *
87421329 CTTCGGGAATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
87421369 CTTCGGGACTTAACTCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
87421409 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
87421450 CTTC-GGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
87421468 CACCATTCGA
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
40 94 0.85
41 17 0.15
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:87428378 original size:30 final size:30
Alignment explanation
Indices: 87428326--87428414 Score: 160
Period size: 30 Copynumber: 2.9 Consensus size: 30
87428316 AACGTGTCAC
*
87428326 GATGGATTTTGTATCGGGATTGCCTCTATAT
1 GATGGATTTTGTAT-TGGATTGCCTCTATAT
87428357 GATGGATTTTGTATTGGATTGCCTCTATAT
1 GATGGATTTTGTATTGGATTGCCTCTATAT
87428387 GATGGATTTTGTATTGGATTGCCTCTAT
1 GATGGATTTTGTATTGGATTGCCTCTAT
87428415 CTCTGAGGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 43 0.75
31 14 0.25
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (30 bp):
GATGGATTTTGTATTGGATTGCCTCTATAT
Found at i:87428394 original size:18 final size:18
Alignment explanation
Indices: 87428342--87428394 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
87428332 TTTTGTATCG
87428342 GGATTGCCTCTATATGAT
1 GGATTGCCTCTATATGAT
*
87428360 GGATT---T-TGTAT--T
1 GGATTGCCTCTATATGAT
87428372 GGATTGCCTCTATATGAT
1 GGATTGCCTCTATATGAT
87428390 GGATT
1 GGATT
87428395 TTGTATTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 6 0.22
14 4 0.15
15 2 0.07
16 4 0.15
18 11 0.41
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.43
Consensus pattern (18 bp):
GGATTGCCTCTATATGAT
Found at i:87431504 original size:43 final size:43
Alignment explanation
Indices: 87431383--87431539 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
87431373 TGTGTTATCG
* * *
87431383 TGTAAGACCATGTTTGGGACATTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGATTT-CA
* *
87431427 TGTAAGACCATGTCTGGGACATCGACATCG-TATTTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTCA
* *
87431469 TGTAAGACCTTGTCTGGGACATTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTCA
* * *
87431512 TGTAAGACAACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
87431540 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
42 29 0.30
43 42 0.43
44 27 0.28
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTTCA
Found at i:87431869 original size:22 final size:25
Alignment explanation
Indices: 87431815--87431869 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
87431805 TGGTTAAGAA
87431815 GTATATGTATATTAAGATGCTTATAT
1 GTATATGTATATTAAGAT-CTTATAT
* *
87431841 GTTTATG-ATATTAAG-T-TTATCT
1 GTATATGTATATTAAGATCTTATAT
87431863 GTATATG
1 GTATATG
87431870 GCTTACTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.42
24 1 0.04
25 8 0.31
26 6 0.23
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (25 bp):
GTATATGTATATTAAGATCTTATAT
Found at i:87436440 original size:27 final size:26
Alignment explanation
Indices: 87436392--87436451 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
87436382 GCAAGGCTAC
*
87436392 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
87436419 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
87436445 CAGATAT
1 CAGATAT
87436452 ATATATGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:87437290 original size:27 final size:27
Alignment explanation
Indices: 87437212--87437276 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
87437202 GTGAGGCTAC
87437212 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGTCACCAGATA
87437239 CAGATATTGTGACGAAGTCACCAGA-A
1 CAGATATTGTGACGAAGTCACCAGATA
87437265 CAGATATATGTG
1 CAGATAT-TGTG
87437277 GCGAGGCTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 8 0.22
27 29 0.78
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (27 bp):
CAGATATTGTGACGAAGTCACCAGATA
Found at i:87437783 original size:10 final size:10
Alignment explanation
Indices: 87437764--87437794 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
87437754 ACACACCTGG
87437764 TTGATGACGA
1 TTGATGACGA
*
87437774 TTGATAACGA
1 TTGATGACGA
87437784 TTGATGACGA
1 TTGATGACGA
87437794 T
1 T
87437795 ATCTCCTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:87440662 original size:102 final size:103
Alignment explanation
Indices: 87440541--87440732 Score: 266
Period size: 102 Copynumber: 1.9 Consensus size: 103
87440531 TATATTTCTA
** *
87440541 TTTAAGAATGTATTGGCCCTTTTGATGT-GTAGTGGAATGACAACC-CAATGACCCAC-C-CCAG
1 TTTAAGAATGTATTGGCCCTTTTGAT-TCAAAGTGGAATGACAACCACAA-CACCC-CTCACCAG
* *
87440602 TTACTCAGCCCAACACACTCCTAATTTATTATTATTATTTT
63 TTACTCAACCCAACACACTCCGAATTTATTATTATTATTTT
* *
87440643 TTTAAGAATGTATTGGCCCTTTTGATTCAAAGTGGAATGACAACCACAACACCCCTCATCGGTTA
1 TTTAAGAATGTATTGGCCCTTTTGATTCAAAGTGGAATGACAACCACAACACCCCTCACCAGTTA
87440708 CTCAACCCAACACACTCCGAATTTA
66 CTCAACCCAACACACTCCGAATTTA
87440733 ATTTTTTTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
101 2 0.03
102 46 0.58
103 31 0.39
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (103 bp):
TTTAAGAATGTATTGGCCCTTTTGATTCAAAGTGGAATGACAACCACAACACCCCTCACCAGTTA
CTCAACCCAACACACTCCGAATTTATTATTATTATTTT
Found at i:87447161 original size:39 final size:40
