Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 192 of 206
Found at i:58140936 original size:20 final size:21
Alignment explanation
Indices: 58140911--58140950 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
58140901 ATTTTTTTTA
58140911 TAAAATT-TGAAAA-AAATTAT
1 TAAAATTAT-AAAATAAATTAT
58140931 TAAAATTATAAAATAAATTA
1 TAAAATTATAAAATAAATTA
58140951 GATATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAAAATTATAAAATAAATTAT
Found at i:58141513 original size:21 final size:21
Alignment explanation
Indices: 58141487--58141529 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58141477 ACATTAACCC
* *
58141487 TAACTTTAGTATGGAATGAAT
1 TAACTTGAGTATGGAATAAAT
58141508 TAACTTGAGTATGGAATAAAT
1 TAACTTGAGTATGGAATAAAT
58141529 T
1 T
58141530 GATTGGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.37
Consensus pattern (21 bp):
TAACTTGAGTATGGAATAAAT
Found at i:58142522 original size:2 final size:2
Alignment explanation
Indices: 58142517--58142554 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
58142507 TATATGTGTA
58142517 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58142555 GCATTTGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58147291 original size:2 final size:2
Alignment explanation
Indices: 58147286--58147325 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
58147276 AGGCATGTGC
*
58147286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58147326 TCATTAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:58148028 original size:23 final size:22
Alignment explanation
Indices: 58147985--58148042 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
58147975 AAAAGGTATC
* *
58147985 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
58148006 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
58148029 TGCATATCATATCT
1 TACAAATCATATCT
58148043 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:58149095 original size:16 final size:16
Alignment explanation
Indices: 58149074--58149105 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58149064 GGACAGTGAC
*
58149074 AAGTTTGGATTTTATT
1 AAGTTTAGATTTTATT
58149090 AAGTTTAGATTTTATT
1 AAGTTTAGATTTTATT
58149106 TCTCAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
AAGTTTAGATTTTATT
Found at i:58155084 original size:2 final size:2
Alignment explanation
Indices: 58155017--58155071 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
58155007 AAATTGATTG
58155017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58155059 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
58155072 AACAAGATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58171892 original size:19 final size:18
Alignment explanation
Indices: 58171854--58171891 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
58171844 CCCTAATGCA
*
58171854 TTATCTGTCTTGTTACTT
1 TTATCTGTCTTGCTACTT
58171872 TTATCTGTACTTGCTA-TT
1 TTATCTGT-CTTGCTACTT
58171890 TT
1 TT
58171892 TTTACTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATCTGTCTTGCTACTT
Found at i:58176943 original size:15 final size:15
Alignment explanation
Indices: 58176923--58176953 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58176913 TGGGGCTGTC
58176923 TACTTGATGTAATCA
1 TACTTGATGTAATCA
58176938 TACTTGATGTAATCA
1 TACTTGATGTAATCA
58176953 T
1 T
58176954 GGGATACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TACTTGATGTAATCA
Found at i:58177567 original size:181 final size:181
Alignment explanation
Indices: 58177263--58177626 Score: 647
Period size: 181 Copynumber: 2.0 Consensus size: 181
58177253 TCGCATACGT
*
58177263 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTTTGAGGCCTCAAAAATTTCCACGGAAGTTG
1 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTTTGAGGCCTCAAAAATTTCCACGAAAGTTG
*
58177328 CCAAACTATCTCTTTTGGGTTCCATAACCTACCTCAGATTCTTCCATAGGCACTTTTGAGCATAA
66 CCAAACTATCACTTTTGGGTTCCATAACCTACCTCAGATTCTTCCATAGGCACTTTTGAGCATAA
* * *
58177393 AGGACCCTGTTGTTGAGCCACTCCGTATGACTGTCTGAACCGACTACTAGA
131 AGGAACCTGTTGTTGAGCCACTCCATATGACAGTCTGAACCGACTACTAGA
*
58177444 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTTTGAGGCCTCGAAAATTTCCACGAAAGTTG
1 TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTTTGAGGCCTCAAAAATTTCCACGAAAGTTG
* *
58177509 CCAAACTATCACTTTTGGGTTCCATGACCTACCTCGGATTCTTCCATAGGCACTTTTGAGCATAA
66 CCAAACTATCACTTTTGGGTTCCATAACCTACCTCAGATTCTTCCATAGGCACTTTTGAGCATAA
*
58177574 AGGAACCTGTTGTTGAGCCACTCCATATGACAGTCTGAACCGACTACTGGA
131 AGGAACCTGTTGTTGAGCCACTCCATATGACAGTCTGAACCGACTACTAGA
58177625 TG
1 TG
58177627 CGGCGGGAGG
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 174 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (181 bp):
TGTTGAAGGGCAAGCCAAAAGAAGAATTTAACCCTTTGAGGCCTCAAAAATTTCCACGAAAGTTG
CCAAACTATCACTTTTGGGTTCCATAACCTACCTCAGATTCTTCCATAGGCACTTTTGAGCATAA
AGGAACCTGTTGTTGAGCCACTCCATATGACAGTCTGAACCGACTACTAGA
Found at i:58180465 original size:19 final size:19
Alignment explanation
Indices: 58180438--58180548 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
58180428 AATCATATCT
58180438 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58180457 TCAAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58180476 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58180495 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58180514 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
58180533 TATAAGATAGCATATC
1 TCTAAGATTGCATATC
58180549 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 86 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58182392 original size:13 final size:13
Alignment explanation
Indices: 58182374--58182401 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58182364 AACTTGTTGC
58182374 ATATATTAATTAT
1 ATATATTAATTAT
58182387 ATATATTAATTAT
1 ATATATTAATTAT
58182400 AT
1 AT
58182402 GAAATGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATATTAATTAT
Found at i:58184734 original size:17 final size:17
Alignment explanation
Indices: 58184712--58184746 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
58184702 GCAATTAAGT
*
58184712 AAAAACCTACGACTTCC
1 AAAAACCTACAACTTCC
58184729 AAAAACCTACAACTTCC
1 AAAAACCTACAACTTCC
58184746 A
1 A
58184747 TGACTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.34, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAACCTACAACTTCC
Found at i:58188126 original size:11 final size:11
Alignment explanation
Indices: 58188112--58188141 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
58188102 TATTCGAACA
58188112 ATAATAACAAT
1 ATAATAACAAT
58188123 ATAATAACAAT
1 ATAATAACAAT
*
58188134 ATTATAAC
1 ATAATAAC
58188142 GAAATGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
ATAATAACAAT
Found at i:58197901 original size:96 final size:97
Alignment explanation
Indices: 58197764--58198043 Score: 238
Period size: 94 Copynumber: 2.9 Consensus size: 97
58197754 ACACAAGTTC
58197764 TTTTTTTTTTTCATTTCAATTACAATGATAAAATTTCAGTTTT-G-AT-AGTTAAACTCAAATAT
1 TTTTTTTTTTTCATTTCAATTACAATGATAAAATTTCAGTTTTGGCATCAGTTAAACTCAAATAT
58197826 AATG-TTTAATCTTTATATTTTTACCTTCTTTT
66 AA-GATTTAATCTTTATATTTTTACCTTCTTTT
* * * * * *
58197858 TTTTTTTTTTTGCCATTTCAATTATAATGGTAAATTTTTAGTTTTGGTCCCTCTGTTAAACTCAA
1 TTTTTTTTTTT--CATTTCAATTACAATGATAAAATTTCAGTTTTGG--CATCAGTTAAACTCAA
* * *
58197923 ATTTAAGATTTAATCTTTATATTTTTACATGC----
62 ATATAAGATTTAATCTTTATATTTTTACCTTCTTTT
** ** * * * * * *
58197955 -TTTTGCTTGCCATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTAG-TAAACTAAAA
1 TTTTTTTTTTTCATTTCAATTACAATGATAAAATTTCAGTTTTG--GCATC-AGTTAAACTCAAA
*
58198018 TTTAAGATTTAATCTTTATATTTTTA
63 TATAAGATTTAATCTTTATATTTTTA
58198044 TTTGACATAA
Statistics
Matches: 156, Mismatches: 19, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
94 80 0.51
95 1 0.01
96 34 0.22
97 1 0.01
100 2 0.01
101 38 0.24
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (97 bp):
TTTTTTTTTTTCATTTCAATTACAATGATAAAATTTCAGTTTTGGCATCAGTTAAACTCAAATAT
AAGATTTAATCTTTATATTTTTACCTTCTTTT
Found at i:58197939 original size:101 final size:95
Alignment explanation
Indices: 58197867--58198043 Score: 295
Period size: 94 Copynumber: 1.9 Consensus size: 95
58197857 TTTTTTTTTT
** * *
58197867 TTGCCATTTCAATTATAATGGTAAATTTTTAGTTTTGGTCCCTCT-GTTAAACTCAAATTTAAGA
1 TTGCCATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTAGTTAAACTCAAATTTAAGA
58197931 TTTAATCTTTATATTTTTACATGCTTTTGC
66 TTTAATCTTTATATTTTTACATGCTTTTGC
*
58197961 TTGCCATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTAG-TAAACTAAAATTTAAGA
1 TTGCCATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTAGTTAAACTCAAATTTAAGA
58198025 TTTAATCTTTATATTTTTA
66 TTTAATCTTTATATTTTTA
58198044 TTTGACATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 76 0.99
