Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 150 of 210
Found at i:49984625 original size:20 final size:22
Alignment explanation
Indices: 49984600--49984641 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
49984590 TTTACATATT
49984600 CAAAACACACC-AA-AACATAC
1 CAAAACACACCGAATAACATAC
49984620 CAAAACACACCGAATAACATAC
1 CAAAACACACCGAATAACATAC
49984642 AAACTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.57, C:0.33, G:0.02, T:0.07
Consensus pattern (22 bp):
CAAAACACACCGAATAACATAC
Found at i:49985365 original size:13 final size:14
Alignment explanation
Indices: 49985331--49985368 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
49985321 CAAAAGTCCC
49985331 TTTCATAT-ATCTA
1 TTTCATATAATCTA
49985344 TTCTCATATAATC-A
1 TT-TCATATAATCTA
49985358 TTTCATATAAT
1 TTTCATATAAT
49985369 TGTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 9 0.39
15 3 0.13
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTCATATAATCTA
Found at i:49988597 original size:12 final size:12
Alignment explanation
Indices: 49988559--49988598 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
49988549 TCAGTGAGTT
49988559 ACACAGGTGAGG
1 ACACAGGTGAGG
*
49988571 ACACAAGTGAGG
1 ACACAGGTGAGG
49988583 ACACAGGCTGA-G
1 ACACAGG-TGAGG
49988595 ACAC
1 ACAC
49988599 GACCGTGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.38, C:0.23, G:0.33, T:0.07
Consensus pattern (12 bp):
ACACAGGTGAGG
Found at i:49999385 original size:19 final size:19
Alignment explanation
Indices: 49999358--49999403 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
49999348 TTGATGCTTC
* * *
49999358 AAATAAAATAGTAAGATCT
1 AAATTAAATAATAAGATAT
*
49999377 AAATTAAATAATAATATAT
1 AAATTAAATAATAAGATAT
49999396 AAATTAAA
1 AAATTAAA
49999404 GCCTAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AAATTAAATAATAAGATAT
Found at i:50000482 original size:238 final size:238
Alignment explanation
Indices: 50000064--50000539 Score: 943
Period size: 238 Copynumber: 2.0 Consensus size: 238
50000054 TCTATTGCAA
50000064 CAACCGAACGAGCATTTTCAGCCATGAAAGTTGTGAAGGCAAGGCTTCGCAACAAAATGGAGGAT
1 CAACCGAACGAGCATTTTCAGCCATGAAAGTTGTGAAGGCAAGGCTTCGCAACAAAATGGAGGAT
50000129 GATTTTCTTTCAGCTTACTTGGTGGCATACATCGAAAAAGAGCTAGCTTGAGAATTTTCAACGGA
66 GATTTTCTTTCAGCTTACTTGGTGGCATACATCGAAAAAGAGCTAGCTTGAGAATTTTCAACGGA
50000194 TTCTATCACTGATGAGTTCAATCTTATAAAAAATGGATGATGCAATTTAAGATGCCTAGTATTGA
131 TTCTATCACTGATGAGTTCAATCTTATAAAAAATGGATGATGCAATTTAAGATGCCTAGTATTGA
50000259 GAAATAGGACTAAGGCCAAGTTTTTTTTTAATTTAATCTTTGG
196 GAAATAGGACTAAGGCCAAGTTTTTTTTTAATTTAATCTTTGG
50000302 CAACCGAACGAGCATTTTCAGCCATGAAAGTTGTGAAGGCAAGGCTTCGCAACAAAATGGAGGAT
1 CAACCGAACGAGCATTTTCAGCCATGAAAGTTGTGAAGGCAAGGCTTCGCAACAAAATGGAGGAT
50000367 GATTTTCTTTCAGCTTACTTGGTGGCATACATCGAAAAAGAGCTAGCTTGAGAATTTTCAACGGA
66 GATTTTCTTTCAGCTTACTTGGTGGCATACATCGAAAAAGAGCTAGCTTGAGAATTTTCAACGGA
50000432 TTCTATCACTGATGAGTTCAATCTTATAAAAAATGGATGATGCAATTTAAGATGCCTAGTATTGA
131 TTCTATCACTGATGAGTTCAATCTTATAAAAAATGGATGATGCAATTTAAGATGCCTAGTATTGA
*
50000497 GAAATAGGACTAAGGCCAAGTTTTTTTTTAATTTAATTTTTGG
196 GAAATAGGACTAAGGCCAAGTTTTTTTTTAATTTAATCTTTGG
50000540 AATTATAATG
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 237 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (238 bp):
CAACCGAACGAGCATTTTCAGCCATGAAAGTTGTGAAGGCAAGGCTTCGCAACAAAATGGAGGAT
GATTTTCTTTCAGCTTACTTGGTGGCATACATCGAAAAAGAGCTAGCTTGAGAATTTTCAACGGA
TTCTATCACTGATGAGTTCAATCTTATAAAAAATGGATGATGCAATTTAAGATGCCTAGTATTGA
GAAATAGGACTAAGGCCAAGTTTTTTTTTAATTTAATCTTTGG
Found at i:50000909 original size:59 final size:60
Alignment explanation
Indices: 50000838--50000950 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 60
50000828 CTACCCTATC
*
50000838 ACACACCACCTCCGAATCACCATTACCAACTCCTTCAAT-CCGGATATGATAAACATTTA
1 ACACACCACCTCCGAACCACCATTACCAACTCCTTCAATACCGGATATGATAAACATTTA
* * **
50000897 ACACACCGCCTCCGAACCACCATTACCAACTCTTTCAATACTTGATATGATAAA
1 ACACACCACCTCCGAACCACCATTACCAACTCCTTCAATACCGGATATGATAAA
50000951 TATCTAATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 36 0.75
60 12 0.25
ACGTcount: A:0.35, C:0.34, G:0.07, T:0.24
Consensus pattern (60 bp):
ACACACCACCTCCGAACCACCATTACCAACTCCTTCAATACCGGATATGATAAACATTTA
Found at i:50000991 original size:48 final size:48
Alignment explanation
Indices: 50000919--50001016 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
50000909 CGAACCACCA
* * *
50000919 TTACCAACTCTTTCAATACTTGATATGATAAATATCTAATGACAAAAT
1 TTACCAACTCCTTCAATACCTGATATGATAAACATCTAATGACAAAAT
* * * *
50000967 TTACCAACTCCTTCAATCCCTGATATGATAAACATTTAATGGCACAAT
1 TTACCAACTCCTTCAATACCTGATATGATAAACATCTAATGACAAAAT
50001015 TT
1 TT
50001017 TAACCCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (48 bp):
TTACCAACTCCTTCAATACCTGATATGATAAACATCTAATGACAAAAT
Found at i:50002460 original size:55 final size:55
Alignment explanation
Indices: 50002395--50002505 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
50002385 ATAAATTATG
50002395 TAATATAAGTGTTTATTTTGTAAAATTTATTTTATTGGTGTCTAAAATAAAAAAT
1 TAATATAAGTGTTTATTTTGTAAAATTTATTTTATTGGTGTCTAAAATAAAAAAT
*
50002450 TAATATAAGTGTTTATTTTGTAAATTTTATTTTATTGGTGTCTAAAATAAAAAAT
1 TAATATAAGTGTTTATTTTGTAAAATTTATTTTATTGGTGTCTAAAATAAAAAAT
50002505 T
1 T
50002506 TTAAAAGTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (55 bp):
TAATATAAGTGTTTATTTTGTAAAATTTATTTTATTGGTGTCTAAAATAAAAAAT
Found at i:50004912 original size:40 final size:38
Alignment explanation
Indices: 50004856--50004933 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 38
50004846 CCTGCGACAG
50004856 TGAGAATAGTTACTATTAAAATGAGTAAAAGAACTGAATA
1 TGAGAATAGTTACTATTAAAATGAG--AAAGAACTGAATA
* *
50004896 TGAGAATAGTTTCTATTAAAATGAGAAAGAATTGAATA
1 TGAGAATAGTTACTATTAAAATGAGAAAGAACTGAATA
50004934 GCTTAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 12 0.33
40 24 0.67
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (38 bp):
TGAGAATAGTTACTATTAAAATGAGAAAGAACTGAATA
Found at i:50005495 original size:18 final size:18
Alignment explanation
Indices: 50005448--50005484 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50005438 TGGGATCCCC
50005448 AATAGTTGGAGATAAGAG
1 AATAGTTGGAGATAAGAG
50005466 AATAGTTGGAGATAAGAG
1 AATAGTTGGAGATAAGAG
50005484 A
1 A
50005485 TTCGTATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.22
Consensus pattern (18 bp):
AATAGTTGGAGATAAGAG
Found at i:50010986 original size:9 final size:9
Alignment explanation
Indices: 50010974--50011003 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
50010964 TAATTTTAGA
50010974 AATTAATTT
1 AATTAATTT
50010983 AATTAATTT
1 AATTAATTT
*
50010992 AGTTAATTT
1 AATTAATTT
50011001 AAT
1 AAT
50011004 CAAGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:50014570 original size:22 final size:22
Alignment explanation
Indices: 50014544--50014589 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
50014534 AACTCCGATT
* *
50014544 CTCTCCCTCTCCTCCATCGTCC
1 CTCTCCCTCTCCCCCACCGTCC
50014566 CTCTCCCTCTCCCCCACCGTCC
1 CTCTCCCTCTCCCCCACCGTCC
50014588 CT
1 CT
50014590 TTCCTTTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.63, G:0.04, T:0.28
Consensus pattern (22 bp):
CTCTCCCTCTCCCCCACCGTCC
Found at i:50021574 original size:33 final size:33
Alignment explanation
Indices: 50021528--50021590 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
50021518 ATCAGATAGC
*
50021528 GGTTGAACGACGGTGGCTAAATGGCGACAATGT
1 GGTTGAACAACGGTGGCTAAATGGCGACAATGT
50021561 GGTTGAACAACGGTGGCTAAATGGCGACAA
1 GGTTGAACAACGGTGGCTAAATGGCGACAA
50021591 CTAGTGTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.35, T:0.19
Consensus pattern (33 bp):
GGTTGAACAACGGTGGCTAAATGGCGACAATGT
Found at i:50023696 original size:35 final size:35
Alignment explanation
Indices: 50023656--50023724 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
50023646 ATCATTTTCC
50023656 ATTTCAATATCGAATATATCGAGTTTTACCATTTA
1 ATTTCAATATCGAATATATCGAGTTTTACCATTTA
50023691 ATTTCAATATCGAATATATCGAGTTTTACCATTT
1 ATTTCAATATCGAATATATCGAGTTTTACCATTT
50023725 TCCAATTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (35 bp):
ATTTCAATATCGAATATATCGAGTTTTACCATTTA
Found at i:50027506 original size:51 final size:50
Alignment explanation
Indices: 50027448--50027636 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 50
50027438 ATGTTTGGTT
* *
50027448 CACATAGTAGCCTGCACATAATACTACACATGTGACCGTTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCG-TACCATCCGGTA
* * * * *
50027499 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACAATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCG-TACCATCCGGTA
* * *
50027550 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCGTACCA-TCCGGTA
* *
50027600 CACGTAATAGCCTGCACATAGTACTACACATGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