Alignment explanation
Indices: 87447046--87447187 Score: 171
Period size: 39 Copynumber: 3.6 Consensus size: 40
87447036 TCGTTCAAAC
* * ** * **
87447046 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
87447086 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
87447126 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
87447165 GCCTTCGGG-CTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
87447188 TACTCGAACA
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 49 0.56
40 38 0.44
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:87454071 original size:40 final size:40
Alignment explanation
Indices: 87454026--87454193 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
87454016 CGGAATATAA
87454026 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
87454066 CCGGATAGAATAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
87454106 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
87454146 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
87454186 CCGGATAT
1 CCGGATAT
87454194 CATTCAATTT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 107 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87461368 original size:40 final size:40
Alignment explanation
Indices: 87461226--87461391 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
87461216 GAATATAACA
* ** *
87461226 GGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGCCC
*
87461266 GGATAGAATAACTC-GCACGAA-TGCCTTCGGGTCTTAGCCC
1 GGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGCCC
*** * *
87461306 GGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGCCC
** * *
87461346 GGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGCCC
1 GGATATAATAACCAGCACAATTGCCTTCGGG-TCTTAGCCC
87461386 GGATAT
1 GGATAT
87461392 CATTCAATTT
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
GGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGCCC
Found at i:87461374 original size:80 final size:80
Alignment explanation
Indices: 87461240--87461391 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 80
87461230 ATAATCACGT
*
87461240 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGAT-TTAGC
87461304 CCGGATATAGCCACTA
65 CCGGATATAGCCACTA
* * ** * *
87461320 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGATTTAG
87461383 CCCGGATAT
64 CCCGGATAT
87461392 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
79 3 0.05
80 58 0.94
81 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGATTTAGCC
CGGATATAGCCACTA
Found at i:87462375 original size:39 final size:39
Alignment explanation
Indices: 87462291--87462440 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
87462281 TATGGTAACC
** * *
87462291 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
87462331 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
87462370 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
87462409 TGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
87462441 TACTCAAACA
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 83 0.85
40 15 0.15
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:87462417 original size:78 final size:79
Alignment explanation
Indices: 87462272--87462440 Score: 259
Period size: 78 Copynumber: 2.2 Consensus size: 79
87462262 GGCTGTCACA
* **
87462272 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
87462337 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** * *
87462351 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
87462415 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
87462429 TAGCCCGGATAT
1 TAGCCCGGATAT
87462441 TACTCAAACA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 51 0.62
79 31 0.38
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:87467693 original size:12 final size:12
Alignment explanation
Indices: 87467678--87467703 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87467668 CACGGCCATG
87467678 TGGTAGGCCGTA
1 TGGTAGGCCGTA
87467690 TGGTAGGCCGTA
1 TGGTAGGCCGTA
87467702 TG
1 TG
87467704 CGATGACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.42, T:0.27
Consensus pattern (12 bp):
TGGTAGGCCGTA
Found at i:87469224 original size:55 final size:55
Alignment explanation
Indices: 87469157--87469356 Score: 169
Period size: 55 Copynumber: 3.7 Consensus size: 55
87469147 ATTAGGGTTT
* *
87469157 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTT-TCTAAGGC-
1 AAGGA-ACCATGTAAGACCATGCCAAGGCATGGCAATTGACAA-GTTATATAAGGCA
* * * *
87469212 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCA
1 AAGG-AACCATGTAAGACCATGCCAAGGCATGGCAATTGACAAGTTA-TATAAGGCA
** ** *
87469268 AAGGTCCCATGTAAGACCATGCCAAGGCATGGC-ATTGATGAGTT-CATAAGGC-
1 AAGGAACCATGTAAGACCATGCCAAGGCATGGCAATTGACAAGTTATATAAGGCA
* * * * *
87469320 ATGTATACCATGTAAGACCATGTCAAGACATGACAAT
1 AAGGA-ACCATGTAAGACCATGCCAAGGCATGGCAAT
87469357 GGTAAGTTTC
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 8 0.07
55 70 0.59
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (55 bp):
AAGGAACCATGTAAGACCATGCCAAGGCATGGCAATTGACAAGTTATATAAGGCA
Found at i:87469363 original size:108 final size:110
Alignment explanation
Indices: 87469164--87469364 Score: 284
Period size: 108 Copynumber: 1.8 Consensus size: 110