95 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (95 bp):
TTGCCATTTCAATTATAATGGTAAAAATTCAGTTTTGATCCCTCTAGTTAAACTCAAATTTAAGA
TTTAATCTTTATATTTTTACATGCTTTTGC
Found at i:58200304 original size:24 final size:24
Alignment explanation
Indices: 58200277--58200328 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
58200267 TAAAACTTTG
*
58200277 TTATACACGTACATACACACAT-TT
1 TTATA-ACATACATACACACATATT
* *
58200301 TTATAATATACATACGCACATATT
1 TTATAACATACATACACACATATT
58200325 TTAT
1 TTAT
58200329 GTTTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (24 bp):
TTATAACATACATACACACATATT
Found at i:58200426 original size:2 final size:2
Alignment explanation
Indices: 58200377--58200416 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
58200367 TATAACTTTA
* *
58200377 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58200417 TTTGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:58200473 original size:26 final size:26
Alignment explanation
Indices: 58200439--58200492 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
58200429 ATCTTAAAAT
* * * *
58200439 ATACGTATATTTATATACATTTTATA
1 ATACATATATGTACATACAATTTATA
*
58200465 ATACATATATGTACATATAATTTATA
1 ATACATATATGTACATACAATTTATA
58200491 AT
1 AT
58200493 TTATATACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (26 bp):
ATACATATATGTACATACAATTTATA
Found at i:58207418 original size:23 final size:23
Alignment explanation
Indices: 58207392--58207490 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
58207382 ATAAGTGCAA
58207392 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
58207415 CACTGTTATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
58207438 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
58207461 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
58207484 CACTGAT
1 CACTGAT
58207491 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:58210093 original size:10 final size:10
Alignment explanation
Indices: 58210078--58210128 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
58210068 ACTTCACTTG
*
58210078 AAAAAGAAAC
1 AAAAAGAAAA
58210088 AAAAAGAAAA
1 AAAAAGAAAA
58210098 AAAAAGAAAA
1 AAAAAGAAAA
* *
58210108 ACGAAA-AAAG
1 A-AAAAGAAAA
58210118 AAAAAGAAAA
1 AAAAAGAAAA
58210128 A
1 A
58210129 TGAGAGGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:58210097 original size:6 final size:6
Alignment explanation
Indices: 58210077--58210128 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
58210067 TACTTCACTT
* *
58210077 GAAAAA GAAACAA AAAGAAA AAAAAA GAAAAA CGAAAAAA GAAAAA GAAAAA
1 GAAAAA GAAA-AA GAA-AAA GAAAAA GAAAAA -G-AAAAA GAAAAA GAAAAA
58210129 TGAGAGGCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 23 0.57
7 11 0.28
8 6 0.15
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:58210098 original size:16 final size:17
Alignment explanation
Indices: 58210077--58210120 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
58210067 TACTTCACTT
58210077 GAAAAAGAAACAAAAA-
1 GAAAAAGAAACAAAAAC
* *
58210093 GAAAAAAAAAGAAAAAC
1 GAAAAAGAAACAAAAAC
58210110 GAAAAAAGAAA
1 G-AAAAAGAAA
58210121 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 1 0.04
18 8 0.35
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (17 bp):
GAAAAAGAAACAAAAAC
Found at i:58210116 original size:14 final size:13
Alignment explanation
Indices: 58210077--58210128 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
58210067 TACTTCACTT
58210077 GAAAAAGAAACAAA
1 GAAAAAGAAA-AAA
58210091 -AAGAAA-AAAAAA
1 GAA-AAAGAAAAAA
58210103 GAAAAACGAAAAAA
1 GAAAAA-GAAAAAA
58210117 GAAAAAGAAAAA
1 GAAAAAGAAAAA
58210129 TGAGAGGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.18
13 13 0.38
14 15 0.44
ACGTcount: A:0.83, C:0.04, G:0.13, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAAA
Found at i:58211127 original size:45 final size:45
Alignment explanation
Indices: 58211078--58211803 Score: 712
Period size: 45 Copynumber: 16.3 Consensus size: 45
58211068 CTAAAAATTA
* **
58211078 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * * *
58211123 CAGATCTTGTCTTCCTATATTGGCAACGAAGTGGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
58211168 CAGATATTGTCTTCCTGTATTGGCAGCGAAATAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
58211213 CA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGCAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * *** * * * * *
58211258 CATATCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTCAAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *
58211302 CAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGGTCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
58211347 CA-AGTCTTGTCTTCCTGTATTAGCAGCGAAG-A-CT-GAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* * *** * * * *
58211389 CAGATTTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTCGAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
58211433 CAGATCTTGT-TTCCTGTATTGGTAGCGAAGTAGA-CTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* **
58211477 CAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
58211522 CA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* * * *
58211567 CAGATCTTGTCTTCCTATATTGGCAGCAAAGTGGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
58211612 CAAATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
* *
58211657 CA-AGTCTTGTCTTCCTGTATTGGTAGCGAAGTAGA-CTGAATATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAGATAG
* *** * * *
58211702 CAGATATTGTC-TCCT-TGAGCAGCAGTGGAA-TAGGTCGAAGATTG
1 CAGATCTTGTCTTCCTGT-ATTGGCAG-CGAAGTAGATCGAAGATAG
* * **
58211746 TAGATCTTGTCTTCCAGTATCAGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
*
58211791 CAGATCTTATCTT
1 CAGATCTTGTCTT
58211804 TCCAATGTAG
Statistics
Matches: 561, Mismatches: 93, Indels: 54
0.79 0.13 0.08
Matches are distributed among these distances:
41 9 0.02
42 22 0.04
43 10 0.02
44 108 0.19
45 407 0.73
46 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
Found at i:58213706 original size:24 final size:24
Alignment explanation
Indices: 58213679--58213730 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
58213669 TAAAACTTTG
*
58213679 TTATACACGTACATACACACAT-TT
1 TTATA-ACATACATACACACATGTT
* *
58213703 TTATAATATACATACGCACATGTT
1 TTATAACATACATACACACATGTT
58213727 TTAT
1 TTAT
58213731 GTTTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (24 bp):
TTATAACATACATACACACATGTT
Found at i:58213931 original size:26 final size:26
Alignment explanation
Indices: 58213892--58213941 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
58213882 TTATATACAT
**
58213892 TTTATAATACATATATGTACATATAA
1 TTTATAATACATATACATACATATAA
**
58213918 TTTATAATTTATATACATACATAT
1 TTTATAATACATATACATACATAT
58213942 TTGTTATATT
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:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTATAATACATATACATACATATAA
Found at i:58216835 original size:8 final size:8
Alignment explanation
Indices: 58216815--58216851 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
58216805 GTTCTCAATG
58216815 GTTTTGTTT
1 GTTTT-TTT
58216824 -TTTTTTT
1 GTTTTTTT
58216831 GTTTTTTT
1 GTTTTTTT
58216839 G-TTTTTT
1 GTTTTTTT
58216846 GTTTTT
1 GTTTTT
58216852 GCATATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 10 0.38
8 16 0.62
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
GTTTTTTT
Found at i:58228312 original size:9 final size:9
Alignment explanation
Indices: 58228298--58228465 Score: 68
Period size: 10 Copynumber: 17.1 Consensus size: 9
58228288 GCCCATTTTT
58228298 ATTTTAAAA
1 ATTTTAAAA
58228307 ATTTTAAAAA
1 ATTTT-AAAA
**
58228317 ATTAAAAAAA
1 ATT-TTAAAA
58228327 GTATTTTAAAAA
1 --ATTTT-AAAA
58228339 TATTTTAAAA
1 -ATTTTAAAA
*
58228349 ATATTTTAAA
1 AT-TTTAAAA
**
58228359 ATTAAAAAA
1 ATTTTAAAA
**
58228368 ATTAAAAAA
1 ATTTTAAAA
**
58228377 ATTAAAAAAA
1 ATT-TTAAAA
58228387 TATTTTAAAAA
1 -ATTTT-AAAA
58228398 TATTTTAAAA
1 -ATTTTAAAA
58228408 TATTTT-AAA
1 -ATTTTAAAA
**
58228417 ATTAAAAAA
1 ATTTTAAAA
**
58228426 ATTAAAAAAA
1 ATT-TTAAAA
58228436 TATTTTAAAA
1 -ATTTTAAAA
*
58228446 ATATTTTAAA
1 AT-TTTAAAA
58228456 ATTTTAAAA
1 ATTTTAAAA
58228465 A
1 A
58228466 AATTAAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.02
9 41 0.32
10 57 0.44
11 22 0.17
12 7 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:58228337 original size:11 final size:11
Alignment explanation
Indices: 58228297--58228496 Score: 134
Period size: 11 Copynumber: 19.9 Consensus size: 11
58228287 AGCCCATTTT
58228297 TATTTT-AAAA
1 TATTTTAAAAA
58228307 -ATTTTAAAAA
1 TATTTTAAAAA
**
58228317 -ATTAAAAAAA
1 TATTTTAAAAA
58228327 GTATTTTAAAAA
1 -TATTTTAAAAA
58228339 TATTTTAAAAA
1 TATTTTAAAAA
58228350 TATTTT--AAA
1 TATTTTAAAAA
58228359 -A--TTAAAAA
1 TATTTTAAAAA
