Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 81 of 204
Found at i:25005364 original size:46 final size:46
Alignment explanation
Indices: 25005291--25005429 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
25005281 ACAATACTAT
* * * *
25005291 AACTCTGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* *
25005337 GATTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
* *
25005383 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACATTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
25005429 A
1 A
25005430 CTTTGTCATG
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCAC
Found at i:25007492 original size:21 final size:20
Alignment explanation
Indices: 25007434--25007498 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
25007424 TTTTATAATC
25007434 TATA-ATTTATTTCTATTTTAT
1 TATATATTTATTT-TATTTT-T
**
25007455 TATATATTT-TTGAATTTTT
1 TATATATTTATTTTATTTTT
*
25007474 TATATATTTAATTTTATTTTC
1 TATATATTT-ATTTTATTTTT
25007495 TATA
1 TATA
25007499 AGTTTTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
21 17 0.47
22 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (20 bp):
TATATATTTATTTTATTTTT
Found at i:25012900 original size:40 final size:40
Alignment explanation
Indices: 25012851--25012932 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
25012841 TAAAATATTT
* * *
25012851 TTGAAATATTTATTATATTCTACTAATTATAAATGAAAAG
1 TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
* * *
25012891 TTGAAATATTTATAATGTTATAATATTTATAAGTGAAAAG
1 TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
25012931 TT
1 TT
25012933 AAAAGCAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (40 bp):
TTGAAATATTTATAATATTATAATAATTATAAATGAAAAG
Found at i:25015268 original size:2 final size:2
Alignment explanation
Indices: 25015261--25015294 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25015251 TTAGGGGGCA
25015261 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
25015295 GTTAACCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25016145 original size:16 final size:18
Alignment explanation
Indices: 25016125--25016163 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
25016115 TTGATTAAAT
25016125 TATTTAAT-ATAAAAACA
1 TATTTAATAATAAAAACA
*
25016142 -ATTTAATAATAGAAACA
1 TATTTAATAATAAAAACA
25016159 TATTT
1 TATTT
25016164 TGAAAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 8 0.42
18 4 0.21
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
TATTTAATAATAAAAACA
Found at i:25016814 original size:97 final size:90
Alignment explanation
Indices: 25016564--25016820 Score: 286
Period size: 88 Copynumber: 2.8 Consensus size: 90
25016554 AAACTTTTTC
* * * * *
25016564 AAAAAAAGCAATTAGGCCCCTACTTTTTTTTGCACTCAATTGTGAACTTGAACTTTCAAAATGCA
1 AAAAAAAGCAATTAAGCCCCTATTTTTTTTTGCACTCAATTGGGTACTTGAACTATCAAAATGCA
**
25016629 TAAAAAAATGCCCTCAAACTTAAAA
66 TAAAAAAAAACCCTCAAACTTAAAA
* * *
25016654 AAAAAAA--AATTAAACCCCTACTTTTTTTTT-CACTCAATTGGGTATTTGAACTACCAAAATGC
1 AAAAAAAGCAATTAAGCCCCTA-TTTTTTTTTGCACTCAATTGGGTACTTGAACTATCAAAATGC
25016716 ATAAAAAAAAACCCTCAAACTTTTTCAAAA
65 ATAAAAAAAAACCCTCAAAC---TT-AAAA
* * * *
25016746 AAAAAAAGCAATTAAGCCCTTATTTTTTCTTTTTGCACTCAATTGGGTACTTAAACTGTCAAACT
1 AAAAAAAGCAATTAAGCCCCTA--TTTT-TTTTTGCACTCAATTGGGTACTTGAACTATCAAAAT
*
25016811 GCATCAAAAA
63 GCATAAAAAA
25016821 GGTTAGGGGT
Statistics
Matches: 138, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
88 56 0.41
89 8 0.06
90 7 0.05
91 2 0.01
92 11 0.08
94 11 0.08
95 4 0.03
96 5 0.04
97 34 0.25
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (90 bp):
AAAAAAAGCAATTAAGCCCCTATTTTTTTTTGCACTCAATTGGGTACTTGAACTATCAAAATGCA
TAAAAAAAAACCCTCAAACTTAAAA
Found at i:25017294 original size:9 final size:9
Alignment explanation
Indices: 25017275--25017419 Score: 61
Period size: 9 Copynumber: 16.0 Consensus size: 9
25017265 TATATATTTG
25017275 ATAATTTTTT
1 ATAA-TTTTT
*
25017285 ATGATTTTT
1 ATAATTTTT
*
25017294 ATAAAATTTT
1 AT-AATTTTT
*
25017304 ACAATTCTTT
1 ATAATT-TTT
25017314 ATAAATTTTT
1 AT-AATTTTT
**
25017324 ACGATTTTT
1 ATAATTTTT
*