87469154 TTTAAGGATA
*
87469164 CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
87469229 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
87469274 CCATGTAAGACCATGCCAAGGCATGGC-ATT-G-ATGAG-TTCATAAGGCATGTATACCATGTAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAG-GTTTC-TAAGGCAAGGAAACCATGTAA
*
87469335 GACCATGTCAAGACATGACAATGGTAAGTT
64 GACCATGTCAAGACATGACAATGATAAGTT
87469365 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
107 5 0.06
108 46 0.57
109 3 0.04
110 27 0.33
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGCAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:87469625 original size:16 final size:16
Alignment explanation
Indices: 87469604--87469634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87469594 ATAAATTTGA
87469604 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
87469620 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
87469635 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:87470886 original size:31 final size:31
Alignment explanation
Indices: 87470843--87470906 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
87470833 TAAGGGGTGT
*
87470843 TACACGGACAACCCATACGGGCGTCTGGGCC
1 TACACGGACAACCCACACGGGCGTCTGGGCC
* *
87470874 TACAC-GAGCAACCCACACGGGTGTGTGGGCC
1 TACACGGA-CAACCCACACGGGCGTCTGGGCC
87470905 TA
1 TA
87470907 TATTACTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (31 bp):
TACACGGACAACCCACACGGGCGTCTGGGCC
Found at i:87473938 original size:64 final size:64
Alignment explanation
Indices: 87473857--87474040 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
87473847 AGACATTATG
* * * *
87473857 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGAGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
87473921 ATGTAGCTAGGTCGCATGCGTGGTACCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
87473986 AA
63 AA
* * * *
87473988 AT-TGGCTAGGTCACATGGATGGTACT-TAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTAT-GTGTACACCATGTAG-ACAAGAGAGC
87474041 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 32 0.32
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:87486720 original size:43 final size:43
Alignment explanation
Indices: 87486628--87486783 Score: 111
Period size: 43 Copynumber: 3.7 Consensus size: 43
87486618 TGTGATTAGA
* * *
87486628 TGTAAGACCATGTCTAGGACATTGGCATTATATTGTGACTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCATATTATGACTACC
* * * * * *
87486671 TATAAGACCATGTTTGGGACATTGGCATCGTATTATGATTTCC
1 TGTAAGACCATGTCTAGGACATTGGCATCATATTATGACTACC
* ** * * * *
87486714 TGTAAGACCCTGTCCGGGATAGTGGCATTGATA-TATGA-TAACA
1 TGTAAGACCATGTCTAGGACATTGGCA-TCATATTATGACT-ACC
* *
87486757 TGTAAGACCATATCTAGGA-TTTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
87486784 TGTGAGAGCT
Statistics
Matches: 86, Mismatches: 25, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 1 0.01
42 6 0.07
43 76 0.88
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCATATTATGACTACC
Found at i:87488574 original size:40 final size:40
Alignment explanation
Indices: 87488510--87488702 Score: 217
Period size: 40 Copynumber: 4.8 Consensus size: 40
87488500 AAATAAAGAA
* * *
87488510 GTGCCCCTATTTGTACTTTC-GTACCCCTAAATGCATGTCT
1 GTGCCCCTGTTTGTAC-TTCGGTACCCCTGAATGCACGTCT
* * *
87488550 GTTCCCCTGTTTGTACTCCGGTACCCCTGAATTCACGTCT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACGTCT
* * *
87488590 GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACGTCT
** * *
87488630 GTGCCCCTGTTTGTACTTTAGTACCCCCGAATGCACATCT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACGTCT
* * * *
87488670 ATGCCCTTGTTTGTACTACGGTGCCCCTGAATG
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATG
87488703 TACATTTGTG
Statistics
Matches: 130, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 2 0.02
40 128 0.98
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.35
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACGTCT
Found at i:87488616 original size:20 final size:19
Alignment explanation
Indices: 87488593--87488656 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
87488583 CACGTCTGTG
87488593 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTT-GTA
** * *
87488613 CCCCTGAATGCACATTTGTG
1 CCCCTGTTTGTAC-TTTGTA
87488633 CCCCTGTTTGTACTTTAGTA
1 CCCCTGTTTGTACTTT-GTA
87488653 CCCC
1 CCCC
87488657 CGAATGCACA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (19 bp):
CCCCTGTTTGTACTTTGTA
Found at i:87488643 original size:80 final size:80
Alignment explanation
Indices: 87488510--87488714 Score: 239
Period size: 80 Copynumber: 2.6 Consensus size: 80
87488500 AAATAAAGAA
* * * ** * * *
87488510 GTGCCCCTATTTGTACTTTCGTACCCCTAAATGCATGTCTGTTCCCCTGTTTGTACTCCGGTACC
1 GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTTGTGCCCCTGTTTGTACTCCAGTACC
* * *
87488575 CCTGAATTCACGTCT
66 CCCGAATGCACATCT
**
87488590 GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTTGTGCCCCTGTTTGTACTTTAGTACC
1 GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTTGTGCCCCTGTTTGTACTCCAGTACC
87488655 CCCGAATGCACATCT
66 CCCGAATGCACATCT
* * ** * *
87488670 ATGCCCTTGTTTGTACTACGGTGCCCCTGAATGTACATTTGTGCC
1 GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTTGTGCC
87488715 TCTGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.16, C:0.30, G:0.19, T:0.36
Consensus pattern (80 bp):
GTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATTTGTGCCCCTGTTTGTACTCCAGTACC
CCCGAATGCACATCT
Found at i:87488713 original size:20 final size:19
Alignment explanation
Indices: 87488589--87488714 Score: 54
Period size: 20 Copynumber: 6.3 Consensus size: 19
87488579 AATTCACGTC
**
87488589 TGTGCCCCTGTTTGTACTT
1 TGTGCCCCTGAATGTACTT
* *
87488608 TGGTACCCCTGAATGCACATT
1 T-GTGCCCCTGAATGTAC-TT
**
87488629 TGTGCCCCTGTTTGTACTT
1 TGTGCCCCTGAATGTACTT
* * * *
87488648 TAGTACCCCCGAATGCACATC
1 T-GTGCCCCTGAATGTAC-TT
* * ** *
87488669 TATGCCCTTGTTTGTACTAC
1 TGTGCCCCTGAATGTACT-T
*
87488689 GGTGCCCCTGAATGTACATT
1 TGTGCCCCTGAATGTAC-TT
87488709 TGTGCC
1 TGTGCC
87488715 TCTGGTTACA
Statistics
Matches: 73, Mismatches: 28, Indels: 11
0.65 0.25 0.10
Matches are distributed among these distances:
19 5 0.07
20 62 0.85
21 6 0.08
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.36
Consensus pattern (19 bp):
TGTGCCCCTGAATGTACTT
Found at i:87492456 original size:93 final size:93
Alignment explanation
Indices: 87492344--87492515 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87492334 GCCCATAAGT
* *
87492344 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87492409 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
87492437 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87492502 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
87492516 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87492511 original size:46 final size:46
Alignment explanation
Indices: 87492336--87492511 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
87492326 TGTAACCCGC
* * *
87492336 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
87492382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
87492432 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
87492475 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87492512 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:87494937 original size:30 final size:30
Alignment explanation
Indices: 87494893--87494981 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
87494883 CAAAGATAAC
87494893 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
87494922 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
87494952 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
87494982 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:87494941 original size:15 final size:15
Alignment explanation
Indices: 87494893--87494972 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
87494883 CAAAGATAAC
*
87494893 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
87494907 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
87494922 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
87494937 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
87494952 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
87494967 AAGAAA
1 AAGAAA
87494973 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:87494981 original size:15 final size:15
Alignment explanation
Indices: 87494904--87494981 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
87494894 AGAAAACCGA
87494904 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
87494919 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
87494933 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
87494948 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
87494964 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
87494979 ATA
1 ATA
87494982 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:87498002 original size:93 final size:93
Alignment explanation
Indices: 87497890--87498061 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
87497880 GCCCATAAGT
* *
87497890 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87497955 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
87497983 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87498048 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
87498062 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:87498057 original size:46 final size:46
Alignment explanation
Indices: 87497882--87498057 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
87497872 TGTAACCCGC
* * *
87497882 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
87497928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
87497978 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
87498021 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
87498058 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:87502288 original size:40 final size:39
Alignment explanation
Indices: 87502223--87502426 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
87502213 CGGAATACAA
* *
87502223 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
87502263 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
87502303 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
87502343 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
87502383 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
87502423 CCGG
1 CCGG