50027637 ATCACTTTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 76 0.65
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCGTACCATCCGGTA
Found at i:50027658 original size:101 final size:101
Alignment explanation
Indices: 50027448--50027634 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 101
50027438 ATGTTTGGTT
* *
50027448 CACATAGTAGCCTGCACATAATACTACACATGTGACCGTTACCATCCGATACACATAGTAGCCTG
1 CACATAGTAGCCTGCACATAATACTACACATGCGACCG-TACCATCCGATACACATAATAGCCTG
*
50027513 CACATAGTACTACACACGTGATCGAAACAATTCGGTA
65 CACATAGTACTACACACGTGATCCAAACAATTCGGTA
* * * * *
50027550 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAATAGCCTG
1 CACATAGTAGCCTGCACATAATACTACACATGCGACCGTACCA-TCCGATACACATAATAGCCTG
*
50027614 CACATAGTACTACACATGTGA
65 CACATAGTACTACACACGTGA
50027635 CCATCACTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 38 0.50
102 34 0.45
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAATACTACACATGCGACCGTACCATCCGATACACATAATAGCCTGC
ACATAGTACTACACACGTGATCCAAACAATTCGGTA
Found at i:50030487 original size:74 final size:74
Alignment explanation
Indices: 50030366--50030587 Score: 435
Period size: 74 Copynumber: 3.0 Consensus size: 74
50030356 TGACGTATAC
*
50030366 TCTGTAAAACTAGGGTGTTGTATTAAAAATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
1 TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
50030431 GCGTATAAG
66 GCGTATAAG
50030440 TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
1 TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
50030505 GCGTATAAG
66 GCGTATAAG
50030514 TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
1 TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
50030579 GCGTATAAG
66 GCGTATAAG
50030588 CTTTTAATAA
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 147 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (74 bp):
TCTGTAAAACTAGGGTGTTGTATTAAACATTTAATAAAATAATAAAATAAAGTATAAGTCATGTG
GCGTATAAG
Found at i:50037293 original size:18 final size:19
Alignment explanation
Indices: 50037252--50037293 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
50037242 GAGAGATAGT
*
50037252 GGTTAGTGGGTTAGTGGGA
1 GGTTAGTGGGTTAGAGGGA
*
50037271 -TTTAGT-GGTTAGAGGGA
1 GGTTAGTGGGTTAGAGGGA
50037288 GGTTAG
1 GGTTAG
50037294 GATAGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (19 bp):
GGTTAGTGGGTTAGAGGGA
Found at i:50038104 original size:18 final size:18
Alignment explanation
Indices: 50038081--50038117 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50038071 TGGAAGTGAA
*
50038081 CCACACGGGCGTGTGGGC
1 CCACACGGGCATGTGGGC
50038099 CCACACGGGCATGTGGGC
1 CCACACGGGCATGTGGGC
50038117 C
1 C
50038118 TATAATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.35, G:0.41, T:0.11
Consensus pattern (18 bp):
CCACACGGGCATGTGGGC
Found at i:50044021 original size:17 final size:18
Alignment explanation
Indices: 50043989--50044022 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50043979 GAGCTGAGAG
*
50043989 TTAGTGGGTTAGTGGGAT
1 TTAGTGGGTTAATGGGAT
50044007 TTAGT-GGTTAATGGGA
1 TTAGTGGGTTAATGGGA
50044023 GGTTAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (18 bp):
TTAGTGGGTTAATGGGAT
Found at i:50044028 original size:18 final size:18
Alignment explanation
Indices: 50043986--50044028 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
50043976 AAGGAGCTGA
*
50043986 GAGTTAGTGGGTTAGTGG
1 GAGTTAGTGGGTTAATGG
*
50044004 GATTTAGT-GGTTAATGG
1 GAGTTAGTGGGTTAATGG
50044021 GAGGTTAG
1 GA-GTTAG
50044029 GATAGATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (18 bp):
GAGTTAGTGGGTTAATGG
Found at i:50046418 original size:12 final size:12
Alignment explanation
Indices: 50046401--50046429 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
50046391 CTAAGACCAA
50046401 ATTAAAACATAT
1 ATTAAAACATAT
50046413 ATTAAAACATAT
1 ATTAAAACATAT
50046425 ATTAA
1 ATTAA
50046430 TGTTGTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAAAACATAT
Found at i:50052470 original size:21 final size:21
Alignment explanation
Indices: 50052442--50052505 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
50052432 TTCTGGTGGA
*
50052442 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
*
50052463 TTAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
50052484 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
50052505 T
1 T
50052506 GGCGTGTTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:50053322 original size:26 final size:26
Alignment explanation
Indices: 50053293--50053342 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
50053283 TAACAGCCTA
* *
50053293 GTGCACCGCTTCCTTGGCATAGCCCG
1 GTGCACAGCTGCCTTGGCATAGCCCG
* *
50053319 GTGCATAGCTGCCTTGGCGTAGCC
1 GTGCACAGCTGCCTTGGCATAGCC
50053343 TTGGCACCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.34, G:0.30, T:0.24
Consensus pattern (26 bp):
GTGCACAGCTGCCTTGGCATAGCCCG
Found at i:50054098 original size:29 final size:29
Alignment explanation
Indices: 50054056--50054139 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
50054046 CAAGACATCT
* *
50054056 TTATAACAGG-GATCGCCGCAAAGGCTTTC
1 TTATAAC-GGAGATCACCACAAAGGCTTTC
* *
50054085 TTATAACGGAGATCTCTACAAAGGCTTTC
1 TTATAACGGAGATCACCACAAAGGCTTTC
**
50054114 TTATAACAAAGATCACCACAAAGGCT
1 TTATAACGGAGATCACCACAAAGGCT
50054140 CACTTTTAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (29 bp):
TTATAACGGAGATCACCACAAAGGCTTTC
Found at i:50054149 original size:29 final size:29
Alignment explanation
Indices: 50054129--50054253 Score: 205
Period size: 29 Copynumber: 4.3 Consensus size: 29
50054119 ACAAAGATCA
50054129 CCACAAAGGCTCACTTTTAACTGAGATAG
1 CCACAAAGGCTCACTTTTAACTGAGATAG
* *
50054158 CCACAAATGCCCACTTTTAACTGAGATAG
1 CCACAAAGGCTCACTTTTAACTGAGATAG
50054187 CCACAAAGGCTCACTTTTAACTGAGATAG
1 CCACAAAGGCTCACTTTTAACTGAGATAG
*
50054216 TCACAAAGGCTCACTTTTAACTGAGATAG
1 CCACAAAGGCTCACTTTTAACTGAGATAG
* *
50054245 TCATAAAGG
1 CCACAAAGG
50054254 AATCCTTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
CCACAAAGGCTCACTTTTAACTGAGATAG
Found at i:50054155 original size:58 final size:57
Alignment explanation
Indices: 50054056--50054242 Score: 169
Period size: 58 Copynumber: 3.2 Consensus size: 57
50054046 CAAGACATCT
* * * ** * * * **
50054056 TTATAACAGGGATCGCCGCAAAGGCTTTCTTATAACGGAGATCTCTACAAAGGCTTTC
1 TTATAACAGAGATCACCACAAAGGCTCACTTTTAACTGAGATATC-ACAAAGGCTCAC
* * * *
50054114 TTATAACAAAGATCACCACAAAGGCTCACTTTTAACTGAGATAGCCACAAATGCCCAC
1 TTATAACAGAGATCACCACAAAGGCTCACTTTTAACTGAGATA-TCACAAAGGCTCAC
* *
50054172 TTTTAACTGAGAT-AGCCACAAAGGCTCACTTTTAACTGAGATAGTCACAAAGGCTCAC
1 TTATAACAGAGATCA-CCACAAAGGCTCACTTTTAACTGAGATA-TCACAAAGGCTCAC
* *
50054230 TTTTAACTGAGAT
1 TTATAACAGAGAT
50054243 AGTCATAAAG
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
57 1 0.01
58 105 0.98
59 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (57 bp):
TTATAACAGAGATCACCACAAAGGCTCACTTTTAACTGAGATATCACAAAGGCTCAC
Found at i:50054306 original size:26 final size:26
Alignment explanation
Indices: 50054238--50054313 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
50054228 ACTTTTAACT
* **
50054238 GAGATAGTCATAAAGGAATCCTTTCA
1 GAGATAGCCATAAAGGTGTCCTTTCA
*
50054264 GAGATAGCCACAAAGGTGTCCTTTCA
1 GAGATAGCCATAAAGGTGTCCTTTCA
*
50054290 GAGTTAGCCATAAAGGTGTCCTTT
1 GAGATAGCCATAAAGGTGTCCTTT
50054314 TATGGAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (26 bp):
GAGATAGCCATAAAGGTGTCCTTTCA
Found at i:50054544 original size:39 final size:39
Alignment explanation
Indices: 50054501--50054603 Score: 199
Period size: 39 Copynumber: 2.7 Consensus size: 39
50054491 CAAAGATTCG
50054501 TGTTTTTAGTCCCAACGGACCGCTTTATCTTGAGTTTCA
1 TGTTTTTAGTCCCAACGGACCGCTTTATCTTGAGTTTCA
50054540 TGTTTTTAGTCCCAACGGACCGCTTTATCTTGAGTTTCA
1 TGTTTTTAGTCCCAACGGACCGCTTTATCTTGAGTTTCA
50054579 TGTTTTTAGTCCCAACGGACC-CTTT
1 TGTTTTTAGTCCCAACGGACCGCTTT
50054604 TAGACGACTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.06
39 60 0.94
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (39 bp):
TGTTTTTAGTCCCAACGGACCGCTTTATCTTGAGTTTCA
Found at i:50057517 original size:16 final size:17
Alignment explanation
Indices: 50057496--50057530 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
50057486 TGCAACTACT
50057496 ATAAAA-CAATCTAATA
1 ATAAAACCAATCTAATA
50057512 ATAAAACCAATCTAATA
1 ATAAAACCAATCTAATA
50057529 AT
1 AT
50057531 GACATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAACCAATCTAATA
Found at i:50058004 original size:29 final size:29
Alignment explanation
Indices: 50057958--50058060 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 29
50057948 GTACTCCCTA
* *
50057958 TTATAAGGAACCCCTTGTGGCAATTTCTG
1 TTATAAGGAAACCTTTGTGGCAATTTCTG
* * **
50057987 TTATAAGGAAATCTTTGTAGTTATATT-TG