25017333 ATATTTTTT
1 ATAATTTTT
*
25017342 CTAA--TTT
1 ATAATTTTT
25017349 -T-ATTTTT
1 ATAATTTTT
*
25017356 A-AATATTT
1 ATAATTTTT
25017364 AT-ATATTTT
1 ATAAT-TTTT
* *
25017373 ATTAAAATTTA
1 A-T-AATTTTT
25017384 ATAATTTTT
1 ATAATTTTT
*
25017393 ATAATATTT
1 ATAATTTTT
*
25017402 ATTTATTTTT
1 A-TAATTTTT
25017412 AT-ATTTTT
1 ATAATTTTT
25017420 TGCCACATGT
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
5 1 0.01
6 1 0.01
7 6 0.06
8 14 0.14
9 43 0.43
10 26 0.26
11 8 0.08
12 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:25017303 original size:19 final size:19
Alignment explanation
Indices: 25017232--25017414 Score: 77
Period size: 20 Copynumber: 9.3 Consensus size: 19
25017222 TTCTTACGAC
25017232 TTTATAAAATTTTATAATT
1 TTTATAAAATTTTATAATT
* * *
25017251 TTTTTCTATATTTCTAT-ATAT
1 TTTAT-AAAATTT-TATAAT-T
* ** *
25017272 TTGATAATTTTTTATGATT
1 TTTATAAAATTTTATAATT
*
25017291 TTTATAAAATTTTACAATT
1 TTTATAAAATTTTATAATT
* **
25017310 CTTTATAAATTTTTACGATT
1 -TTTATAAAATTTTATAATT
** *
25017330 TTTAT-ATTTTTTCTAATTT
1 TTTATAAAATTTTATAA-TT
* *
25017349 TATTTTTAAATATTTAT-ATAT
1 T-TTATAAAAT-TTTATAAT-T
*
25017370 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTTATAATT
* *
25017390 TTTATAATA-TTTATTTATT
1 TTTATAAAATTTTA-TAATT
25017409 TTTATA
1 TTTATA
25017415 TTTTTTGCCA
Statistics
Matches: 123, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
18 10 0.08
19 44 0.36
20 46 0.37
21 19 0.15
22 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:25029445 original size:16 final size:16
Alignment explanation
Indices: 25029399--25029447 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
25029389 ATGTATTACA
* *
25029399 AATATTTTAAAAAAAT
1 AATATTTTATAAAATT
*
25029415 AATTTTTAATATAAAATT
1 AATATTT--TATAAAATT
25029433 AATATTTTATAAAAT
1 AATATTTTATAAAAT
25029448 AGTAACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATTTTATAAAATT
Found at i:25036389 original size:42 final size:42
Alignment explanation
Indices: 25036319--25036419 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
25036309 CGTGTCCTTA
*** *
25036319 CCCGTGTAACTCACTGAGTAGGGTCACACGACCATGTGCCAG
1 CCCGTGTAACTCACTGAGTAGCCACACACGACCATATGCCAG
* * *
25036361 CCCGTGTAACTCTCTGAGTTGCCACACACGACCATATGCTAG
1 CCCGTGTAACTCACTGAGTAGCCACACACGACCATATGCCAG
**
25036403 GTCGTGTAACTCACTGA
1 CCCGTGTAACTCACTGA
25036420 CTTAAAACAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.23
Consensus pattern (42 bp):
CCCGTGTAACTCACTGAGTAGCCACACACGACCATATGCCAG
Found at i:25039122 original size:16 final size:17
Alignment explanation
Indices: 25039090--25039123 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25039080 CAATTCAGTC
25039090 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
*
25039107 CAAAATT-ATGCTTTTG
1 CAAAATTCATACTTTTG
25039123 C
1 C
25039124 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:25042644 original size:31 final size:32
Alignment explanation
Indices: 25042585--25042649 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
25042575 GGCAAATTAC
25042585 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25042617 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25042648 AA
1 AA
25042650 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:25048522 original size:3 final size:3
Alignment explanation
Indices: 25048514--25048566 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
25048504 AAATTAGTTA
25048514 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25048562 AAT AA
1 AAT AA
25048567 AAGGATAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25048925 original size:31 final size:32
Alignment explanation
Indices: 25048866--25048930 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
25048856 GGCAAATTAC
*
25048866 AAGAGTAATTGAATTCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25048898 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
25048929 AA
1 AA
25048931 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:25058812 original size:23 final size:23
Alignment explanation
Indices: 25058786--25058829 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