87502427 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:87502581 original size:64 final size:64
Alignment explanation
Indices: 87502513--87502705 Score: 150
Period size: 64 Copynumber: 3.1 Consensus size: 64
87502503 GAACACAAAC
87502513 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
87502577 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
87502634 AC
63 AT
87502636 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
87502700 ATATCA
1 ATATCA
87502706 ATAATCATTA
Statistics
Matches: 84, Mismatches: 34, Indels: 22
0.60 0.24 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.29
60 7 0.08
61 7 0.08
62 7 0.08
63 7 0.08
64 30 0.36
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.28
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:87502614 original size:123 final size:123
Alignment explanation
Indices: 87502395--87502733 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
87502385 GGATATAATT
* * * * * * *
87502395 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
87502460 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
87502518 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
87502583 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
87502641 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
87502706 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
87502734 CACATAATTC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:87512568 original size:14 final size:13
Alignment explanation
Indices: 87512549--87512578 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
87512539 TATTTAACTA
87512549 GTTCTTAATTATGT
1 GTTCTTAATTAT-T
87512563 GTTCTTAATTATT
1 GTTCTTAATTATT
87512576 GTT
1 GTT
87512579 TTGATATCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (13 bp):
GTTCTTAATTATT
Found at i:87523507 original size:43 final size:42
Alignment explanation
Indices: 87523459--87523625 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 42
87523449 ATCGATATGT
*
87523459 GATTACATGTCAGACCATGTCTGGGACATTGGCATTGTATTG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
* * * *
87523501 AGATTACGTGTAATACCATGTCCGGGACGTTGGCATCAT-TAATT-
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGT-ATTG
* * *
87523545 GATTACGTGTAAGACCTTGTCTGGGACAGTGGCATTG-ATATG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TG
* ** *
87523587 TGATAACATGTAAGACCACATCTGGGATA-TGGCATTGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
87523626 CAAGCTTATG
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 8 0.08
43 83 0.83
44 1 0.01
45 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTG
Found at i:87532301 original size:42 final size:42
Alignment explanation
Indices: 87532254--87532360 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
87532244 TATTGGTCTC
87532254 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
87532296 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
87532338 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
87532361 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:87532425 original size:27 final size:28
Alignment explanation
Indices: 87532368--87532437 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
87532358 AAAATTGTAC
**
87532368 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
87532396 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
87532423 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
87532438 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:87543059 original size:43 final size:43
Alignment explanation
Indices: 87543011--87543096 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
87543001 ACCGTCTTAG
87543011 GCAGCTTCCAATCCAGAATAGCCTCAATTTTTCGAGGATCAAC
1 GCAGCTTCCAATCCAGAATAGCCTCAATTTTTCGAGGATCAAC
*
87543054 GCAGCTTCCAATCCAGAATAGCCTCAATTTTTTGAGGATCAAC
1 GCAGCTTCCAATCCAGAATAGCCTCAATTTTTCGAGGATCAAC
87543097 CCTAATCCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
GCAGCTTCCAATCCAGAATAGCCTCAATTTTTCGAGGATCAAC
Found at i:87546093 original size:40 final size:40
Alignment explanation
Indices: 87545892--87546074 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
87545882 GATGATAACG
* * *
87545892 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
87545932 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAATAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
87545972 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
87546012 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
87546052 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
87546075 AGCAAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.02
40 129 0.98
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:87554353 original size:40 final size:40
Alignment explanation
Indices: 87554256--87554476 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
87554246 ACCCAAGTAT
* ** * *
87554256 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
87554294 CTTTGGGTCTTAGCTCGGATATAGTCACTAGCATAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
87554334 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
87554374 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
87554414 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