1 TTATAAGGAAACCTTTGTGGCAAT-TTCTG
* * * *
50058016 TTATAAGGAAGCCTTTGTGGCGATCTCTA
1 TTATAAGGAAACCTTTGTGGCAATTTCTG
* *
50058045 CTATAAGGAAGCCTTT
1 TTATAAGGAAACCTTT
50058061 ATAGAAATCT
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
28 1 0.02
29 55 0.95
30 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (29 bp):
TTATAAGGAAACCTTTGTGGCAATTTCTG
Found at i:50058103 original size:59 final size:58
Alignment explanation
Indices: 50058040--50058152 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 58
50058030 TTGTGGCGAT
*
50058040 CTCTACTATAAGGAA-GCCTTTATAGAAATCTCTGTTAAAAAGGATGCCTTTATGGCTGC
1 CTCTACTA-AAGGAATGCCTTTATAGAAATCTCTGTT-AAAAGGATGCATTTATGGCTGC
* * * * * *
50058099 CTCTATTAAATGAATTCCTTTGTGGCAATCTCTGTTAAAAGGATGCATTTATGG
1 CTCTACTAAAGGAATGCCTTTATAGAAATCTCTGTTAAAAGGATGCATTTATGG
50058153 ATATCTCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 22 0.48
59 24 0.52
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (58 bp):
CTCTACTAAAGGAATGCCTTTATAGAAATCTCTGTTAAAAGGATGCATTTATGGCTGC
Found at i:50058131 original size:29 final size:29
Alignment explanation
Indices: 50058020--50058228 Score: 145
Period size: 29 Copynumber: 7.2 Consensus size: 29
50058010 TATTTGTTAT
* * * *
50058020 AAGGAAGCCTTTGTGGCGATCTCTACTAT
1 AAGGATGCCTTTGTGGCAATCTCTATTAA
* * * * *
50058049 AAGGAAGCCTTTATAGAAATCTCTGTTAAA
1 AAGGATGCCTTTGTGGCAATCTCTATT-AA
* ***
50058079 AAGGATGCCTTTATGGCTGCCTCTATTAA
1 AAGGATGCCTTTGTGGCAATCTCTATTAA
* * * *
50058108 ATGAATTCCTTTGTGGCAATCTCTGTTAA
1 AAGGATGCCTTTGTGGCAATCTCTATTAA
* * *
50058137 AAGGATGCATTTATGG-ATATCTCAATTAA
1 AAGGATGCCTTTGTGGCA-ATCTCTATTAA
*
50058166 AAGGATGCCTTTGTGGCTATCTC-AGTTAA
1 AAGGATGCCTTTGTGGCAATCTCTA-TTAA
* * *
50058195 ATGGATGTCC-TTGTGGCTATCTTTATTAA
1 AAGGATG-CCTTTGTGGCAATCTCTATTAA
50058224 AAGGA
1 AAGGA
50058229 CACCTACGTG
Statistics
Matches: 139, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
28 2 0.01
29 113 0.81
30 24 0.17
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (29 bp):
AAGGATGCCTTTGTGGCAATCTCTATTAA
Found at i:50058165 original size:58 final size:58
Alignment explanation
Indices: 50058066--50058201 Score: 164
Period size: 58 Copynumber: 2.3 Consensus size: 58
50058056 CCTTTATAGA
* * * * * *
50058066 AATCTCTGTTAAAAAGGATGCCTTTATGGCTGCCTCTATTAAATGAATTCCTTTGTGGC
1 AATCTCTGTT-AAAAGGATGCATTTATGGATACCTCAATTAAAAGAATGCCTTTGTGGC
* *
50058125 AATCTCTGTTAAAAGGATGCATTTATGGATATCTCAATTAAAAGGATGCCTTTGTGGC
1 AATCTCTGTTAAAAGGATGCATTTATGGATACCTCAATTAAAAGAATGCCTTTGTGGC
* * *
50058183 TATCTCAGTTAAATGGATG
1 AATCTCTGTTAAAAGGATG
50058202 TCCTTGTGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
58 56 0.85
59 10 0.15
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (58 bp):
AATCTCTGTTAAAAGGATGCATTTATGGATACCTCAATTAAAAGAATGCCTTTGTGGC
Found at i:50059412 original size:51 final size:51
Alignment explanation
Indices: 50059357--50059453 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
50059347 GCTACGTACT
* * *
50059357 TACCAAATTGTCATAGCCT-TTTTCATTTACAGTCTTACGCCATATACCTTA
1 TACCAAACTATCATAGCCTCTTTT-ATCTACAGTCTTACGCCATATACCTTA
** *
50059408 TACCAAACTATCATAGCCTCTTTTATCTATGGTCTTATGCCATATA
1 TACCAAACTATCATAGCCTCTTTTATCTACAGTCTTACGCCATATA
50059454 TTGTCGCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 35 0.90
52 4 0.10
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (51 bp):
TACCAAACTATCATAGCCTCTTTTATCTACAGTCTTACGCCATATACCTTA
Found at i:50067020 original size:11 final size:10
Alignment explanation
Indices: 50067005--50067053 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
50066995 GAAGAGAATT
50067005 GAAAAAAAAA
1 GAAAAAAAAA
50067015 GAAAAAAAAA
1 GAAAAAAAAA
**
50067025 GAAAGTTAAAA
1 GAAA-AAAAAA
* *
50067036 GAACATAAAA
1 GAAAAAAAAA
50067046 GAAAAAAA
1 GAAAAAAA
50067054 TTAAATTGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 25 0.78
11 7 0.22
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:50082076 original size:54 final size:54
Alignment explanation
Indices: 50082018--50082181 Score: 319
Period size: 54 Copynumber: 3.0 Consensus size: 54
50082008 ATATATGAAG
*
50082018 TTCAGAAAAATGATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
1 TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
50082072 TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
1 TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
50082126 TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
1 TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
50082180 TT
1 TT
50082182 GATTTAGAAT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (54 bp):
TTCAGAAAAATTATGAGATGCTACAGGCTAAACGGGTACAATGTGAGTCAGATA
Found at i:50093892 original size:101 final size:102
Alignment explanation
Indices: 50093717--50093919 Score: 383
Period size: 101 Copynumber: 2.0 Consensus size: 102
50093707 GGTAAGTATA
50093717 ATTCTTGTTCAATGAACTTACTAAGCATAAAGTGCTTACCCTGTTTCTTTTTCCCCTGTTTTGTC
1 ATTCTTGTTCAATGAACTTACTAAGCATAAAGTGCTTACCCTGTTTCTTTTTCCCCTGTTTTGTC
50093782 GTGTTAAGAGCTCGGAGGTCGGATTT-GTCAGAGACG
66 GTGTTAAGAGCTCGGAGGTCGGATTTGGTCAGAGACG
50093818 ATTCTTGTT-ACATGAACTTACTAAGCATAAAGTGCTTACCCTGTTTCTTTTTCCCCTGTTTTGT
1 ATTCTTGTTCA-ATGAACTTACTAAGCATAAAGTGCTTACCCTGTTTCTTTTTCCCCTGTTTTGT
50093882 CGTGTTAAGAGCTCGGAGGTCGGATTTGGTCAGAGACG
65 CGTGTTAAGAGCTCGGAGGTCGGATTTGGTCAGAGACG
50093920 TATCACACTA
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
100 1 0.01
101 89 0.89
102 10 0.10
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (102 bp):
ATTCTTGTTCAATGAACTTACTAAGCATAAAGTGCTTACCCTGTTTCTTTTTCCCCTGTTTTGTC
GTGTTAAGAGCTCGGAGGTCGGATTTGGTCAGAGACG
Found at i:50100185 original size:25 final size:26
Alignment explanation
Indices: 50100157--50100210 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
50100147 AAAGTTCATT
50100157 TTTCATTTTCATTTTTATTCTTAC-G
1 TTTCATTTTCATTTTTATTCTTACTG
50100182 TTTCATTTTCATTTTTATTCTTACTG
1 TTTCATTTTCATTTTTATTCTTACTG
50100208 TTT
1 TTT
50100211 ATATTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTCATTTTCATTTTTATTCTTACTG
Found at i:50100261 original size:3 final size:3
Alignment explanation
Indices: 50100255--50100305 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
50100245 ATCATCATCC
50100255 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50100303 TTA
1 TTA
50100306 CAACTTTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50103953 original size:18 final size:19
Alignment explanation
Indices: 50103908--50103958 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
50103898 ATACATCTGA
50103908 ATGCACATATATACTTATC
1 ATGCACATATATACTTATC
**
50103927 ATGTGCATATA-A-TTGATC
1 ATGCACATATATACTT-ATC
50103945 ATGCACATATATAC
1 ATGCACATATATAC
50103959 CAATCACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 2 0.08
18 13 0.52
19 10 0.40
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (19 bp):
ATGCACATATATACTTATC
Found at i:50104031 original size:11 final size:11
Alignment explanation
Indices: 50104015--50104055 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
50104005 TTTATACCTG
50104015 AATACATAGCT
1 AATACATAGCT
**
50104026 AATACATATAT
1 AATACATAGCT
*
50104037 TATACATAGCT
1 AATACATAGCT
50104048 AATACATA
1 AATACATA
50104056 CATTTGAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.32
Consensus pattern (11 bp):
AATACATAGCT
Found at i:50104112 original size:2 final size:2
Alignment explanation
Indices: 50104105--50104129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
50104095 TGAGTACATC
50104105 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
50104130 CTCAAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50104565 original size:41 final size:41
Alignment explanation
Indices: 50104471--50104577 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
50104461 CGGTTTTTAA
* * * * * *
50104471 CCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTAAG
1 CCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCAAG
* * *
50104512 TCTGCTAAACGTAAAGTCTGAATTATTTCACCGGCATCAAG
1 CCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCAAG
* *
50104553 CCTGCTAGACGTAAGGTCTGTATTA
1 CCTGCTAGACGTAAAGTCTGAATTA
50104578 CATTCGATCA
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (41 bp):
CCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCAAG
Found at i:50129477 original size:74 final size:75
Alignment explanation
Indices: 50129364--50129513 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 75
50129354 TTTAAGAATA
50129364 ATCATATTATTCTTAGAACTTTATTACAATTCAATTTATTTATATACACAGAAAAAGAAACTGAA
1 ATCATATTATTCTTAGAACTTTATTACAATTCAATTTATTTATATACACAGAAAAAGAAACTGAA
50129429 TAATAATGAC
66 TAATAATGAC
50129439 ATCATATTATT-TTAGAACTTTATTACAATTCAATTTATTTATATACACAGAAAAAGAAACTGAA