25058776 GCCAATGAAT
25058786 TAAAAAAT-ATTAAATTTTTTTAA
1 TAAAAAATAATT-AATTTTTTTAA
*
25058809 TAAAATATAATTAATTTTTTT
1 TAAAAAATAATTAATTTTTTT
25058830 CTCGGGTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAAAATAATTAATTTTTTTAA
Found at i:25058902 original size:27 final size:27
Alignment explanation
Indices: 25058866--25058948 Score: 114
Period size: 27 Copynumber: 3.1 Consensus size: 27
25058856 ATACAAAGTA
*
25058866 GTGGTGCCTATCTCAGAGGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
25058893 GTGGTGCCTATCTGAGAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
*
25058920 GTGGTGCC-ATGTTGAGAGGCGCCAATG
1 GTGGTGCCTAT-CTGAGAGGCGCCAATG
25058947 GT
1 GT
25058949 CTTATTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 2 0.04
27 47 0.96
ACGTcount: A:0.18, C:0.22, G:0.36, T:0.24
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:25067663 original size:15 final size:16
Alignment explanation
Indices: 25067643--25067679 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
25067633 ACAAAATCAA
*
25067643 ATAAAA-TTACATTGT
1 ATAAAAGTTACATTAT
25067658 ATAAAAGTTACATTAT
1 ATAAAAGTTACATTAT
25067674 ATAAAA
1 ATAAAA
25067680 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
ATAAAAGTTACATTAT
Found at i:25067873 original size:60 final size:60
Alignment explanation
Indices: 25067799--25067920 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 60
25067789 ATACTAAACT
* * * *
25067799 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT-AATTATAAAATAATTAC
25067859 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
25067919 AA
1 AA
25067921 TATTCATACA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
59 4 0.07
60 53 0.93
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:25067967 original size:19 final size:20
Alignment explanation
Indices: 25067943--25068152 Score: 151
Period size: 19 Copynumber: 10.0 Consensus size: 20
25067933 AAATTACGAT
*
25067943 ATTACAATAGTCATAC-AAA
1 ATTACAATATTCATACAAAA
25067962 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC--AAAA
25067984 ATTACAATATTCATA-AAAA
1 ATTACAATATTCATACAAAA
*
25068003 AATACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
25068024 ATTACAATATTACAATATTCATACAA
1 ATTACAATATT-C-ATA--CA-A-AA
* * * * *
25068050 AATACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-AAAA
* * *
25068071 A-TACAAAATTAATTATAAAA
1 ATTACAATATTCA-TACAAAA
25068091 TCATTACAATATTCATAC-AAA
1 --ATTACAATATTCATACAAAA
25068112 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC-AAAA
*
25068133 ATTAGAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
25068153 TACTAATCCA
Statistics
Matches: 154, Mismatches: 18, Indels: 37
0.74 0.09 0.18
Matches are distributed among these distances:
19 49 0.32
20 12 0.08
21 41 0.27
22 23 0.15
23 13 0.08
24 5 0.03
25 4 0.03
26 7 0.05
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.29
Consensus pattern (20 bp):
ATTACAATATTCATACAAAA
Found at i:25067988 original size:41 final size:40
Alignment explanation
Indices: 25067943--25068032 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 40
25067933 AAATTACGAT
* *
25067943 ATTACAATAGTCATACAAAATTACAATATTCATACAAAAAA
1 ATTACAATAGTCATAAAAAAATACAATATTCATAC-AAAAA
*
25067984 ATTACAATATTCATAAAAAAATACAATATTCATACAAAAA
1 ATTACAATAGTCATAAAAAAATACAATATTCATACAAAAA
25068024 ATTACAATA
1 ATTACAATA
25068033 TTACAATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 14 0.30
41 32 0.70
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (40 bp):
ATTACAATAGTCATAAAAAAATACAATATTCATACAAAAA
Found at i:25068089 original size:89 final size:92
Alignment explanation
Indices: 25067895--25068152 Score: 280
Period size: 89 Copynumber: 2.9 Consensus size: 92
25067885 TAAATTACTA
*
25067895 ACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACGATATTACAATAGTCATACA
1 ACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATAGTCATACA
*
25067960 AAATTACAATATTCATACAAAAAAATT
66 AAATTACAATATCCATACAAAAAAATT
* *
25067987 AC-AA-T-ATTCATAAAA-AAATACAATATTCATACAAAAAATTACAATATTACAATATTCATAC