87554455 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
87554477 CATTCGAATA
Statistics
Matches: 146, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
38 10 0.07
39 17 0.12
40 89 0.61
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:87558677 original size:40 final size:40
Alignment explanation
Indices: 87558631--87558815 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
87558621 CTCGCACAAG
* * *
87558631 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
87558671 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
87558711 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* ** *
87558751 GCCTTCGGATCTTAGTACGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
87558792 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
87558816 CATTCGAATA
Statistics
Matches: 119, Mismatches: 25, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 91 0.76
41 28 0.24
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:87558730 original size:80 final size:79
Alignment explanation
Indices: 87558595--87558815 Score: 239
Period size: 80 Copynumber: 2.8 Consensus size: 79
87558585 ACCCAAGTAT
* * * * * * * *
87558595 CTTCGGGATTTAGCTGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAACCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTA
*
87558659 ACTAGCATAAATGC
66 ACTAGCACAAATGC
* * * *
87558673 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTTTTGGCCCGGATATAGT
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGT
*
87558738 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
87558753 CTTC-GGATCTTAGTACGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAC-TAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
87558816 CATTCGAATA
Statistics
Matches: 118, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
78 12 0.10
79 19 0.16
80 57 0.48
81 30 0.25
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGTA
ACTAGCACAAATGC
Found at i:87574578 original size:23 final size:23
Alignment explanation
Indices: 87574546--87574596 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
87574536 CATTAGCATG
* *
87574546 GTAATAGCATGAGAATGAGAATA
1 GTAATGGCATGAGAATGACAATA
* *
87574569 GTAATGGCATGGGTATGACAATA
1 GTAATGGCATGAGAATGACAATA
87574592 G-AATG
1 GTAATG
87574597 AGGCTTTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.41, C:0.06, G:0.29, T:0.24
Consensus pattern (23 bp):
GTAATGGCATGAGAATGACAATA
Found at i:87578231 original size:29 final size:29
Alignment explanation
Indices: 87578198--87578300 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
87578188 GTTGAGAGAT
*
87578198 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
87578227 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
87578256 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
87578285 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87578301 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:87587580 original size:6 final size:6
Alignment explanation
Indices: 87587571--87587658 Score: 115
Period size: 6 Copynumber: 14.5 Consensus size: 6
87587561 AATAAAATTG
* *
87587571 AAATGA AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
87587619 AAA-ATA AAATAA AAATAA AAATAA GAGTAA ATAATAA AAA
1 AAATA-A AAATAA AAATAA AAATAA AAATAA A-AATAA AAA
87587659 ATAAGAGGAT
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
5 1 0.01
6 67 0.91
7 6 0.08
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:87589220 original size:46 final size:45
Alignment explanation
Indices: 87589170--87589340 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
87589160 TGGTTGAGCA
87589170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * * *
87589216 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-T--G
**
87589261 CATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
* *
87589308 CCCGAGCTCGTTGAGTTGAGTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTA
87589341 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 34 0.33
46 36 0.35
47 23 0.22
49 3 0.03
50 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:87589325 original size:92 final size:92
Alignment explanation
Indices: 87589167--87589335 Score: 286
Period size: 92 Copynumber: 1.8 Consensus size: 92
87589157 GGATGGTTGA
***
87589167 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
87589232 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGT-CGAGTTCGTGAAATGTAACTAG
*
87589260 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
87589324 TGAGTCGAGTTC
66 TGAGTCGAGTTC
87589336 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 7 0.10
92 41 0.57
93 24 0.33
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAAATGTAACTAG
Found at i:87597294 original size:46 final size:46
Alignment explanation
Indices: 87597243--87597424 Score: 328
Period size: 46 Copynumber: 4.0 Consensus size: 46
87597233 AGTTAAATAT
*
87597243 ATATATGTGTGGTAGAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
87597289 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
87597335 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
87597381 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
87597425 AGATGTATAT