*
58228367 -A-ATTAAAAA
1 TATTTTAAAAA
* **
58228376 AATTAAAAAAA
1 TATTTTAAAAA
58228387 TATTTTAAAAA
1 TATTTTAAAAA
58228398 TATTTT-AAAA
1 TATTTTAAAAA
58228408 TATTTT--AAA
1 TATTTTAAAAA
58228417 -A--TTAAAAA
1 TATTTTAAAAA
* **
58228425 AATTAAAAAAA
1 TATTTTAAAAA
58228436 TATTTTAAAAA
1 TATTTTAAAAA
58228447 TATTTT--AAA
1 TATTTTAAAAA
58228456 -ATTTTAAAAA
1 TATTTTAAAAA
* **
58228466 AATTAAAAAAA
1 TATTTTAAAAA
*
58228477 TA-TGTAAAAA
1 TATTTTAAAAA
58228487 TATTTTAAAA
1 TATTTTAAAA
58228497 TTAAAAAAAT
Statistics
Matches: 152, Mismatches: 21, Indels: 33
0.74 0.10 0.16
Matches are distributed among these distances:
6 4 0.03
8 14 0.09
9 22 0.14
10 34 0.22
11 70 0.46
12 8 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:58228432 original size:8 final size:9
Alignment explanation
Indices: 58228356--58228477 Score: 66
Period size: 9 Copynumber: 12.6 Consensus size: 9
58228346 AAAATATTTT
58228356 AAAATTAAA
1 AAAATTAAA
58228365 AAAATTAAA
1 AAAATTAAA
58228374 AAAATTAAAA
1 AAAATT-AAA
58228384 AAATATTTTAAA
1 AAA-A--TTAAA
* *
58228396 AATATTTTAA
1 AA-AATTAAA
* **
58228406 AATATT-TT
1 AAAATTAAA
58228414 AAAATTAAA
1 AAAATTAAA
58228423 AAAATTAAAA
1 AAAATT-AAA
58228433 AAATATTTTAAA
1 AAA-A--TTAAA
* *
58228445 AATATTTTAA
1 AA-AATTAAA
**
58228455 AATTTTAAA
1 AAAATTAAA
58228464 AAAATTAAA
1 AAAATTAAA
58228473 AAAAT
1 AAAAT
58228478 ATGTAAAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
8 5 0.06
9 40 0.46
10 24 0.28
11 2 0.02
12 10 0.11
13 6 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTAAA
Found at i:58228435 original size:59 final size:59
Alignment explanation
Indices: 58228303--58228456 Score: 238
Period size: 60 Copynumber: 2.6 Consensus size: 59
58228293 TTTTTATTTT
* *
58228303 AAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAAATTAAAAAAATTAAAAAAA-TATTTTAAAAATATTTTAAAAATATTTTAAAATTA
58228363 AAAAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTT-AAAATATTTTAAAATTA
1 AAAAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTTAAAAATATTTTAAAATTA
**
58228421 AAAAAATTAAAAAAATATTTTAAAAATATTTTAAAA
1 AAAAAATT-AAAAAA-ATTAAAAAAATATTTTAAAA
58228457 TTTTAAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
58 25 0.28
59 23 0.26
60 40 0.45
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (59 bp):
AAAAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTTAAAAATATTTTAAAATTA
Found at i:58228465 original size:40 final size:39
Alignment explanation
Indices: 58228374--58228506 Score: 189
Period size: 38 Copynumber: 3.4 Consensus size: 39
58228364 AAAAATTAAA
**
58228374 AAAATTAAAAAAATATTTTAAAAATATTTT-AAAATATTTT
1 AAAATT-AAAAAA-ATTAAAAAAATATTTTAAAAATATTTT
58228414 AAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTT
1 AAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTT
*
58228453 AAAATTTTAAAAAAATTAAAAAAATA-TGTAAAAATATTTT
1 AAAA--TTAAAAAAATTAAAAAAATATTTTAAAAATATTTT
58228493 AAAATTAAAAAAAT
1 AAAATTAAAAAAAT
58228507 AAATATATTT
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
38 24 0.28
39 20 0.23
40 23 0.26
41 20 0.23
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAATTAAAAAAATTAAAAAAATATTTTAAAAATATTTT
Found at i:58231125 original size:6 final size:6
Alignment explanation
Indices: 58231114--58231160 Score: 76
Period size: 6 Copynumber: 7.5 Consensus size: 6
58231104 GGTTTTCTCC
58231114 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATAG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
58231161 TTATTTGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 31 0.79
7 4 0.10
8 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:58248047 original size:41 final size:41
Alignment explanation
Indices: 58247979--58248166 Score: 286
Period size: 41 Copynumber: 4.6 Consensus size: 41
58247969 AATTGAAATT
*
58247979 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
* * *
58248020 TTCAAACATAAAGTCTAGCAGGCTTAAGGCTGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
* *
58248061 TTCAGCCTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAA
1 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
* *
58248102 TTCAGACTTAAAGTCTAGCAGGTTTAAGGCCGGTGAAATAA
1 TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
* *
58248143 TTCGGACTTTAAGTCTAGCAGGCT
1 TTCAGACTTAAAGTCTAGCAGGCT
58248167 AATTGTTGGT
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (41 bp):
TTCAGACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAA
Found at i:58248724 original size:2 final size:2
Alignment explanation
Indices: 58248673--58248708 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
58248663 TTTGTTAAGC
58248673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58248709 GCATTTCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58254917 original size:26 final size:26
Alignment explanation
Indices: 58254881--58254936 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
58254871 ATATTGACTG
*
58254881 AGTCAAAATTGTTCTTAGAAGCTGGA
1 AGTCAAAATTGTGCTTAGAAGCTGGA
58254907 AGTCAAAATTGTGCTTAGAAGCTGGA
1 AGTCAAAATTGTGCTTAGAAGCTGGA
58254933 AGTC
1 AGTC
58254937 TTCTAGTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (26 bp):
AGTCAAAATTGTGCTTAGAAGCTGGA
Found at i:58259415 original size:2 final size:2
Alignment explanation
Indices: 58259408--58259467 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
58259398 ATCATGAATA
58259408 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
58259450 TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG
58259468 ATGGTAATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:58261703 original size:22 final size:22
Alignment explanation
Indices: 58261624--58261695 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
58261614 ATTGTTCAAA
* **
58261624 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
58261646 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
58261668 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
58261690 CATGAG
1 CATGAG
58261696 GGTTTAGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:58261822 original size:46 final size:46
Alignment explanation
Indices: 58261755--58262007 Score: 415
Period size: 46 Copynumber: 5.6 Consensus size: 46
58261745 TTTGAGTACT
58261755 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
58261801 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * * *
58261847 TCTGATCAAATGAAAAAGTGATAAGTGGTAG-TCTAGTTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
58261892 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
58261938 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
58261983 TCTAATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
58262008 ATCATACGTA
Statistics
Matches: 195, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 59 0.30
46 119 0.61
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:58261911 original size:91 final size:91
Alignment explanation
Indices: 58261755--58262007 Score: 420
Period size: 91 Copynumber: 2.8 Consensus size: 91
58261745 TTTGAGTACT
*
58261755 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TCTAGCTACACTTATCTGATCAAGTGACAAAGT
58261820 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
* * *
58261847 TCTGATCAAATGAAAAAGTGATAAGTGGTAGTCTAGTTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
58261912 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
* * *
58261938 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTAATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
58262001 ATAAGTG
66 ATAAGTG
58262008 ATCATACGTA
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 12 0.08
90 5 0.03
91 105 0.70
92 29 0.19
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:58274530 original size:3 final size:3
Alignment explanation
Indices: 58274522--58274579 Score: 66
Period size: 3 Copynumber: 19.0 Consensus size: 3
58274512 TGTTTATTTA
*
58274522 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
58274567 ATAT TAT TAT TAT
1 -TAT TAT TAT TAT
58274580 ACTTACTTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
2 3 0.06
3 38 0.79
4 5 0.10
5 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:58274544 original size:22 final size:22
Alignment explanation
Indices: 58274494--58274578 Score: 84
Period size: 22 Copynumber: 3.8 Consensus size: 22
58274484 TTTTAGTTTT
* *
58274494 TTATTATATTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
58274515 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* *
58274538 TTATTATTAGTTTATTATTATTATA
1 TTATTA-TA--TTATTATTACTGTA
58274563 TTA-TATATTATTATTA
1 TTATTATATTATTATTA
58274579 TACTTACTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
21 12 0.22
22 19 0.35
23 7 0.13
24 2 0.04
25 15 0.27
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:58274552 original size:11 final size:11