1 ATCATATTATTCTTAGAACTTTATTACAATTCAATTTATTTATATACACAGAAAAAGAAACTGAA
50129503 TAATAATGAC
66 TAATAATGAC
50129513 A
1 A
50129514 ATGCCTTATA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.85
75 11 0.15
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (75 bp):
ATCATATTATTCTTAGAACTTTATTACAATTCAATTTATTTATATACACAGAAAAAGAAACTGAA
TAATAATGAC
Found at i:50135326 original size:21 final size:21
Alignment explanation
Indices: 50135285--50135326 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
50135275 TTTCGATTCG
**
50135285 ATCCAATATTTCTTTTATATT
1 ATCCAATATTTCAGTTATATT
50135306 ATCCAAGTATTTCAGTT-TATT
1 ATCCAA-TATTTCAGTTATATT
50135327 TGCTTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (21 bp):
ATCCAATATTTCAGTTATATT
Found at i:50141222 original size:24 final size:21
Alignment explanation
Indices: 50141182--50141225 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
50141172 ATAAACATTC
50141182 TATTATTTTAATAAGATTTAA
1 TATTATTTTAATAAGATTTAA
50141203 TATTATATTTAATCTAAGATTTA
1 TATTAT-TTTAA--TAAGATTTA
50141226 TCTTGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
24 9 0.45
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTATTTTAATAAGATTTAA
Found at i:50145478 original size:24 final size:24
Alignment explanation
Indices: 50145451--50145498 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
50145441 AAGAATCTTC
* *
50145451 GGTCTAAATGAGGTGGGGAATACT
1 GGTCTAAACGAGGTAGGGAATACT
* *
50145475 GGTCTGACCGAGGTAGGGAATACT
1 GGTCTAAACGAGGTAGGGAATACT
50145499 TGTCCGACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.38, T:0.23
Consensus pattern (24 bp):
GGTCTAAACGAGGTAGGGAATACT
Found at i:50160096 original size:27 final size:27
Alignment explanation
Indices: 50160040--50160265 Score: 307
Period size: 27 Copynumber: 8.4 Consensus size: 27
50160030 GGGTATAACA
* *
50160040 GTCATCTTACCCT-TGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
50160066 GTCATTTTACCCTATAGGGGTATTT-G
1 GTCATTTTACCCTATAGGGGTATTTCG
*
50160092 AGTCATTTTACCCTAT-GGGGTATTTTG
1 -GTCATTTTACCCTATAGGGGTATTTCG
* *
50160119 GTCATTTTTACCCAATAGCGGTATTTCG
1 GTCA-TTTTACCCTATAGGGGTATTTCG
50160147 GTCATTTTACCCTAT-GGGGTTATTTCG
1 GTCATTTTACCCTATAGGGG-TATTTCG
* *
50160174 GTCATTTTACCTTATAGAGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
50160201 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
50160228 GTCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
50160255 GTCATTTTACC
1 GTCATTTTACC
50160266 TATTTTAGGG
Statistics
Matches: 178, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
26 29 0.16
27 133 0.75
28 16 0.09
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:50173008 original size:25 final size:25
Alignment explanation
Indices: 50172980--50173031 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
50172970 TGTAGCTACG
* *
50172980 TTCTGACCCACAACTCGTGTGAGCA
1 TTCTAACCCACAACTCATGTGAGCA
**
50173005 TTCTAATTCACAACTCATGTGAGCA
1 TTCTAACCCACAACTCATGTGAGCA
50173030 TT
1 TT
50173032 TCGATTCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (25 bp):
TTCTAACCCACAACTCATGTGAGCA
Found at i:50173038 original size:25 final size:26
Alignment explanation
Indices: 50172988--50173055 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
50172978 CGTTCTGACC
*
50172988 CACAACTCGTGTGAGCA-TTCTAATT
1 CACAACTCATGTGAGCATTTCTAATT
*
50173013 CACAACTCATGTGAGCATTTC-GATT
1 CACAACTCATGTGAGCATTTCTAATT
* * *
50173038 CACAGCTCTTGGGAGCAT
1 CACAACTCATGTGAGCAT
50173056 ACATATACAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 34 0.92
26 3 0.08
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (26 bp):
CACAACTCATGTGAGCATTTCTAATT
Found at i:50217795 original size:32 final size:32
Alignment explanation
Indices: 50217748--50217812 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
50217738 ATCATGATCC
50217748 GGAAAGACAAATTTATTAGTAGACAAACCTAA
1 GGAAAGACAAATTTATTAGTAGACAAACCTAA
* *
50217780 GGAAAGATAACTTTATTAGTAGACAAACCTAA
1 GGAAAGACAAATTTATTAGTAGACAAACCTAA
50217812 G
1 G
50217813 CATGTCCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.23
Consensus pattern (32 bp):
GGAAAGACAAATTTATTAGTAGACAAACCTAA
Found at i:50222542 original size:18 final size:18
Alignment explanation
Indices: 50222519--50222560 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
50222509 TTTTGTTCGA
*
50222519 TTTTGATAATTTTTATGT
1 TTTTGATAATTTTTACGT
50222537 TTTTGATAATTTTTACGT
1 TTTTGATAATTTTTACGT
50222555 TTTTGA
1 TTTTGA
50222561 GATCGTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.64
Consensus pattern (18 bp):
TTTTGATAATTTTTACGT
Found at i:50223376 original size:44 final size:43
Alignment explanation
Indices: 50223287--50223393 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 43
50223277 CATAGGATTC
*
50223287 CGATATGT-GATTTCGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATAT-TAGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCAT
* *
50223330 CGA-ATTGAGATTTACGTGTAAGACCCTGTCTGGGACAG-TGGTAT
1 CGATATT-AGATTT-CGTGTAAGACCATGTCTGGGA-AGTTGGCAT
*
50223374 CGATATTAGATTTCATGTAA
1 CGATATTAGATTTCGTGTAA
50223394 AACCTCGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
41 1 0.02
42 2 0.04
43 14 0.25
44 34 0.62
45 4 0.07
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTAGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCAT
Found at i:50230020 original size:13 final size:13
Alignment explanation
Indices: 50230002--50230026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50229992 GTCAATTTAT
50230002 GTGTGAAAATTTC
1 GTGTGAAAATTTC
50230015 GTGTGAAAATTT
1 GTGTGAAAATTT
50230027 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:50243876 original size:16 final size:16
Alignment explanation
Indices: 50243855--50243934 Score: 81
Period size: 16 Copynumber: 4.9 Consensus size: 16
50243845 TACACTTGTC
*
50243855 TCACTATCTATCGTTT
1 TCACTATCTATAGTTT
50243871 TCACTATCTATAGTTT
1 TCACTATCTATAGTTT
*
50243887 TCAC-AGTCTATAGTTC
1 TCACTA-TCTATAGTTT
* * *
50243903 TCTCAACCTATAGTTTT
1 TCACTATCTATAG-TTT
*
50243920 TCACGATCTATAGTT
1 TCACTATCTATAGTT
50243935 GTCTTAGTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 1 0.02
16 39 0.74
17 13 0.25
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.45
Consensus pattern (16 bp):
TCACTATCTATAGTTT
Found at i:50244879 original size:29 final size:29
Alignment explanation
Indices: 50244846--50244907 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
50244836 CATAATTTAA
*
50244846 CATAAAAAGTCACAAAT-AGCAAT-AAAGTC
1 CATAAAAA-TC-CAAATCAGAAATAAAAGTC
*
50244875 CATAAAAATCCAAATCATAAATAAAAGTC
1 CATAAAAATCCAAATCAGAAATAAAAGTC
50244904 CATA
1 CATA
50244908 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
28 6 0.21
29 18 0.62
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.19
Consensus pattern (29 bp):
CATAAAAATCCAAATCAGAAATAAAAGTC
Found at i:50255376 original size:25 final size:25
Alignment explanation
Indices: 50255339--50255401 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
50255329 TTACGAGCTG
* *
50255339 TAACGATAAGCTCCTCTGAACTGAA
1 TAACGGTAAGCTCCTCCGAACTGAA
* * *
50255364 TAGCGGTAGGCTCCTCCGATCTGAA
1 TAACGGTAAGCTCCTCCGAACTGAA
50255389 TAACGGTAAGCTC
1 TAACGGTAAGCTC
50255402 ATACGAGCTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (25 bp):
TAACGGTAAGCTCCTCCGAACTGAA
Found at i:50255412 original size:25 final size:25
Alignment explanation
Indices: 50255325--50255413 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
50255315 GAATCAGTAT
* *
50255325 GCTCTTACGAGCTG--TAACGATAA
1 GCTCCTACGAGCTGAATAACGGTAA
* * *
50255348 GCTCCT-CTGAACTGAATAGCGGTAG
1 GCTCCTAC-GAGCTGAATAACGGTAA
* *
50255373 GCTCCTCCGATCTGAATAACGGTAA
1 GCTCCTACGAGCTGAATAACGGTAA
*
50255398 GCTCATACGAGCTGAA
1 GCTCCTACGAGCTGAA
50255414 ATTAATAACC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
22 1 0.02
23 10 0.20
25 39 0.76
26 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCCTACGAGCTGAATAACGGTAA
Found at i:50257366 original size:30 final size:33
Alignment explanation
Indices: 50257330--50257399 Score: 110
Period size: 34 Copynumber: 2.2 Consensus size: 33
50257320 AGGCATACTA
50257330 AATGGAT-ATT-A-GTCGCAACATAGGGAACAG
1 AATGGATGATTAATGTCGCAACATAGGGAACAG
50257360 AATGGATGATTCAATGTCGCAACATAGGGAACAG
1 AATGGATGATT-AATGTCGCAACATAGGGAACAG
50257394 AATGGA
1 AATGGA
50257400 GAAAAATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 7 0.19
31 3 0.08
33 1 0.03
34 25 0.69
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (33 bp):
AATGGATGATTAATGTCGCAACATAGGGAACAG
Found at i:50259544 original size:24 final size:22
Alignment explanation
Indices: 50259501--50259549 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
50259491 ATATATTTTC
50259501 TTATTTAATTTCTTGCTATTTCAT
1 TTATTTAATTTCTT-CTATTT-AT