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:87597482 original size:47 final size:47
Alignment explanation
Indices: 87597428--87597538 Score: 159
Period size: 47 Copynumber: 2.4 Consensus size: 47
87597418 ATGTATGAGA
* * * *
87597428 TGTATATATGTGATAAGGCTGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
87597475 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
87597522 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
87597539 TCCCGAGGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:87601174 original size:93 final size:93
Alignment explanation
Indices: 87601015--87601185 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
87601005 GGATGGTTTA
** * *
87601015 GCATCCGAACTTGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
87601080 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
87601108 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
87601172 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
87601186 ACTTAGGTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:87601184 original size:46 final size:45
Alignment explanation
Indices: 87601022--87601190 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
87601012 TTAGCATCCG
* * * * *
87601022 AACTTGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCC
* * *
87601068 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGGCATCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---GC--CC
* *
87601114 GAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCC
1 -AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
87601160 AAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
87601191 GGTGCGGGTT
Statistics
Matches: 97, Mismatches: 15, Indels: 22
0.72 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 5 0.05
46 52 0.54
47 23 0.24
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
Found at i:87606948 original size:180 final size:180
Alignment explanation
Indices: 87606646--87607006 Score: 713
Period size: 180 Copynumber: 2.0 Consensus size: 180
87606636 TCAGGGAAAA
87606646 TTAACGGCACTTCATTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGG
1 TTAACGGCACTTCATTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGG
87606711 AAAAACAGCTTGTGCTGAATTTGTGATTATGTTGTAAACCTTAATAAAACTATTTGAGTTGCTTA
66 AAAAACAGCTTGTGCTGAATTTGTGATTATGTTGTAAACCTTAATAAAACTATTTGAGTTGCTTA
87606776 TAAGCTATCGATTAAATATTGGTAATCAAAGTACCAAATCCGTATTAAAG
131 TAAGCTATCGATTAAATATTGGTAATCAAAGTACCAAATCCGTATTAAAG
*
87606826 TTAACGGCACTTCATTTGGAGTTTCGTAGCTCCTTTTACGAATAATTTAATGACTGTTGCTCAGG
1 TTAACGGCACTTCATTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGG
87606891 AAAAACAGCTTGTGCTGAATTTGTGATTATGTTGTAAACCTTAATAAAACTATTTGAGTTGCTTA
66 AAAAACAGCTTGTGCTGAATTTGTGATTATGTTGTAAACCTTAATAAAACTATTTGAGTTGCTTA
87606956 TAAGCTATCGATTAAATATTGGTAATCAAAGTACCAAATCCGTATTAAAG
131 TAAGCTATCGATTAAATATTGGTAATCAAAGTACCAAATCCGTATTAAAG
87607006 T
1 T
87607007 GAAGCTATAA
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 180 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (180 bp):
TTAACGGCACTTCATTTGGAGTTTCGTAGCTCCATTTACGAATAATTTAATGACTGTTGCTCAGG
AAAAACAGCTTGTGCTGAATTTGTGATTATGTTGTAAACCTTAATAAAACTATTTGAGTTGCTTA
TAAGCTATCGATTAAATATTGGTAATCAAAGTACCAAATCCGTATTAAAG
Found at i:87607129 original size:49 final size:49
Alignment explanation
Indices: 87607074--87607364 Score: 479
Period size: 47 Copynumber: 6.1 Consensus size: 49
87607064 ATGTACAAGA
87607074 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
87607123 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
87607170 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
87607217 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
87607266 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
87607313 TATATATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTG
87607362 TAT
1 TAT
87607365 AACTGTGATA
Statistics
Matches: 231, Mismatches: 6, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
47 132 0.57
48 3 0.01
49 96 0.42
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:87607131 original size:25 final size:25
Alignment explanation
Indices: 87607103--87607181 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
87607093 CGAATGGCCA
87607103 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
87607128 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
87607150 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
87607175 ATGTGAT
1 ATGTGAT
87607182 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:87607252 original size:96 final size:96
Alignment explanation
Indices: 87607074--87607376 Score: 458
Period size: 96 Copynumber: 3.2 Consensus size: 96
87607064 ATGTACAAGA
87607074 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG--TATGTGATAA
1 TATG-ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG-AAGTGTATGTATATGTGATAA
87607137 GGCCGAATGGCCAATGTGATGAATGTGAAAGTG
64 GGCCGAATGGCCAATGTGATGAATGTGAAAGTG
87607170 TATG-TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTATGTATATGTGATAAG
1 TATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-GTGTATGTATATGTGATAAG
87607234 GCCGAATGGCCAATGTGATGAATGTGAAAGTG
65 GCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