Alignment explanation
Indices: 58274519--58274593 Score: 59
Period size: 11 Copynumber: 6.5 Consensus size: 11
58274509 TACTGTTTAT
58274519 TTATATTATTA
1 TTATATTATTA
58274530 TTACTGTATTATTA
1 TTA---TATTATTA
58274544 TTAGT-TTATTA
1 TTA-TATTATTA
58274555 TTAT-TATATTA
1 TTATAT-TATTA
58274566 -TATATTATTA
1 TTATATTATTA
58274576 TTATACTTACTTA
1 TTATA-TTA-TTA
58274589 -TATAT
1 TTATAT
58274594 GCGTATATGC
Statistics
Matches: 56, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.18
11 23 0.41
12 9 0.16
13 3 0.05
14 11 0.20
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATATTATTA
Found at i:58274566 original size:14 final size:14
Alignment explanation
Indices: 58274519--58274580 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
58274509 TACTGTTTAT
58274519 TTATATTATTATTA
1 TTATATTATTATTA
* *
58274533 CTGTATTATTATTA
1 TTATATTATTATTA
58274547 GTT-TATTATTATTA
1 -TTATATTATTATTA
58274561 -TATTATATATTATTA
1 TTA-TAT-TATTATTA
58274576 TTATA
1 TTATA
58274581 CTTACTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.03
14 26 0.65
15 11 0.28
16 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (14 bp):
TTATATTATTATTA
Found at i:58274679 original size:2 final size:2
Alignment explanation
Indices: 58274672--58274711 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
58274662 TTCATAGTTT
58274672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58274712 CATTTATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58276003 original size:31 final size:30
Alignment explanation
Indices: 58275968--58276027 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
58275958 GGAGGTGGGA
*
58275968 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
58275999 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
58276028 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:58291276 original size:25 final size:25
Alignment explanation
Indices: 58291248--58291320 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
58291238 CTGATATTTG
* *
58291248 GCTCGCATGAGCTTTTTGATATACA
1 GCTCGCATGAGCTTCTCGATATACA
*
58291273 GCTCG-ATTGAGCTTCTCGTTATACA
1 GCTCGCA-TGAGCTTCTCGATATACA
** *
58291298 GCTTACATGAGCTTCTCGTTATA
1 GCTCGCATGAGCTTCTCGATATA
58291321 TGGCTCGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCGCATGAGCTTCTCGATATACA
Found at i:58296565 original size:13 final size:13
Alignment explanation
Indices: 58296547--58296574 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58296537 TGTTATACCT
58296547 CAATACAGCAAGA
1 CAATACAGCAAGA
58296560 CAATACAGCAAGA
1 CAATACAGCAAGA
58296573 CA
1 CA
58296575 CGTGATAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.25, G:0.14, T:0.07
Consensus pattern (13 bp):
CAATACAGCAAGA
Found at i:58298904 original size:15 final size:15
Alignment explanation
Indices: 58298884--58298915 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58298874 TAAAAGTTTC
58298884 TAAAAAATTTCTAAAA
1 TAAAAAA-TTCTAAAA
58298900 TAAAAAATTCTAAAA
1 TAAAAAATTCTAAAA
58298915 T
1 T
58298916 TTGAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAATTCTAAAA
Found at i:58299496 original size:15 final size:15
Alignment explanation
Indices: 58299476--58299517 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
58299466 GGTTAAAATA
* *
58299476 TTTTGAATTTATCGG
1 TTTTGAAATTATAGG
58299491 TTTTGAAATTATAGG
1 TTTTGAAATTATAGG
*
58299506 TTTTAAAATTAT
1 TTTTGAAATTAT
58299518 TTATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (15 bp):
TTTTGAAATTATAGG
Found at i:58303594 original size:28 final size:28
Alignment explanation
Indices: 58303554--58303610 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58303544 ATAGAAAAGA
58303554 CTCAAAGCACAAGCTAAACTAAGCAATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
*
58303582 CTCAAAGCACAAGCTAAACTAAGCCATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
58303610 C
1 C
58303611 AACACCCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.18
Consensus pattern (28 bp):
CTCAAAGCACAAGCTAAACTAAGCAATT
Found at i:58320777 original size:18 final size:18
Alignment explanation
Indices: 58320754--58320796 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
58320744 ATAATGTTAT
*
58320754 ATAATATTAATTTAATTA
1 ATAATATTAAGTTAATTA
*
58320772 ATAATATTAAGTTATTTA
1 ATAATATTAAGTTAATTA
*
58320790 ATTATAT
1 ATAATAT
58320797 CAGATGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATATTAAGTTAATTA
Found at i:58324374 original size:5 final size:5
Alignment explanation
Indices: 58324364--58324399 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
58324354 TAACATTAGG
58324364 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
58324400 TTAGACTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:58327611 original size:18 final size:18
Alignment explanation
Indices: 58327588--58327624 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58327578 TTACTTTTAT
*
58327588 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
58327606 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
58327624 T
1 T
58327625 TCCCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:58329884 original size:16 final size:15
Alignment explanation
Indices: 58329858--58329888 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
58329848 CTGTGTCCTT
58329858 TGATTTTGTTTTCTA
1 TGATTTTGTTTTCTA
58329873 TGATTCTTGTTTTCTA
1 TGATT-TTGTTTTCTA
58329889 CAGTTAGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.65
Consensus pattern (15 bp):
TGATTTTGTTTTCTA
Found at i:58333235 original size:3 final size:3
Alignment explanation
Indices: 58333227--58333260 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58333217 TGCCCTTGAA
58333227 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
58333261 TCTGGTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58334499 original size:32 final size:32
Alignment explanation
Indices: 58334463--58334527 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
58334453 CTTCATAGAC
* *
58334463 TTAGCTAACTTTAATGTAAAAATGTGACTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
* *
58334495 TTAGCTAACTTGAATGTAGAAATGAGGCTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
58334527 T
1 T
58334528 AAGTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (32 bp):
TTAGCTAACTTGAATGTAAAAATGAGACTGAA
Found at i:58336970 original size:1 final size:1
Alignment explanation
Indices: 58336964--58336990 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
58336954 GCCAGAATTC
58336964 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
58336991 GAAGAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:58336999 original size:4 final size:4
Alignment explanation
Indices: 58336988--58337017 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
58336978 AAAAAAAAAA
58336988 AAAG -AAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
58337018 AGAGGATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:58352797 original size:9 final size:9
Alignment explanation
Indices: 58352779--58352812 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
58352769 GAAGTAGGAT
58352779 AGAAAATAA
1 AGAAAATAA
*
58352788 AGAGAATAA
1 AGAAAATAA
58352797 AGAAAATAA
1 AGAAAATAA
58352806 AGAAAAT
1 AGAAAAT
58352813 GAGTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (9 bp):
AGAAAATAA
Found at i:58357248 original size:3 final size:3
Alignment explanation
Indices: 58357240--58357266 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
58357230 GGGGTGGGGG
58357240 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
58357267 GGGATTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:58358356 original size:5 final size:5
Alignment explanation
Indices: 58358346--58358376 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
58358336 TGACGAAGAG
58358346 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
58358377 ACCTGAGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:58363248 original size:156 final size:156
Alignment explanation
Indices: 58363016--58363325 Score: 494
Period size: 156 Copynumber: 2.0 Consensus size: 156
58363006 CGATATCAAA
* *
58363016 TGTAAGCTCAAATAAACATGTCATGGAAAATTGGTATGTAAATGATATATCAATTCATAGCATGA
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
* * *
58363081 TACCATTGAGAATTCCAAAGTCTTAATCCTAAGTAAAAATATGAAAATTATATCCTAAGTCTAAG
66 TACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAAAATTATATACTAAGTCTAAG
58363146 TCTAATCCTAATTCTAGTTCTAAATC
131 TCTAATCCTAATTCTAGTTCTAAATC
* *
58363172 TGTAAGCTCAAATAAACATGTCATGGAATAGTGGTATGTAAATGATATATTAATTCAAAGCATGA
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
* * * * **
58363237 TGCCATCGAGAATTCCAAAGTCTTAAGCTTAATTAAAAATATTAATCTTATATACTAAGTCTAAG