50259525 TTATTTAATTTTCCTT-TATTTAT
1 TTATTTAA-TTT-CTTCTATTTAT
50259548 TT
1 TT
50259550 TCTTATTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.17
24 13 0.57
25 3 0.13
26 3 0.13
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTAATTTCTTCTATTTAT
Found at i:50264908 original size:27 final size:27
Alignment explanation
Indices: 50264851--50264914 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
50264841 TGGTGAACTG
* * *
50264851 GTGTTAGCCAATAGGTTTGGCGAGCTG
1 GTGTTAGCCAATAGGTCTGGCAAGCTA
*
50264878 GTGTTAGCCAATAGGTCTGGCAAGTTA
1 GTGTTAGCCAATAGGTCTGGCAAGCTA
*
50264905 GTGTTTGCCA
1 GTGTTAGCCA
50264915 CTAAGCCTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (27 bp):
GTGTTAGCCAATAGGTCTGGCAAGCTA
Found at i:50267379 original size:3 final size:3
Alignment explanation
Indices: 50267371--50267429 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
50267361 TATATTTCTA
50267371 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
*
50267419 CAC CAT CAT CA
1 CAT CAT CAT CA
50267430 CAAGAAACCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.34, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:50270302 original size:18 final size:19
Alignment explanation
Indices: 50270276--50270318 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
50270266 TTTGTTTTCG
*
50270276 TTTTCATTTTCATT-TATT
1 TTTTTATTTTCATTCTATT
* *
50270294 TTTTTATTTTCTTTCTCTT
1 TTTTTATTTTCATTCTATT
50270313 TTTTTA
1 TTTTTA
50270319 GAACATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTCATTCTATT
Found at i:50278745 original size:50 final size:50
Alignment explanation
Indices: 50278647--50278752 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
50278637 TATTGAGGTT
* * * * * * *
50278647 ATGAGAGGTCCCACATAAGACCATGTTTGGGACATTGCGTTGGTACCGAG
1 ATGAGAGGTCCCACATAAGACCACGTCTAGGACATGGCATGGGCACCGAG
* *
50278697 ATGAGAGGTCCTC-CGTAAGACCACGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCC-CACATAAGACCACGTCTAGGACATGGCATGGGCACCGAG
50278747 ATGAGA
1 ATGAGA
50278753 ACTCTCATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCACGTCTAGGACATGGCATGGGCACCGAG
Found at i:50279077 original size:16 final size:16
Alignment explanation
Indices: 50279055--50279093 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50279045 GTAAGCAAGT
*
50279055 AAGTAAACAAATAAGA
1 AAGTAAACAAAGAAGA
* *
50279071 GAGTAAATAAAGAAGA
1 AAGTAAACAAAGAAGA
50279087 AAGTAAA
1 AAGTAAA
50279094 GATCATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (16 bp):
AAGTAAACAAAGAAGA
Found at i:50293685 original size:44 final size:44
Alignment explanation
Indices: 50293627--50293736 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
50293617 TAATATAACC
* * * * *
50293627 ATAGATAAAATATAAATTGATATAAAATTTTAAATATATTTTAA
1 ATAGTTAATATATAAATTAATATAAAATTTTAAATACATTGTAA
* *
50293671 ATAGTTAATATATAAATTAATCTAAAATTTTAAATGCATTGTAA
1 ATAGTTAATATATAAATTAATATAAAATTTTAAATACATTGTAA
*
50293715 ATAGTT-AT-TATAAATAAATATA
1 ATAGTTAATATATAAATTAATATA
50293737 TTTTGATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 12 0.21
43 2 0.04
44 43 0.75
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (44 bp):
ATAGTTAATATATAAATTAATATAAAATTTTAAATACATTGTAA
Found at i:50299111 original size:12 final size:11
Alignment explanation
Indices: 50299083--50299112 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
50299073 ATATATTTAT
50299083 TATTTTTAAAA
1 TATTTTTAAAA
50299094 TATTTTTAAAA
1 TATTTTTAAAA
50299105 TACTTTTT
1 TA-TTTTT
50299113 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:50300103 original size:39 final size:40
Alignment explanation
Indices: 50300028--50300150 Score: 167
Period size: 40 Copynumber: 3.0 Consensus size: 40
50300018 TATTTTTTAA
* *
50300028 TTTTAAAATACTTTTATTAAATTTTTTAAATTTT-AAATTT
1 TTTTAAAATACTTTT-TTAATTTTTTTAAATTTTAAAATAT
50300068 TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAT
*
50300108 TTTTAAAATACTTTTTTTAATTTTTATTTTAATTTTTAAAATA
1 TTTTAAAATAC-TTTTTTAA--TTT-TTTTAAATTTTAAAATA
50300151 AATTTTTATT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
39 17 0.23
40 31 0.41
41 8 0.11
43 3 0.04
44 16 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAAATAT
Found at i:50307562 original size:41 final size:43
Alignment explanation
Indices: 50307457--50307562 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
50307447 AGATGTGATT
*
50307457 TCGTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGAGA
1 TCGTGTAAGACCATGTCTGGGACATTGACATCGAAGTGAGAGA
*
50307500 TCGTGTAAGACCATGTCTGGGACATTGACATCGTA-T-ATGAG-
1 TCGTGTAAGACCATGTCTGGGACATTGACATCGAAGTGA-GAGA
* *
50307541 TCGTATAAGACCCTGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGA
50307563 TAGTGGCACC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 21 0.36
42 4 0.07
43 33 0.57
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACATTGACATCGAAGTGAGAGA
Found at i:50312050 original size:16 final size:17
Alignment explanation
Indices: 50312029--50312062 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50312019 ACATACTTAT
50312029 TAGTAA-AAGGTAAATA
1 TAGTAATAAGGTAAATA
50312045 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
50312062 T
1 T
50312063 TAACTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:50312935 original size:42 final size:42
Alignment explanation
Indices: 50312883--50312982 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
50312873 CTATATGAAC
*
50312883 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
50312925 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
50312967 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
50312983 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:50313895 original size:39 final size:39
Alignment explanation
Indices: 50313841--50313919 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
50313831 TAAAGAGAAG
50313841 TATGTGCGGTTTGACATTAGTATGTATAAAATACTTTTA
1 TATGTGCGGTTTGACATTAGTATGTATAAAATACTTTTA
50313880 TATGTGCGGTTTGACATTAGTATGTATAAAATACTTTTA
1 TATGTGCGGTTTGACATTAGTATGTATAAAATACTTTTA
50313919 T
1 T
50313920 TGTATAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (39 bp):
TATGTGCGGTTTGACATTAGTATGTATAAAATACTTTTA
Found at i:50320849 original size:40 final size:41
Alignment explanation
Indices: 50320793--50320873 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
50320783 AAATTAGTTC
*
50320793 ATGGTTTCATATTTGATATTTAAGTTTTGCAAGCTCGAATA
1 ATGGTTACATATTTGATATTTAAGTTTTGCAAGCTCGAATA
50320834 ATGGTTACAT-TTTGATATTTAAGTTTTGCAAGCTCGAATA
1 ATGGTTACATATTTGATATTTAAGTTTTGCAAGCTCGAATA
50320874 TGTATATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 30 0.77
41 9 0.23
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (41 bp):
ATGGTTACATATTTGATATTTAAGTTTTGCAAGCTCGAATA
Found at i:50327425 original size:18 final size:19
Alignment explanation
Indices: 50327393--50327443 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
50327383 TATGAGTGAA
* *
50327393 TAAAAGCAAATTGAGA-GT
1 TAAAAGCATAGTGAGAGGT
*
50327411 TAAGAGCATAGTGAGAGGT
1 TAAAAGCATAGTGAGAGGT
*
50327430 TAAAAGCATTGTGA
1 TAAAAGCATAGTGA
50327444 CTGAAATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.43, C:0.06, G:0.27, T:0.24
Consensus pattern (19 bp):
TAAAAGCATAGTGAGAGGT
Found at i:50341533 original size:52 final size:52
Alignment explanation
Indices: 50341461--50341577 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 52
50341451 GTACATAGTA
* *
50341461 CTTGCTAAATAATCACCGGCTCAAAGCCTGTTAAAAAATCACCAGCCT-AAAG
1 CTTGCTAAATAAACACCGGCTCAAAGCCTGCTAAAAAATCACC-GCCTCAAAG
* * * * * * *
50341513 CTTGCTAACTAAACATCGGCTCAAGGTCTGCTAAATAATCACCGGCTCAAGG
1 CTTGCTAAATAAACACCGGCTCAAAGCCTGCTAAAAAATCACCGCCTCAAAG
50341565 CTTGCTAAATAAA
1 CTTGCTAAATAAA
50341578 GTACATCCCG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (52 bp):
CTTGCTAAATAAACACCGGCTCAAAGCCTGCTAAAAAATCACCGCCTCAAAG
Found at i:50341574 original size:26 final size:26
Alignment explanation
Indices: 50341461--50341576 Score: 119
Period size: 26 Copynumber: 4.5 Consensus size: 26
50341451 GTACATAGTA
50341461 CTTGCTAAATAATCACCGGCTCAAAG
1 CTTGCTAAATAATCACCGGCTCAAAG
* * * *
50341487 CCTGTTAAAAAATCACCAGC-CTAAAG
1 CTTGCTAAATAATCACCGGCTC-AAAG
* * *
50341513 CTTGCTAACTAAACATCGGCTC-AAG
1 CTTGCTAAATAATCACCGGCTCAAAG
* *
50341538 GTCTGCTAAATAATCACCGGCTCAAGG
1 CT-TGCTAAATAATCACCGGCTCAAAG
50341565 CTTGCTAAATAA
1 CTTGCTAAATAA
50341577 AGTACATCCC
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
25 5 0.07
26 60 0.87
27 4 0.06
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (26 bp):
CTTGCTAAATAATCACCGGCTCAAAG
Found at i:50355499 original size:26 final size:24
Alignment explanation
Indices: 50355462--50355509 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
50355452 CAAGTACTTT