87607266 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTATATATATATGATAAG
1 TATG-ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGTGTATGTATATGTGATAAG
* *
87607330 GCCGAATGGTCAATGTGATGGAA-GTGGAAGTG
65 GCCGAATGGCCAATGTGAT-GAATGTGAAAGTG
87607362 TAT-A-ACTGTGATAAG
1 TATGATA-TGTGATAAG
87607377 TCCCGAAGGA
Statistics
Matches: 195, Mismatches: 5, Indels: 16
0.90 0.02 0.07
Matches are distributed among these distances:
93 3 0.02
94 54 0.28
96 96 0.49
97 3 0.02
98 39 0.20
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (96 bp):
TATGATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGTGTATGTATATGTGATAAGG
CCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:87620366 original size:28 final size:27
Alignment explanation
Indices: 87620303--87620372 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
87620293 ATAGTGAGTC
87620303 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
87620330 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
87620358 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87620373 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:87628376 original size:28 final size:27
Alignment explanation
Indices: 87628313--87628382 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
87628303 ATAGTGAGTC
87628313 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
87628340 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
87628368 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
87628383 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:87643209 original size:14 final size:14
Alignment explanation
Indices: 87643190--87643216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87643180 TATTAAAAAA
87643190 ATAATTAAGAACAC
1 ATAATTAAGAACAC
87643204 ATAATTAAGAACA
1 ATAATTAAGAACA
87643217 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:87646662 original size:31 final size:31
Alignment explanation
Indices: 87646627--87646690 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
87646617 CTTTTTCATG
87646627 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
87646658 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
87646689 TT
1 TT
87646691 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:87646933 original size:24 final size:24
Alignment explanation
Indices: 87646882--87647120 Score: 356
Period size: 24 Copynumber: 10.0 Consensus size: 24
87646872 GCTTTATCAT
* *
87646882 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* * **
87646907 ATAATTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
**
87646931 ATAACTGGGGCATAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
87646955 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
87646978 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
87647002 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
87647026 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
87647050 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
87647074 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
87647098 ATAACTGGGGAATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87647121 TCACTTCCTC
Statistics
Matches: 202, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
23 23 0.11
24 168 0.83
25 11 0.05
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:87647195 original size:20 final size:20
Alignment explanation
Indices: 87647170--87647230 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
87647160 TTATGATTAC
87647170 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87647190 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
87647210 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
87647230 A
1 A
87647231 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87647305 original size:25 final size:25
Alignment explanation
Indices: 87647273--87647320 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
87647263 ATACATAAAC
* * *
87647273 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
87647298 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
87647321 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:87659044 original size:43 final size:42
Alignment explanation
Indices: 87658959--87659067 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 42
87658949 GTCTAAGACA
* * *
87658959 TCGTACAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
*
87659001 TACGTATAAGACCATGTCTGGGACATCA-GCATCGTATT-TGATT
1 T-CGTATAAGACCATGTCTGGGACA-CAGGCATCG-ATTGAGATT
* * * *
87659044 TCTTGTAAGACCCTATCTGGGACA
1 TCGTATAAGACCATGTCTGGGACA
87659068 GAGGAAACGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 20 0.36
43 31 0.55
44 5 0.09
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (42 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATTGAGATT
Found at i:87662009 original size:27 final size:28
Alignment explanation
Indices: 87661952--87662021 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
87661942 AAACTTGTAC
*
87661952 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
87661980 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
87662007 AGCACTAGGTGTGCG
1 AGCACTAAGTGTGCG
87662022 TACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Done.