66 TACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAAAATTATATACTAAGTCTAAG
*
58363302 TTTAATCCTAATTCTAGTTCTAAA
131 TCTAATCCTAATTCTAGTTCTAAA
58363326 CCTAGTTTTG
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
156 140 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (156 bp):
TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
TACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATGAAAATTATATACTAAGTCTAAG
TCTAATCCTAATTCTAGTTCTAAATC
Found at i:58363379 original size:12 final size:11
Alignment explanation
Indices: 58363364--58363399 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
58363354 ATTCTAAACG
58363364 TAATCCTAGATT
1 TAATCCTA-ATT
58363376 TAATCCTAATT
1 TAATCCTAATT
58363387 CTAATCCTAATT
1 -TAATCCTAATT
58363399 T
1 T
58363400 TATAAACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (11 bp):
TAATCCTAATT
Found at i:58364088 original size:16 final size:16
Alignment explanation
Indices: 58364067--58364116 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
58364057 GTTTTTCTGC
58364067 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
*
58364083 TTTATAGCCAACC-AC
1 TTTATAGCCAACCAAT
58364098 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
58364114 TTT
1 TTT
58364117 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (16 bp):
TTTATAGCCAACCAAT
Found at i:58364103 original size:15 final size:15
Alignment explanation
Indices: 58364066--58364111 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
58364056 TGTTTTTCTG
58364066 CTTTATAGCCAACCAA
1 CTTTATAGCCAACC-A
*
58364082 TTTTATAGCCAACCA
1 CTTTATAGCCAACCA
58364097 CTTTATAGCCAACCA
1 CTTTATAGCCAACCA
58364112 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (15 bp):
CTTTATAGCCAACCA
Found at i:58367003 original size:14 final size:14
Alignment explanation
Indices: 58366984--58367011 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58366974 ATAGGGAGTA
58366984 GAATTCCAGAATTG
1 GAATTCCAGAATTG
58366998 GAATTCCAGAATTG
1 GAATTCCAGAATTG
58367012 CTATATTGCC
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:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
GAATTCCAGAATTG
Found at i:58374448 original size:23 final size:23
Alignment explanation
Indices: 58374432--58374482 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
58374422 AAATTATTTG
*
58374432 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
58374455 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
58374478 AGTAA
1 TGTAA
58374483 GAAAATAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:58379027 original size:33 final size:33
Alignment explanation
Indices: 58378985--58379295 Score: 186
Period size: 33 Copynumber: 8.7 Consensus size: 33
58378975 ATATAAAGGG
58378985 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
* * *
58379018 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CA-GT---GGT
* *
58379060 GGTTGCTATGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
* * *
58379093 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CA-GT---GGT
*
58379135 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
*
58379162 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
*
58379195 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-ATC-----A-GTG---GT
*
58379238 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
*
58379271 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
58379296 TAACGGTTGA
Statistics
Matches: 220, Mismatches: 21, Indels: 73
0.70 0.07 0.23
Matches are distributed among these distances:
27 22 0.10
28 2 0.01
31 2 0.01
32 2 0.01
33 83 0.38
34 15 0.07
35 2 0.01
36 3 0.01
37 4 0.02
38 3 0.01
39 4 0.02
40 3 0.01
41 5 0.02
42 48 0.22
43 22 0.10
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCAGTGGT
Found at i:58379077 original size:42 final size:42
Alignment explanation
Indices: 58379018--58379154 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
58379008 AATCAGTGGT
58379018 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
* * * *
58379060 GGTTGCTATGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
*
58379093 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
58379135 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
58379155 CCCAAGGGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 21 0.27
34 3 0.04
35 1 0.01
36 1 0.01
37 3 0.04
38 3 0.04
39 1 0.01
40 1 0.01
41 3 0.04
42 41 0.53
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGA
Found at i:58379108 original size:75 final size:75
Alignment explanation
Indices: 58378980--58379156 Score: 327
Period size: 75 Copynumber: 2.4 Consensus size: 75
58378970 ATTGAATATA
58378980 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCAGTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCAGTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
58379045 TTTAAATGTG
66 TTTAAATGTG
* * *
58379055 AAGGAGGTTGCTATGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCAGTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
58379120 TTTAAATGTG
66 TTTAAATGTG
58379130 AAGGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
58379157 CAAGGGGTTG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 97 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (75 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCGAATCAGTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
TTTAAATGTG
Found at i:58379182 original size:102 final size:104
Alignment explanation
Indices: 58379055--58379259 Score: 360
Period size: 102 Copynumber: 2.0 Consensus size: 104
58379045 TTTAAATGTG
* *
58379055 AAGGAGGTTGCTATGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAGGAGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
*
58379120 -TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 CTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
58379158 AAGG-GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
1 AAGGAGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
*
58379222 CTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 CTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
58379260 GAATCACTGG
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
102 58 0.60
103 39 0.40
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (104 bp):
AAGGAGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATAT
CTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:58389302 original size:14 final size:14
Alignment explanation
Indices: 58389283--58389313 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58389273 ATGATTTTTT
*
58389283 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58389297 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58389311 TAA
1 TAA
58389314 AAATGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58392035 original size:5 final size:5
Alignment explanation
Indices: 58392004--58392054 Score: 75
Period size: 5 Copynumber: 9.6 Consensus size: 5
58391994 TAAGTCTAAG
58392004 AAAAT AACAAT AAACAT AAACAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AA-AAT AAA-AT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT
58392052 AAA
1 AAA
58392055 TAGACTCAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 28 0.64
6 16 0.36
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58392957 original size:69 final size:69
Alignment explanation
Indices: 58392846--58392983 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
58392836 CAGTGTAGAG
58392846 TCCCACAGTAGCGTCTAACTTGAGGACACTAATATGGCACACCAAGCCACCGAGTCTAAAAGTGA
1 TCCCACAGTAGCGTCTAACTTGAGGACACTAATATGGCACACCAAGCCACCGAGTCTAAAAGTGA
58392911 CGGT
66 CGGT
*
58392915 TCCCACAGTAGCGTCTAACTTGAGGACACTAATATGGCACACCAAGCCACCGAGTCTGAAAGTGA
1 TCCCACAGTAGCGTCTAACTTGAGGACACTAATATGGCACACCAAGCCACCGAGTCTAAAAGTGA
58392980 CGGT
66 CGGT
58392984 GCCTAGCTCG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (69 bp):
TCCCACAGTAGCGTCTAACTTGAGGACACTAATATGGCACACCAAGCCACCGAGTCTAAAAGTGA
CGGT
Found at i:58393807 original size:20 final size:20
Alignment explanation
Indices: 58393782--58393858 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
58393772 AACTAAGAAT
58393782 AAAAATAATAATAAACAATA
1 AAAAATAATAATAAACAATA
58393802 AAAAATAAT-AT-AACTAAT-
1 AAAAATAATAATAAAC-AATA
* * *
58393820 AAGAATAATAAATAAAAAACA
1 AAAAATAAT-AATAAACAATA
58393841 AATAAATAA-AATAAACAA
1 AA-AAATAATAATAAACAA
58393859 ATGGTGGTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 11 0.24
19 5 0.11
20 21 0.46
21 4 0.09
22 5 0.11
ACGTcount: A:0.74, C:0.05, G:0.01, T:0.19
Consensus pattern (20 bp):
AAAAATAATAATAAACAATA
Found at i:58396838 original size:31 final size:31
Alignment explanation
Indices: 58396800--58396862 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
58396790 TCCAATCAGG