50355462 GTTTTTCTTTTGTGTTTGTGTTTTTG
1 GTTTTTCTTTTGT-TTT-TGTTTTTG
50355488 GTTTTTAC-TTTGTTTTTGTTTT
1 GTTTTT-CTTTTGTTTTTGTTTT
50355510 GCTTGCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 11 0.52
27 1 0.05
ACGTcount: A:0.02, C:0.04, G:0.19, T:0.75
Consensus pattern (24 bp):
GTTTTTCTTTTGTTTTTGTTTTTG
Found at i:50357536 original size:41 final size:41
Alignment explanation
Indices: 50357479--50357580 Score: 105
Period size: 41 Copynumber: 2.5 Consensus size: 41
50357469 TGATAATTGG
* * * ** *
50357479 GCTTTTAGCTTAGCAGGCTTTATGCCGGTAAATTATTTCAA
1 GCTTTAAGCCTAGCAGGCTTAATGCCGGTAAACCATATCAA
* * ** *
50357520 GCTTTACGCCTAGCAGGCTTAATGCGGGTGTACCATATCAG
1 GCTTTAAGCCTAGCAGGCTTAATGCCGGTAAACCATATCAA
50357561 GCTTTAAGCCTAGCAGGCTT
1 GCTTTAAGCCTAGCAGGCTT
50357581 CGTGCCCATG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
GCTTTAAGCCTAGCAGGCTTAATGCCGGTAAACCATATCAA
Found at i:50359638 original size:19 final size:19
Alignment explanation
Indices: 50359602--50359643 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
50359592 GTTTTAGTTG
*
50359602 ATTA-AATTAATTATATGT
1 ATTATAATTAATTACATGT
*
50359620 ATTATAATTAATTGCATGT
1 ATTATAATTAATTACATGT
*
50359639 GTTAT
1 ATTAT
50359644 GATTTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTATAATTAATTACATGT
Found at i:50370674 original size:16 final size:16
Alignment explanation
Indices: 50370649--50370681 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50370639 CATGAAAATC
*
50370649 TGAATCAGTTTTCATT
1 TGAATAAGTTTTCATT
50370665 TGAATAAGTTTTCATT
1 TGAATAAGTTTTCATT
50370681 T
1 T
50370682 AGAAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (16 bp):
TGAATAAGTTTTCATT
Found at i:50375971 original size:12 final size:13
Alignment explanation
Indices: 50375954--50375982 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
50375944 CTCATACATG
50375954 AATAAATAAA-GC
1 AATAAATAAATGC
50375966 AATAAATAAATGC
1 AATAAATAAATGC
50375979 AATA
1 AATA
50375983 GTTATAGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:50389421 original size:20 final size:21
Alignment explanation
Indices: 50389396--50389443 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
50389386 TGAGTTATTT
*
50389396 AAGTAAGCAG-GTAAGTAAAC
1 AAGTAAGCAGAATAAGTAAAC
*
50389416 AAGTAAG-AGAATAAGTAAAG
1 AAGTAAGCAGAATAAGTAAAC
50389436 AAG-AAGCA
1 AAGTAAGCA
50389444 AAGAATATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGTAAGCAGAATAAGTAAAC
Found at i:50396747 original size:50 final size:50
Alignment explanation
Indices: 50396692--50396831 Score: 147
Period size: 50 Copynumber: 2.8 Consensus size: 50
50396682 TATTGAGATT
* * *
50396692 ATGAGAGGTCCCACGTAACACCATGTCTGGGACATGGCGTTGACACCGAG
1 ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGGCATGGACACCGAG
* * *
50396742 ATGAGAGGTTCCC-CGTAAAACCATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGG-TCCCACGTAAAACCATGTCTGGGACATGGCATGGACACCGAG
** * * * * *
50396792 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCAT
1 ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGGCAT
50396832 TTGCAGTATA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 67 0.91
51 4 0.05
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGGCATGGACACCGAG
Found at i:50400018 original size:41 final size:41
Alignment explanation
Indices: 50399901--50400045 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 41
50399891 TCAATGATAT
* * * * * ***
50399901 TCAGGCTCTGTGCCTAGCAGGCTTTATGCCGGTGAATTGTA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCAGTGTACCATA
* * *
50399942 GCAGACTTTATGCCTAGCAGGCTTCATGCCGGTGTACCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCAGTGTACCATA
* *
50399983 TCAGGCTTTATGCCTAGCAGGCTTCGTGCCAGTGTATCATA
1 TCAGGCTTTATGCCTAGCAGGCTTCATGCCAGTGTACCATA
* * *
50400024 TCTGGCTTTGTGCCTAGAAGGC
1 TCAGGCTTTATGCCTAGCAGGC
50400046 CTTATGTTGG
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTCATGCCAGTGTACCATA
Found at i:50405092 original size:17 final size:17
Alignment explanation
Indices: 50405066--50405105 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
50405056 AGATTATCGA
* *
50405066 AAGCTTGATCAGTTTGG
1 AAGCTCGATCAATTTGG
50405083 AAGCTCGATCAATTTGG
1 AAGCTCGATCAATTTGG
50405100 AAGCTC
1 AAGCTC
50405106 ATCGAAGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (17 bp):
AAGCTCGATCAATTTGG
Found at i:50408394 original size:18 final size:18
Alignment explanation
Indices: 50408373--50408409 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50408363 AATCCACCTG
50408373 ACCCAACTAAAGTAACAC
1 ACCCAACTAAAGTAACAC
50408391 ACCCAACTAAAGTAACAC
1 ACCCAACTAAAGTAACAC
50408409 A
1 A
50408410 AATCCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.32, G:0.05, T:0.11
Consensus pattern (18 bp):
ACCCAACTAAAGTAACAC
Found at i:50408972 original size:19 final size:20
Alignment explanation
Indices: 50408948--50408997 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
50408938 TACGAGATTG
50408948 CACTTTGGTGCCCCTG-TTA
1 CACTTTGGTGCCCCTGTTTA
* *
50408967 CACTTTGGTGTCTCTGTTTA
1 CACTTTGGTGCCCCTGTTTA
*
50408987 CACTTCGGTGC
1 CACTTTGGTGC
50408998 ATCTGTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.10, C:0.28, G:0.22, T:0.40
Consensus pattern (20 bp):
CACTTTGGTGCCCCTGTTTA
Found at i:50408989 original size:20 final size:19
Alignment explanation
Indices: 50408948--50409005 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
50408938 TACGAGATTG
*
50408948 CACTTTGGTGCCCCTG-TTA
1 CACTTTGGTG-CTCTGTTTA
50408967 CACTTTGGTGTCTCTGTTTA
1 CACTTTGGTG-CTCTGTTTA
*
50408987 CACTTCGGTGCATCTGTTT
1 CACTTTGGTGC-TCTGTTT
50409006 TGCATCTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.43
Consensus pattern (19 bp):
CACTTTGGTGCTCTGTTTA
Found at i:50419774 original size:20 final size:20
Alignment explanation
Indices: 50419749--50419814 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
50419739 CACATACGTG
50419749 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * **
50419769 CCCCTGAATGCACATAC-GCC
1 CCCCTGTTTGTAC-TTCGGTA
50419789 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
50419809 CCCCTG
1 CCCCTG
50419815 AATACACATA
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.14, C:0.38, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:50419777 original size:40 final size:40
Alignment explanation
Indices: 50419733--50419933 Score: 267
Period size: 40 Copynumber: 5.0 Consensus size: 40
50419723 TGAATATTAT
50419733 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
**
50419773 TGAATGCACATACGCCCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** *
50419813 TGAATACACATACACGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
50419853 TGAATGCACATACGTTCCCCTATTTGTACTTTGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
50419893 TGAATGCACATACATGCCCTTGTTTGTTCTTTGGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
50419933 T
1 T
50419934 AAATCAAATA
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:50423584 original size:50 final size:50
Alignment explanation
Indices: 50423492--50423682 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
50423482 ATTTGGGTAA
* *
50423492 AGAGGTCCCATGTAAGACCATGTCCGGGACATGGCGTTGGCA-CTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCT-AGATG
** * *
50423542 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
** * * * * * *
50423592 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
* ** * * *
50423641 AAACATCCCATGTAAGACAATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
50423683 TGTTATATTC
Statistics
Matches: 114, Mismatches: 26, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
49 37 0.32
50 75 0.66
51 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTAGATG
Found at i:50429336 original size:16 final size:16
Alignment explanation
Indices: 50429309--50429363 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 16
50429299 AACATAATGC
50429309 AAAATATAATATGAAAT
1 AAAAT-TAATATGAAAT
50429326 AAAATTAATATGAGAA-
1 AAAATTAATATGA-AAT
*
50429342 ATAAACTAATATGAACAT
1 A-AAATTAATATGAA-AT
50429360 AAAA
1 AAAA
50429364 CATGTCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 10 0.30
17 22 0.67
18 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (16 bp):
AAAATTAATATGAAAT
Found at i:50430815 original size:3 final size:3
Alignment explanation
Indices: 50430807--50430861 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
50430797 TATGTCTACT
50430807 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50430855 ATA ATA A
1 ATA ATA A
50430862 ATAGAGTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50431280 original size:23 final size:22
Alignment explanation
Indices: 50431228--50431292 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
50431218 GCCTAGATTT
*