58396800 TGCAACCACAATCAGAGCATTAATTAATTTT
1 TGCAACCACAATCAGAGCATTAATTAATTTT
58396831 TGCAACCACAATCAGAGCATTAATTAATTTT
1 TGCAACCACAATCAGAGCATTAATTAATTTT
58396862 T
1 T
58396863 CTTTAAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (31 bp):
TGCAACCACAATCAGAGCATTAATTAATTTT
Found at i:58401205 original size:14 final size:14
Alignment explanation
Indices: 58401186--58401216 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58401176 TGATTGTTTT
*
58401186 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58401200 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58401214 TAA
1 TAA
58401217 AAACACAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58402079 original size:30 final size:30
Alignment explanation
Indices: 58402043--58402153 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
58402033 TGGCTCATGG
* * *
58402043 GCGTGTGGCCAGCCCATGTGGCTCACACGA
1 GCGTGTGGCCAGCCCGTGTGGCTCGCAAGA
* *
58402073 GCGTGTGGCCAGCCCGTATGGCTCGCATGA
1 GCGTGTGGCCAGCCCGTGTGGCTCGCAAGA
* *
58402103 GGGTGTGGCCAGCCCGTGTGGCTTGCAAGA
1 GCGTGTGGCCAGCCCGTGTGGCTCGCAAGA
*
58402133 GCGTGTGGCCAGCTCGTGTGG
1 GCGTGTGGCCAGCCCGTGTGG
58402154 AAATGCCCAG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.13, C:0.28, G:0.40, T:0.20
Consensus pattern (30 bp):
GCGTGTGGCCAGCCCGTGTGGCTCGCAAGA
Found at i:58402863 original size:21 final size:23
Alignment explanation
Indices: 58402829--58402872 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
58402819 ATGAACATAT
*
58402829 CTAAACTCTTATAC-AAGTATTC
1 CTAAACTCATATACAAAGTATTC
58402851 CTAAA-TCATATACAAAGTATTC
1 CTAAACTCATATACAAAGTATTC
58402873 TAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (23 bp):
CTAAACTCATATACAAAGTATTC
Found at i:58402875 original size:21 final size:21
Alignment explanation
Indices: 58402828--58402875 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
58402818 TATGAACATA
*
58402828 TCTAAACTCTTATACAAGTAT
1 TCTAAACTCATATACAAGTAT
58402849 TCCTAAA-TCATATACAAAGTAT
1 T-CTAAACTCATATAC-AAGTAT
58402871 TCTAA
1 TCTAA
58402876 TAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (21 bp):
TCTAAACTCATATACAAGTAT
Found at i:58403495 original size:22 final size:22
Alignment explanation
Indices: 58403465--58403507 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
58403455 ACAACAAAAC
* *
58403465 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGACGCTTTTTT
58403487 AGGCCTTTAGCGACGCTTTTT
1 AGGCCTTTAGCGACGCTTTTT
58403508 AGCGCCGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGACGCTTTTTT
Found at i:58403725 original size:9 final size:9
Alignment explanation
Indices: 58403711--58403765 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
58403701 GTCTAAGAAG
*
58403711 GCGGCTGTT
1 GCGGCTGCT
58403720 GCGGCTGCT
1 GCGGCTGCT
*
58403729 GCAGCTGCT
1 GCGGCTGCT
*
58403738 GCGGCTGTT
1 GCGGCTGCT
58403747 GCGGCTGCT
1 GCGGCTGCT
*
58403756 GCGACTGCT
1 GCGGCTGCT
58403765 G
1 G
58403766 AAACATATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.04, C:0.29, G:0.42, T:0.25
Consensus pattern (9 bp):
GCGGCTGCT
Found at i:58403749 original size:27 final size:27
Alignment explanation
Indices: 58403711--58403765 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
58403701 GTCTAAGAAG
58403711 GCGGCTGTTGCGGCTGCTGC-AGCTGCT
1 GCGGCTGTTGCGGCTGCTGCGA-CTGCT
58403738 GCGGCTGTTGCGGCTGCTGCGACTGCT
1 GCGGCTGTTGCGGCTGCTGCGACTGCT
58403765 G
1 G
58403766 AAACATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.04, C:0.29, G:0.42, T:0.25
Consensus pattern (27 bp):
GCGGCTGTTGCGGCTGCTGCGACTGCT
Found at i:58409457 original size:16 final size:16
Alignment explanation
Indices: 58409446--58409514 Score: 84
Period size: 16 Copynumber: 4.1 Consensus size: 16
58409436 ATTTATGAAG
58409446 GTTATGTATTATGTAA
1 GTTATGTATTATGTAA
*
58409462 GTTGTGTATTATGTAA
1 GTTATGTATTATGTAA
58409478 GTTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
**
58409496 GTTAAATATTTATGTAA
1 GTTATGTA-TTATGTAA
58409513 GT
1 GT
58409515 CCGACAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 21 0.46
17 12 0.26
18 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:58409469 original size:9 final size:9
Alignment explanation
Indices: 58409446--58409499 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
58409436 ATTTATGAAG
58409446 GTTATGT-A
1 GTTATGTAA
58409454 -TTATGTAA
1 GTTATGTAA
*
58409462 GTTGTGT-A
1 GTTATGTAA
58409470 -TTATGTAA
1 GTTATGTAA
58409478 GTTATGTAA
1 GTTATGTAA
58409487 GTTATGTAA
1 GTTATGTAA
58409496 GTTA
1 GTTA
58409500 AATATTTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 11 0.28
8 3 0.08
9 26 0.65
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (9 bp):
GTTATGTAA
Found at i:58409577 original size:22 final size:22
Alignment explanation
Indices: 58409551--58409592 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58409541 TAATTTAGTT
*
58409551 ATGTACGTTACGTATCATATTA
1 ATGTAAGTTACGTATCATATTA
* *
58409573 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTACGTATCATAT
58409593 AAGTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTAAGTTACGTATCATATTA
Found at i:58409599 original size:9 final size:9
Alignment explanation
Indices: 58409573--58409667 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
58409563 TATCATATTA
58409573 ATGTAAGTT
1 ATGTAAGTT
58409582 ATGT-A-TT
1 ATGTAAGTT
*
58409589 ATATAAGTT
1 ATGTAAGTT
*
58409598 ATTTAAGTT
1 ATGTAAGTT
58409607 ATGTAAGTT
1 ATGTAAGTT
*
58409616 GTGTAAGTT
1 ATGTAAGTT
*
58409625 ATGTATAATATT
1 ATG--TAA-GTT
*
58409637 AACGTAAGTT
1 -ATGTAAGTT
58409647 ATGT-A-TT
1 ATGTAAGTT
58409654 ATGTAAGTT
1 ATGTAAGTT
58409663 ATGTA
1 ATGTA
58409668 TAATATTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.16
8 4 0.06
9 42 0.61
10 2 0.03
11 6 0.09
12 2 0.03
13 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:58409613 original size:18 final size:18
Alignment explanation
Indices: 58409573--58409667 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
58409563 TATCATATTA
58409573 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
58409589 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
58409607 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
* *
58409625 ATGTATAATATTAACGTAAGTT
1 ATG--TAA-GTT-ATGTAAGTT
58409647 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
58409663 ATGTA
1 ATGTA
58409668 TAATATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
16 23 0.37
17 3 0.05
18 20 0.32
19 1 0.02
20 4 0.06
21 2 0.03
22 10 0.16
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:58409646 original size:22 final size:21
Alignment explanation
Indices: 58409618--58409692 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
58409608 TGTAAGTTGT
58409618 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
58409639 CGTAAGTTATGTAT--TA-T--
1 -GTAAGTTATGTATAATATTAA
58409656 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
58409677 TGTGATAGTTATGTAT
1 -GT-A-AGTTATGTAT
58409693 TATGTTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 2 0.04
19 2 0.04
20 2 0.04
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (21 bp):
GTAAGTTATGTATAATATTAA
Found at i:58409769 original size:69 final size:69
Alignment explanation
Indices: 58409694--58409830 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 69
58409684 GTTATGTATT
* *
58409694 ATGTTAATATTTAGAAAATAGCATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
58409759 ATAA
66 ATAA
*
58409763 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTTTTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
58409828 ATA
66 ATA
58409831 GGTTACCATG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (69 bp):
ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
ATAA
Found at i:58409773 original size:21 final size:23
Alignment explanation
Indices: 58409732--58409782 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
58409722 AATTATTTCT
*
58409732 AAAATTATAAAATTTATTA-TT-G
1 AAAA-TATAAAATTTAATATTTAG
58409754 AAAATAT-AAATGTTAATATTTAG
1 AAAATATAAAAT-TTAATATTTAG
58409777 AAAATA
1 AAAATA
58409783 ACATTTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 6 0.24
23 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAATATAAAATTTAATATTTAG
Found at i:58411160 original size:13 final size:13
Alignment explanation
Indices: 58411142--58411178 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
58411132 TACTATAAAC
58411142 AATAATTGTTTAT
1 AATAATTGTTTAT
58411155 AATAATTGTTTAT
1 AATAATTGTTTAT
58411168 AATAATTGTTT
1 AATAATTGTTT
58411179 TTTTAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AATAATTGTTTAT
Found at i:58411960 original size:24 final size:22
Alignment explanation
Indices: 58411924--58411967 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
58411914 AGGGTTCAAG
58411924 ATTTGGGGGATTTTTGGGGAAA
1 ATTTGGGGGATTTTTGGGGAAA
58411946 ATTTGGGGGGAATTTTTGGGGA
1 ATTT-GGGGG-ATTTTTGGGGA
58411968 GAAAAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 11 0.55
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.36
Consensus pattern (22 bp):
ATTTGGGGGATTTTTGGGGAAA
Found at i:58412714 original size:19 final size:20
Alignment explanation
Indices: 58412687--58412727 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
58412677 AAAATTTTAA
58412687 TTAAATAAT-TATTAAAA-TT
1 TTAAATAATAT-TTAAAAGTT
*
58412706 TTAAGTAATATTTAAAAGTT
1 TTAAATAATATTTAAAAGTT
58412726 TT
1 TT
58412728 TGATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAAATAATATTTAAAAGTT
Found at i:58413168 original size:22 final size:22
Alignment explanation
Indices: 58413140--58413246 Score: 117
Period size: 22 Copynumber: 4.6 Consensus size: 22
58413130 ACCCTTGACA
*
58413140 CCCTAACCCCTAAATCCCTAAC
1 CCCTAACCCCTAAATCACTAAC
* *
58413162 CCCTAACCCCTAAATCCCCCTAAA
1 CCCTAACCCCTAAAT--CACTAAC
58413186 CCCTAACCCCTAATTAAATCACTAAC
1 CCCTAACCCC----TAAATCACTAAC
*
58413212 CCCTAACCCCTAAATTACTAA-
1 CCCTAACCCCTAAATCACTAAC
58413233 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
58413247 CCTTAATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
21 14 0.19
22 25 0.33
24 16 0.21
26 15 0.20
28 5 0.07
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.20
Consensus pattern (22 bp):
CCCTAACCCCTAAATCACTAAC
Found at i:58413217 original size:7 final size:7
Alignment explanation
Indices: 58413140--58413198 Score: 64
Period size: 7 Copynumber: 7.9 Consensus size: 7
58413130 ACCCTTGACA
58413140 CCCTAAC
1 CCCTAAC
*
58413147 CCCTAAAT
1 CCCT-AAC
58413155 CCCTAAC
1 CCCTAAC
58413162 CCCTAAC
1 CCCTAAC
58413169 CCCTAAATCC
1 CCCT-AA--C
*
58413179 CCCTAAA
1 CCCTAAC
58413186 CCCTAAC
1 CCCTAAC
58413193 CCCTAA
1 CCCTAA
58413199 TTAAATCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 29 0.66
8 8 0.18
9 2 0.05
10 5 0.11
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (7 bp):
CCCTAAC
Found at i:58413840 original size:41 final size:41
Alignment explanation
Indices: 58413794--58413948 Score: 117
Period size: 41 Copynumber: 3.8 Consensus size: 41
58413784 GTTTCCATCA
*
58413794 AAACGCCGCT-AAAACTC-CAACATTAGCGGCGCTTTACAAAC
1 AAACGCCACTAAAAAC-CACAACATTAGCGGCGC-TTACAAAC
**
58413835 AAACGCCACTAAAAACCTTAAC-TATAGCGGCGCATTATC-AA-
1 AAACGCCACTAAAAACCACAACAT-TAGCGGCGC-TTA-CAAAC
* * * * *
58413876 AAATGCCGCTAAAAGCC-CTAA-AGTTAGCGGCGCTCAGAAAC
1 AAACGCCACTAAAAACCAC-AACA-TTAGCGGCGCTTACAAAC
*
58413917 AAACGCCACTAAAAACCATAACATTAGCGGCG
1 AAACGCCACTAAAAACCACAACATTAGCGGCG
58413949 TTTGTTTAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
40 4 0.04
41 61 0.68
42 24 0.27
43 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.16
Consensus pattern (41 bp):
AAACGCCACTAAAAACCACAACATTAGCGGCGCTTACAAAC
Found at i:58413864 original size:42 final size:41
Alignment explanation
Indices: 58413817--58413948 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
58413807 ACTCCAACAT
58413817 TAGCGGCGCTTTACAAACAAACGCCACTAAAAACCTTAACTA
1 TAGCGGCGC-TTACAAACAAACGCCACTAAAAACCTTAACTA
* * * * *
58413859 TAGCGGCGCATTATC-AA-AAATGCCGCTAAAAGCCCTAAAGT-
1 TAGCGGCGC-TTA-CAAACAAACGCCACTAAAA-ACCTTAACTA
* * *
58413900 TAGCGGCGCTCAGAAACAAACGCCACTAAAAACCATAAC-A
1 TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
58413940 TTAGCGGCG
1 -TAGCGGCG
58413949 TTTGTTTAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 13
0.72 0.14 0.13
Matches are distributed among these distances:
40 8 0.11
41 41 0.59
42 20 0.29
43 1 0.01
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (41 bp):
TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
Found at i:58425338 original size:5 final size:5
Alignment explanation
Indices: 58425283--58425355 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
58425273 GCAACCCAAT
* *
58425283 TTTTA TTTTTA CTTTTA -TTTA -TTTA TTTT- CTTTA CTTTA TTTATTA
1 TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TT-TTA
*
58425329 CTTTA TTTTA TTTTA TTTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
58425356 GGATATTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
4 15 0.26
5 27 0.47
6 12 0.21
7 3 0.05
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:58433075 original size:20 final size:20
Alignment explanation
Indices: 58433040--58433123 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
58433030 TACAAATGTA
58433040 CAAACA-AGGACACCGAAGTG
1 CAAACAGAGG-CACCGAAGTG
* * *
58433060 TATACAGGGGCACCGAAGTG
1 CAAACAGAGGCACCGAAGTG
*
58433080 CAAACAGAGGCACCAAAGTG
1 CAAACAGAGGCACCGAAGTG
* *
58433100 CAAATAGAGGCACCAAAGTG
1 CAAACAGAGGCACCGAAGTG
58433120 CAAA
1 CAAA
58433124 TCCTGTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 53 0.96
21 2 0.04
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (20 bp):
CAAACAGAGGCACCGAAGTG
Found at i:58433293 original size:2 final size:2
Alignment explanation
Indices: 58433286--58433322 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
58433276 TTCCATAATC
58433286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
58433323 TTCATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58433420 original size:2 final size:2
Alignment explanation
Indices: 58433413--58433437 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58433403 ACTAAACATC
58433413 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58433438 CATTCATAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58440974 original size:15 final size:15
Alignment explanation
Indices: 58440956--58440995 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
58440946 GTGATTGAAG
*
58440956 TTTTTATTTTTGTTA
1 TTTTTATTTTTGTAA
*
58440971 TTTTTATGTTTGTAA
1 TTTTTATTTTTGTAA
*
58440986 TTTATATTTT
1 TTTTTATTTT
58440996 AATAGATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTTGTAA
Found at i:58446660 original size:47 final size:47
Alignment explanation
Indices: 58446608--58446751 Score: 129
Period size: 47 Copynumber: 3.1 Consensus size: 47
58446598 ATTATTAAGA
*
58446608 ATTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
* * * * **
58446655 A-TTT-T-AAATTGTATA-AATTCATATAAGA--AAATTTATTATGAAGA
1 ATTTTATGAAATTATATATAATT-AT-TAA-ATTATATTTAATATTAATT
* * *
58446699 ATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATT
1 ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
58446746 ATTTTA
1 ATTTTA
58446752 AATTATACAA
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.32
45 8 0.11
46 8 0.11
47 27 0.38
48 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (47 bp):
ATTTTATGAAATTATATATAATTATTAAATTATATTTAATATTAATT
Found at i:58446739 original size:91 final size:91
Alignment explanation
Indices: 58446578--58446783 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
58446568 ATCTTATATG
* *
58446578 AATTCATATAAGAATATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AATTCATATAAGAA-AATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
* * * *
58446643 TTAATATTAATTATTTTAAATTGTATA
65 GTAATAATAATTATTTTAAATTATACA
*
58446670 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATTATTATTAAATTATATG
1 AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
58446735 TAATAATAATTATTTTAAATTATACA
66 TAATAATAATTATTTTAAATTATACA
*
58446761 AATTCATATAAGATAATTTATTA
1 AATTCATATAAGAAAATTTATTA
58446784 GTTATAATTA
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.87
92 14 0.13
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (91 bp):
AATTCATATAAGAAAATTTATTATGAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
TAATAATAATTATTTTAAATTATACA
Found at i:58446752 original size:26 final size:28
Alignment explanation
Indices: 58446698--58446758 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
58446688 TATTATGAAG
* *
58446698 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
58446726 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
58446752 AATTATA
1 AATTATA
58446759 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:58446758 original size:44 final size:43
Alignment explanation
Indices: 58446616--58446758 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
58446606 GAATTTTATG
* *
58446616 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
58446660 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATGAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
58446707 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
58446751 AAATTATA
1 AAATTATA
58446759 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:58446877 original size:59 final size:57
Alignment explanation
Indices: 58446788--58447000 Score: 152
Period size: 56 Copynumber: 3.6 Consensus size: 57
58446778 TTATTAGTTA
*