50431228 TATATATTTTTTAATTATTAAA
1 TATATATTTTATAATTATTAAA
*
50431250 TAAAATATTATTATAATT-TTAAAA
1 T-ATATATT-TTATAATTATT-AAA
50431274 TATATATTTATACTAATTA
1 TATATATTT-TA-TAATTA
50431293 AATGTGGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 2 0.06
23 16 0.47
24 16 0.47
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATATTTTATAATTATTAAA
Found at i:50433529 original size:23 final size:23
Alignment explanation
Indices: 50433494--50433537 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50433484 AAAATCATTA
50433494 AAATTGTAAAAAAAAAGTTAATT
1 AAATTGTAAAAAAAAAGTTAATT
* * *
50433517 AAATTTTATAAAAAATGTTAA
1 AAATTGTAAAAAAAAAGTTAA
50433538 AATTTATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATTGTAAAAAAAAAGTTAATT
Found at i:50436281 original size:55 final size:55
Alignment explanation
Indices: 50436216--50436335 Score: 240
Period size: 55 Copynumber: 2.2 Consensus size: 55
50436206 TGCTATTTTA
50436216 TTTTACTTATTTTAACTTTTATATATCATTACTATATACTATAATTTACATTAGG
1 TTTTACTTATTTTAACTTTTATATATCATTACTATATACTATAATTTACATTAGG
50436271 TTTTACTTATTTTAACTTTTATATATCATTACTATATACTATAATTTACATTAGG
1 TTTTACTTATTTTAACTTTTATATATCATTACTATATACTATAATTTACATTAGG
50436326 TTTTACTTAT
1 TTTTACTTAT
50436336 ATAAATCGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (55 bp):
TTTTACTTATTTTAACTTTTATATATCATTACTATATACTATAATTTACATTAGG
Found at i:50439390 original size:3 final size:3
Alignment explanation
Indices: 50439382--50439410 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50439372 ATCTATCATT
50439382 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50439411 TAACTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50447635 original size:6 final size:6
Alignment explanation
Indices: 50447624--50447675 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
50447614 AAAGGGAAGA
* ** ** *
50447624 AAAATC AAAATC AAAATC GAAAGA AAAAAG AAAATC AAAATC AAAGTC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
50447672 AAAA
1 AAAA
50447676 AATGAAAATG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:50447664 original size:24 final size:23
Alignment explanation
Indices: 50447620--50447684 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
50447610 AAAAAAAGGG
**
50447620 AAGAAAAATCAAAATCAAAATCGA
1 AAGAAAAAAGAAAATCAAAATC-A
50447644 AAGAAAAAAGAAAATCAAAATCA
1 AAGAAAAAAGAAAATCAAAATCA
50447667 AAGTCAAAAAATGAAAAT
1 AAG--AAAAAA-GAAAAT
50447685 GAAAGAGGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 4 0.11
24 20 0.56
25 6 0.17
26 6 0.17
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.12
Consensus pattern (23 bp):
AAGAAAAAAGAAAATCAAAATCA
Found at i:50448615 original size:15 final size:15
Alignment explanation
Indices: 50448597--50448643 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
50448587 AAAAATAAAA
50448597 AAAATGTGAAAAATG
1 AAAATGTGAAAAATG
50448612 AAAA--TGAAAAATG
1 AAAATGTGAAAAATG
*
50448625 AAAAATG-AAAAAATG
1 -AAAATGTGAAAAATG
50448640 AAAA
1 AAAA
50448644 AGGAAATGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 9 0.32
14 8 0.29
15 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (15 bp):
AAAATGTGAAAAATG
Found at i:50448621 original size:22 final size:21
Alignment explanation
Indices: 50448603--50448649 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
50448593 AAAAAAAATG
50448603 TGAAAAATG-AAAATGAAAAA
1 TGAAAAATGAAAAATGAAAAA
50448623 TGAAAAATGAAAAAATGAAAAA
1 TGAAAAATG-AAAAATGAAAAA
*
50448645 GGAAA
1 TGAAA
50448650 TGGAGAGGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (21 bp):
TGAAAAATGAAAAATGAAAAA
Found at i:50448643 original size:6 final size:7
Alignment explanation
Indices: 50448603--50448649 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
50448593 AAAAAAAATG
50448603 TGAAAAA
1 TGAAAAA
50448610 TG-AAAA
1 TGAAAAA
50448616 TGAAAAA
1 TGAAAAA
50448623 TGAAAAA
1 TGAAAAA
50448630 TGAAAAAA
1 TG-AAAAA
50448638 TGAAAAA
1 TGAAAAA
*
50448645 GGAAA
1 TGAAA
50448650 TGGAGAGGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 6 0.16
7 24 0.65
8 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (7 bp):
TGAAAAA
Found at i:50448644 original size:15 final size:15
Alignment explanation
Indices: 50448605--50448649 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
50448595 AAAAAATGTG
50448605 AAAAATG-AAAATG-
1 AAAAATGAAAAATGA
50448618 AAAAATGAAAAATGA
1 AAAAATGAAAAATGA
*
50448633 AAAAATGAAAAAGGA
1 AAAAATGAAAAATGA
50448648 AA
1 AA
50448650 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
15 16 0.55
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAATGA
Found at i:50450217 original size:132 final size:132
Alignment explanation
Indices: 50449980--50450764 Score: 645
Period size: 128 Copynumber: 6.0 Consensus size: 132
50449970 GGAGCAGGTT
* * *
50449980 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGATTACATTAAAGCCAGTAATTCTATCTCCTT
1 GATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
*
50450045 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCG
50450110 AA
131 AA
* * *
50450112 GATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACGTTGAAGCTAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
* * *
50450177 GGTTGACAGCT-GAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCTGTAGTGGAGCACATC
66 GGTTGGCAG-TGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATC
50450241 GAA
130 GAA
* * *
50450244 GATGGCGGATTTTACCTCCCTATGGTTACAATGGAGTACATTAAAGCCAGTAATTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
* *
50450309 GGTTGGCAGTGGAATAGATTGGAA-ATTACAGATCTTATCTCGCTAAGCAGTAGCGGAGCAAATC
66 GGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATC
50450373 GAA
130 GAA
* * * * * * * * * * *
50450376 AACGAGCA-ATCTTATCT-TC-A-GG--AGTAG-GGAAGCAGATTTAAGCC-GCTAGTCCTATCT
1 GATG-GCAGATTTTACCTCCCTATGGTTA-CAGTGG-AGTACATTAAAGCCAG-TAATTCTATCT
* * * *
50450433 CCCTGGTTAGCAGTGGAATAGGTTGGAA-ATTACAGATCTTATCTCCCTAAGTAGTAGCGGAGCA
62 CCCTGGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
*
50450497 GATCGAA
126 AATCGAA
* * * * * * * * * * *
50450504 GACGGC-GAATCTTATCT-TC-AGGGGT--AG-GGAAGCAGATTTAAGCC-GCTAGTCCTATCTC
1 GATGGCAG-ATTTTACCTCCCTATGGTTACAGTGG-AGTACATTAAAGCCAG-TAATTCTATCTC
* * *** * * * *
50450562 TCGGGTCAACAGTGGAATAGGTTGGAA-ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAG
63 CCTGGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAA
50450626 ATCGAA
127 ATCGAA
* * * * * * * * *
50450632 GATGGC-GAATCTTATCT-TC-AAGAG-T--AG-GGAAGCAGATTTAAGCC-GCTAGTCCTATCT
1 GATGGCAG-ATTTTACCTCCCTATG-GTTACAGTGG-AGTACATTAAAGCCAG-TAATTCTATCT
* * * *
50450689 CCCTGGTTAGCAGTGGAATAGGTTGGAA-ATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCA
62 CCCTGGTTGGCAGTGGAATAGATT-GAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
*
50450753 GATCGAA
126 AATCGAA
50450760 GATGG
1 GATGG
50450765 TGAATCTTAT
Statistics
Matches: 588, Mismatches: 52, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
127 6 0.01
128 323 0.55
129 5 0.01
130 1 0.00
131 2 0.00
132 245 0.42
133 6 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
GGTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCG
AA
Found at i:50450461 original size:128 final size:128
Alignment explanation
Indices: 50450300--50451059 Score: 1171
Period size: 128 Copynumber: 5.9 Consensus size: 128
50450290 CCAGTAATTT
** * *
50450300 TATCTCCCTGGTTGGCAGTGGAATAGATTGGAAATTACAGATCTTATCTCGCTAAGCAGTAGCGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * *
50450365 AGCAAATCGAAAACGAGC-AATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
66 AGCAGATCGAAGACG-GCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
* *
50450428 TATCTCCCTGGTTAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGTAGTAGCGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* *
50450493 AGCAGATCGAAGACGGCGAATCTTATCTTCAGGGGTAGGGAAGCAGATTTAAGCCGCTAGTCC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
* * * *
50450556 TATCTCTCGGGTCAACAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
*
50450621 AGCAGATCGAAGATGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
* *
50450684 TATCTCCCTGGTTAGCAGTGGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * * *
50450749 AGCAGATCGAAGATGGTGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCACAAGTCC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
* * * *
50450812 TATCTCTCTGGTCAACAGTAGAATAGGTTGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * * *
50450877 AGCAGATCGAATATGGCGAATCTTATTTTCAAGAGTAGGGAAGTAGATTTAAGCCGCTAGTCC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
* *
50450940 TATCTCCCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
* * * * *
50451005 AGCATATCGAACACGACGAATCTTATCTTCAGGAGTAGGGAAGTAGATTTAAGCC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCC
50451060 ACAAATCTAT
Statistics
Matches: 586, Mismatches: 45, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
127 2 0.00
128 584 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (128 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGG
AGCAGATCGAAGACGGCGAATCTTATCTTCAAGAGTAGGGAAGCAGATTTAAGCCGCTAGTCC
Found at i:50457921 original size:67 final size:67
Alignment explanation
Indices: 50457793--50457921 Score: 152
Period size: 67 Copynumber: 1.9 Consensus size: 67
50457783 GATTACGAGG
* ** * * **
50457793 TGTAAGACCATAGCTCGGCTATGGCAACCAATGGAGTTGACTAGGACATTAATCATGGGGTATAT
1 TGTAAGACCATAGCTCGGCTATGACAACCAATGGAGTCCACTAGGACACTAAACACAGGGTATAT
50457858 TA
66 TA
* * *
50457860 TGTAAGACCATAGCTCGGCTATGAC-AGCATATGGAGTCCATTAGGGCACTAAACACAGGGTA
1 TGTAAGACCATAGCTCGGCTATGACAACCA-ATGGAGTCCACTAGGACACTAAACACAGGGTA
50457922 GTGTGCTAGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
66 3 0.06
67 48 0.94
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (67 bp):
TGTAAGACCATAGCTCGGCTATGACAACCAATGGAGTCCACTAGGACACTAAACACAGGGTATAT
TA
Found at i:50458059 original size:27 final size:27
Alignment explanation
Indices: 50457901--50458059 Score: 124
Period size: 27 Copynumber: 5.9 Consensus size: 27
50457891 TGGAGTCCAT
* * *
50457901 TAGGGCACTAAACACAGGGTAGTGTGC
1 TAGGACACTAAACACAGGGTAGTCTGG
* ***
50457928 TAGGAGACTAAACACATAATAGT-TGG
1 TAGGACACTAAACACAGGGTAGTCTGG
* ***
50457954 TAGGGACACTAAACACAGGGTAGCCCAT
1 TA-GGACACTAAACACAGGGTAGTCTGG
* * *
50457982 TGGGACACTAAACACGGGGTAG-CTCGT
1 TAGGACACTAAACACAGGGTAGTCT-GG
* *
50458009 TGGGACACTAAACACAAGGTAGTCTGG
1 TAGGACACTAAACACAGGGTAGTCTGG
* *
50458036 TAGGATACTAAACACGGGGTAGTC
1 TAGGACACTAAACACAGGGTAGTC
50458060 CTCCAACACA
Statistics
Matches: 103, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 5 0.05
27 95 0.92
28 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (27 bp):
TAGGACACTAAACACAGGGTAGTCTGG
Found at i:50460038 original size:31 final size:29
Alignment explanation
Indices: 50460003--50460060 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
50459993 AATAGTCTTT
*
50460003 TATT-AATTTAATATTAATGTGATTATCTTAA
1 TATTAAATTAAAT-TTAATGT--TTATCTTAA
50460034 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTTAATGTTTATCTT
50460061 GTAGATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 7 0.28
31 11 0.44
32 7 0.28
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (29 bp):
TATTAAATTAAATTTAATGTTTATCTTAA
Found at i:50462899 original size:47 final size:47
Alignment explanation
Indices: 50462830--50462920 Score: 173
Period size: 47 Copynumber: 1.9 Consensus size: 47
50462820 CCAATTGTTA
50462830 TGCTACATTATGCCTAGTTCTCTTGACTTGATCCTTAAATTATCCTT
1 TGCTACATTATGCCTAGTTCTCTTGACTTGATCCTTAAATTATCCTT
*
50462877 TGCTACATTATGCCTTGTTCTCTTGACTTGATCCTTAAATTATC
1 TGCTACATTATGCCTAGTTCTCTTGACTTGATCCTTAAATTATC
50462921 ATTTATTGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (47 bp):
TGCTACATTATGCCTAGTTCTCTTGACTTGATCCTTAAATTATCCTT
Found at i:50475473 original size:147 final size:148
Alignment explanation
Indices: 50475195--50475489 Score: 583
Period size: 147 Copynumber: 2.0 Consensus size: 148
50475185 GTTTCACTTT
50475195 CTGTGTGTGTAAAATAAAATAATTTATAACAATGTCCCATGAATAATATGATTATTCTTAAAAGG
1 CTGTGTGTGTAAAATAAAATAATTTATAACAATGTCCCATGAATAATATGATTATTCTTAAAAGG
50475260 TCCTTAGTCAAGTATTATTGTGGGCTTGGACAACTATAATTCATCAAGACTAATATGTAGTTGAT
66 TCCTTAGTCAAGTATTATTGTGGGCTTGGACAACTATAATTCATCAAGACTAATATGTAGTTGAT
50475325 TGATGACAAAGTGTTGTC
131 TGATGACAAAGTGTTGTC
50475343 CTGTGTGTGT-AAATAAAATAATTTATAACAATGTCCCATGAATAATATGATTATTCTTAAAAGG
1 CTGTGTGTGTAAAATAAAATAATTTATAACAATGTCCCATGAATAATATGATTATTCTTAAAAGG
50475407 TCCTTAGTCAAGTATTATTGTGGGCTTGGACAACTATAATTCATCAAGACTAATATGTAGTTGAT
66 TCCTTAGTCAAGTATTATTGTGGGCTTGGACAACTATAATTCATCAAGACTAATATGTAGTTGAT
50475472 TGATGACAAAGTGTTGTC
131 TGATGACAAAGTGTTGTC
50475490 ATTGACATAG
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
147 137 0.93
148 10 0.07
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (148 bp):
CTGTGTGTGTAAAATAAAATAATTTATAACAATGTCCCATGAATAATATGATTATTCTTAAAAGG
TCCTTAGTCAAGTATTATTGTGGGCTTGGACAACTATAATTCATCAAGACTAATATGTAGTTGAT
TGATGACAAAGTGTTGTC
Found at i:50478725 original size:20 final size:19
Alignment explanation
Indices: 50478670--50478730 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 19
50478660 GCTCAAGTAC
50478670 ATTTTATTTTTCTTGCATGTTT
1 ATTTTATTTTT-TT-CAT-TTT
50478692 A-TTTATTGTTTTTCATTTT
1 ATTTTATT-TTTTTCATTTT
50478711 AGTTTTATTTTTTTCATTTT
1 A-TTTTATTTTTTTCATTTT
50478731 TTTAGGCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.11
20 14 0.39
21 14 0.39
22 4 0.11
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (19 bp):
ATTTTATTTTTTTCATTTT
Found at i:50478731 original size:21 final size:20
Alignment explanation
Indices: 50478670--50478731 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
50478660 GCTCAAGTAC
*
50478670 ATTTTATTTTTCTTGCATGTTT
1 ATTTTATTTTT-TT-CATTTTT
50478692 A-TTTATTGTTTTTCA-TTTT
1 ATTTTATT-TTTTTCATTTTT
50478711 AGTTTTATTTTTTTCATTTTT
1 A-TTTTATTTTTTTCATTTTT
50478732 TTAGGCAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.11
20 9 0.26
21 18 0.51
22 4 0.11
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (20 bp):
ATTTTATTTTTTTCATTTTT
Found at i:50479093 original size:14 final size:14
Alignment explanation
Indices: 50479074--50479101 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50479064 TAAAGTTATA
50479074 TTTAATAATTCATT
1 TTTAATAATTCATT
50479088 TTTAATAATTCATT
1 TTTAATAATTCATT
50479102 AATAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:50480288 original size:25 final size:26
Alignment explanation
Indices: 50480260--50480315 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
50480250 TAAAATGGTA
50480260 ATTTTACCC-CAAGGGTATTCTT-GTC
1 ATTTTACCCTCAAGGGTATT-TTAGTC
*
50480285 ATTTTACCCTTCGAGGGTATTTTAGTC
1 ATTTTACCC-TCAAGGGTATTTTAGTC
50480312 ATTT
1 ATTT
50480316 AACAACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 9 0.33
26 2 0.07
27 16 0.59
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTCAAGGGTATTTTAGTC
Found at i:50487285 original size:20 final size:20
Alignment explanation
Indices: 50487260--50487297 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50487250 GTTTTTCTAG
50487260 TTTAAATTATTT-TGTTAAAT
1 TTTAAATT-TTTATGTTAAAT
50487280 TTTAAATTTTTATGTTAA
1 TTTAAATTTTTATGTTAA
50487298 TAAAAGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTTATGTTAAAT
Found at i:50491377 original size:7 final size:7
Alignment explanation
Indices: 50491365--50491416 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
50491355 ACTTTTTCAA
50491365 TCATCCC
1 TCATCCC
50491372 TCATCCC
1 TCATCCC
50491379 TCATCCC
1 TCATCCC
50491386 TCATCCCTC
1 TCAT-CC-C
*
50491395 TCATCTC
1 TCATCCC
50491402 TCAT-CC
1 TCATCCC
50491408 TC-TCCC
1 TCATCCC
50491414 TCA
1 TCA
50491417 ACTCTCTTAG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 1 0.03
6 7 0.18
7 23 0.59
8 3 0.08
9 5 0.13
ACGTcount: A:0.13, C:0.54, G:0.00, T:0.33
Consensus pattern (7 bp):
TCATCCC
Found at i:50491389 original size:21 final size:20
Alignment explanation
Indices: 50491365--50491416 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 20
50491355 ACTTTTTCAA
50491365 TCATCCCTCATCCCTCATCCC
1 TCATCCCTCATCCCTCAT-CC
*
50491386 TCATCCCTCTCATCTCTCATCC
1 TCAT-CC-CTCATCCCTCATCC
50491408 TC-TCCCTCA
1 TCATCCCTCA
50491417 ACTCTCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 5 0.18
22 6 0.21
23 11 0.39
ACGTcount: A:0.13, C:0.54, G:0.00, T:0.33
Consensus pattern (20 bp):
TCATCCCTCATCCCTCATCC
Found at i:50491423 original size:28 final size:30
Alignment explanation
Indices: 50491365--50491433 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 30
50491355 ACTTTTTCAA
* *
50491365 TCATCCCTCATCCCTCATCCCTCATCCCTC
1 TCATCTCTCATCCCTCATCCCTCAACCCTC
*
50491395 TCATCTCTCAT-CCTC-TCCCTCAACTCTC
1 TCATCTCTCATCCCTCATCCCTCAACCCTC
* *
50491423 TTAGCTCTCAT
1 TCATCTCTCAT
50491434 GCCTATCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 20 0.59
29 4 0.12
30 10 0.29
ACGTcount: A:0.14, C:0.49, G:0.01, T:0.35
Consensus pattern (30 bp):
TCATCTCTCATCCCTCATCCCTCAACCCTC
Found at i:50505718 original size:17 final size:17
Alignment explanation
Indices: 50505690--50505740 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
50505680 TTCCTAATTG
*
50505690 GTTTATTGATTTAGTTT
1 GTTTATTTATTTAGTTT
* *
50505707 GTTTGTTTATTT-TTCTT
1 GTTTATTTATTTAGT-TT
50505724 GTTTATTTATTTTAGTT
1 GTTTATTTA-TTTAGTT
50505741 ATTTAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 4 0.15
19 1 0.04
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.71
Consensus pattern (17 bp):
GTTTATTTATTTAGTTT
Done.