58446788 TAATTATTTTAAATT-TTATTA-AG--TCATATATTTTAATTAAAATATATTTAATAT
1 TAATTA-TTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
* * **
58446842 TAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAATTAT-TTTTATAGTATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
58446907 T
57 T
* * * * *
58446908 TAATTATTAAGAATT-TTATTA-AAT-TCATGATATTTTAATTATAATATATTTAATAA
1 TAATTATTTA-AATTATTTTTATAGTATCAT-ATATTTTAATTAAAATATATTTAATAT
*
58446964 TAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATTAT-TTAAATTAT-TTTTATAGTATCATATATT
58447001 ATGATTTGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 35
0.70 0.10 0.20
Matches are distributed among these distances:
53 3 0.02
54 11 0.09
55 1 0.01
56 18 0.15
57 9 0.07
58 5 0.04
59 18 0.15
60 8 0.07
61 2 0.02
62 8 0.07
63 10 0.08
64 5 0.04
65 6 0.05
66 17 0.14
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (57 bp):
TAATTATTTAAATTATTTTTATAGTATCATATATTTTAATTAAAATATATTTAATAT
Found at i:58446907 original size:66 final size:64
Alignment explanation
Indices: 58446837--58447037 Score: 188
Period size: 66 Copynumber: 3.2 Consensus size: 64
58446827 AAATATATTT
58446837 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
58446902 G
64 G
* * * * * *
58446903 AATATTAATTATTAAGAATT-TTATTA-AAT-TCATGATATT-TTAATT-A-T-AA-T-ATAT-T
1 AATATTAATTATTTA-AATTATTTTTATAGTATCAT-ATATTATGATTTGAGTAAATTCATATAA
*
58446958 T
64 G
* *
58446959 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
58447024 G
64 G
*
58447025 AATATTGATTATT
1 AATATTAATTATT
58447038 AAGAATTTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
56 14 0.14
57 7 0.07
58 5 0.05
59 9 0.09
60 9 0.09
61 2 0.02
62 9 0.09
63 9 0.09
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:58446947 original size:15 final size:15
Alignment explanation
Indices: 58446937--58446977 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
58446927 TAAATTCATG
58446937 ATAT-TTTAATTATA
1 ATATATTTAATTATA
*
58446951 ATATATTTAATAATA
1 ATATATTTAATTATA
58446966 AT-TATGTTAATT
1 ATATAT-TTAATT
58446978 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:58446958 original size:122 final size:121
Alignment explanation
Indices: 58446799--58447098 Score: 498
Period size: 122 Copynumber: 2.5 Consensus size: 121
58446789 AATTATTTTA
* * *
58446799 AATTTTATT-AAGTCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
58446862 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58446919 AATTTTATTAAATTCATGATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTATTAAATTCAT-ATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATT
*
58446984 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58447041 AATTTTATTAAATT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
58447099 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
120 43 0.26
121 13 0.08
122 110 0.65
123 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (121 bp):
AATTTTATTAAATTCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58447070 original size:18 final size:17
Alignment explanation
Indices: 58447042--58447076 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58447032 ATTATTAAGA
*
58447042 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
58447059 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
58447077 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:58447330 original size:16 final size:16
Alignment explanation
Indices: 58447309--58447347 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
58447299 TTGATTTGCT
*
58447309 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
58447325 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
58447341 ATTACAC
1 ATTACAC
58447348 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:58447348 original size:16 final size:16
Alignment explanation
Indices: 58447322--58447378 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
58447312 ACACAGCTTT
* *
58447322 TCCATTACACCTCTAT
1 TCCAATACACCTCTAA
*
58447338 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
58447354 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
58447370 TCCAATACA
1 TCCAATACA
58447379 GCGAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:58449701 original size:44 final size:44
Alignment explanation
Indices: 58449582--58449755 Score: 213
Period size: 44 Copynumber: 3.9 Consensus size: 44
58449572 TCAGTTTATT
* * * ** *
58449582 TTTAACTTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGTTGTC
1 TTTAACCTGCCCCACTGCAACTTCAAGGAAATAAGACTTG-TATC
* ** *
58449627 TTCAGTCTGCTCCACTGCAACTTCAAGGAAATAAGACTTGTATC
1 TTTAACCTGCCCCACTGCAACTTCAAGGAAATAAGACTTGTATC
*
58449671 TTTAACCTGCCCCACTGCAACTTCAGGGAAATAAGACTTGTATC
1 TTTAACCTGCCCCACTGCAACTTCAAGGAAATAAGACTTGTATC
* **
58449715 TTTAACTTGCCCCACTGCAACTTCAAGGGGATAAGACTTGT
1 TTTAACCTGCCCCACTGCAACTTCAAGGAAATAAGACTTGT
58449756 TATGATAGAT
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 79 0.71
45 33 0.29
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TTTAACCTGCCCCACTGCAACTTCAAGGAAATAAGACTTGTATC
Found at i:58449907 original size:50 final size:50
Alignment explanation
Indices: 58449848--58450110 Score: 271
Period size: 50 Copynumber: 5.3 Consensus size: 50
58449838 GATGCGATTA
* * * *
58449848 GTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAAATTCACTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTT
** ** * **
58449898 GTAGCTTCAATCTATTCCACTGCACCG-CTAGGGAAGTAAGATTCATTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTC-AGGGAAGCAAGATTCGCTGTT
* *
58449948 GTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAAATTCGCTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTT
* ** * ** * *
58449998 GTAGCTTCAATTTATTCCACTGCACTACCAAGGAAGTAAGATTCGCTGTT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTT
* *
58450048 GTAGCTTCAATCTGTTTAACTGCAATGTC-GAGGAAGCAAGATTCGTTGTCT
1 GTAGCTTCAATCTATTTAACTGCAATGTCAG-GGAAGCAAGATTCGCTGT-T
58450099 -TAGCTTCAATCT
1 GTAGCTTCAATCT
58450111 GTTCCACTAC
Statistics
Matches: 171, Mismatches: 38, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 168 0.98
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (50 bp):
GTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGCAAGATTCGCTGTT
Found at i:58450133 original size:50 final size:50
Alignment explanation
Indices: 58449848--58450145 Score: 258
Period size: 50 Copynumber: 6.0 Consensus size: 50
58449838 GATGCGATTA
** * * * * * * *
58449848 GTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAAATTCACTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
* * **
58449898 GTAGCTTCAATCTATTCCACTGCACCGCTAGGGAAGTAAGATTCATTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
** * * * * *
58449948 GTAGCTTCAATCTATTTAACTGTAATGTCAGGGAAGCAAAATTCGCTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
* * *
58449998 GTAGCTTCAATTTATTCCACTGCACTACCAAGGAAGTAAGATTCGCTGTT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
* ** * * * *
58450048 GTAGCTTCAATCTGTTTAACTGCAATGTC-GAGGAAGCAAGATTCGTTGTCT
1 GTAGCTTCAATCTATTCCACTGCACTGCCAG-GGAAGTAAGATTCGCTGT-T
* * * *
58450099 -TAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCGCTG
1 GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTG
58450146 CCTTCAGCTT
Statistics
Matches: 194, Mismatches: 51, Indels: 6
0.77 0.20 0.02
Matches are distributed among these distances:
50 192 0.99
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (50 bp):
GTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAAGATTCGCTGTT
Found at i:58450142 original size:100 final size:100
Alignment explanation
Indices: 58449848--58450145 Score: 420
Period size: 100 Copynumber: 3.0 Consensus size: 100
58449838 GATGCGATTA
* *
58449848 GTAGCTTCAATCTATTTAACTGTAATGTCGGGGAAGCAAAATTCACTGTTGTAGCTTCAATCTAT
1 GTAGCTTCAATCTATTTAACTGTAATGTCGAGGAAGCAAAATTCGCTGTTGTAGCTTCAATCTAT
* **
58449913 TCCACTGCACCGCTAGGGAAGTAAGATTCATTGTT
66 TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
*
58449948 GTAGCTTCAATCTATTTAACTGTAATGTC-AGGGAAGCAAAATTCGCTGTTGTAGCTTCAATTTA
1 GTAGCTTCAATCTATTTAACTGTAATGTCGA-GGAAGCAAAATTCGCTGTTGTAGCTTCAATCTA
** *
58450012 TTCCACTGCACTACCAAGGAAGTAAGATTCGCTGTT
65 TTCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
* * * * *
58450048 GTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCGTTGTCT-TAGCTTCAATCTG
1 GTAGCTTCAATCTATTTAACTGTAATGTCGAGGAAGCAAAATTCGCTGT-TGTAGCTTCAATCTA
* *
58450112 TTCCACTACACCGCCAGGGAAGTAAAATTCGCTG
65 TTCCACTGCACCGCCAGGGAAGTAAGATTCGCTG
58450146 CCTTCAGCTT
Statistics
Matches: 175, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
100 173 0.99
101 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (100 bp):
GTAGCTTCAATCTATTTAACTGTAATGTCGAGGAAGCAAAATTCGCTGTTGTAGCTTCAATCTAT
TCCACTGCACCGCCAGGGAAGTAAGATTCGCTGTT
Done.