1 ACAAATTAATT-ATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATAGTCATAC
* *
25068048 AAAA-TACTA-ATCCA-A-AACTATAAA-T
65 AAAATTACAATATCCATACAA--AAAAATT
*
25068073 ACAAAATTAATTATAAAATCATTACAATATTCATAC--AAAATTACAATATT-C-ATA--CA-A-
1 AC-AAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATAGTCATAC
* *
25068130 AAAATTAGAATATTCATACAAAA
65 AAAATTACAATATCCATACAAAA
25068153 TACTAATCCA
Statistics
Matches: 142, Mismatches: 12, Indels: 32
0.76 0.06 0.17
Matches are distributed among these distances:
82 4 0.03
83 4 0.03
84 7 0.05
85 3 0.02
86 9 0.06
87 9 0.06
88 20 0.14
89 57 0.40
90 25 0.18
91 2 0.01
92 2 0.01
ACGTcount: A:0.56, C:0.13, G:0.01, T:0.29
Consensus pattern (92 bp):
ACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATAGTCATACA
AAATTACAATATCCATACAAAAAAATT
Found at i:25068515 original size:27 final size:27
Alignment explanation
Indices: 25068458--25068519 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
25068448 GGTCACCCAT
***
25068458 TGGCGCCTCCCTATGAGGCATTTTTAA
1 TGGCGCCTCCCTATGAGGCACAATTAA
* *
25068485 TGGCGCCTCTCTATGAGGCACAATTAG
1 TGGCGCCTCCCTATGAGGCACAATTAA
25068512 TGGCGCCT
1 TGGCGCCT
25068520 ACCTGACAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAATTAA
Found at i:25068855 original size:13 final size:13
Alignment explanation
Indices: 25068839--25068863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25068829 AAAAATATTT
25068839 TAAAAATAAAAAA
1 TAAAAATAAAAAA
25068852 TAAAAATAAAAA
1 TAAAAATAAAAA
25068864 TTTTTAAAGT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:25069268 original size:27 final size:27
Alignment explanation
Indices: 25069227--25069288 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
25069217 CTCTCAACAT
* *
25069227 GGCACCACTAATGGCGCCTGTCAGATA
1 GGCACCACCAATGGCGCCTCTCAGATA
* *
25069254 GGCACCACCATTGGCGCCTCTGAGATA
1 GGCACCACCAATGGCGCCTCTCAGATA
*
25069281 GGCGCCAC
1 GGCACCAC
25069289 TACTTTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.34, G:0.27, T:0.16
Consensus pattern (27 bp):
GGCACCACCAATGGCGCCTCTCAGATA
Found at i:25072290 original size:29 final size:30
Alignment explanation
Indices: 25072248--25072322 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
25072238 ACAAACGTAT
**
25072248 GAAAGATTAAAACCTTTTG-TTCAAAAAAA
1 GAAAGATTAAAACCTTTTGAAACAAAAAAA
*
25072277 GAAAGATTAAAACCTTTTGAAAGAAAAAAA
1 GAAAGATTAAAACCTTTTGAAACAAAAAAA
*
25072307 GAAAGATTGAAACCTT
1 GAAAGATTAAAACCTT
25072323 GAATTTATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 19 0.46
30 22 0.54
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (30 bp):
GAAAGATTAAAACCTTTTGAAACAAAAAAA
Found at i:25073274 original size:27 final size:25
Alignment explanation
Indices: 25073217--25073287 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
25073207 TAAAATTAAT
*
25073217 TTTTTAAAAATTT-AAAAATAAAAAC
1 TTTTT-AAAATTTAAAAAATAAAAAA
*
25073242 TCTTTAAAATTATAAAAAATAAAAAGA
1 TTTTTAAAATT-TAAAAAATAAAAA-A
*
25073269 TTTTTAAAATCTAAAAAAT
1 TTTTTAAAATTTAAAAAAT
25073288 TTCAAAATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
24 6 0.15
25 5 0.13
26 19 0.49
27 9 0.23
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (25 bp):
TTTTTAAAATTTAAAAAATAAAAAA
Found at i:25073409 original size:19 final size:21
Alignment explanation
Indices: 25073385--25073429 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
25073375 ATTGACCCAC
*
25073385 GAACCGG-TATAAAA-TGGTT
1 GAACCGGATATAAAACTAGTT
25073404 GAACCGGACTATAAAACTAGTT
1 GAACCGGA-TATAAAACTAGTT
25073426 GAAC
1 GAAC
25073430 TACAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
GAACCGGATATAAAACTAGTT
Found at i:25073465 original size:17 final size:16
Alignment explanation
Indices: 25073442--25073481 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
25073432 CAGTTGAACT
*
25073442 AATTTTTATATTTTTA
1 AATTTTTATAATTTTA
25073458 ATATTTTT-TAATTTTA
1 A-ATTTTTATAATTTTA
25073474 AATTTTTA
1 AATTTTTA
25073482 ATAACTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTTATAATTTTA
Found at i:25074049 original size:25 final size:27
Alignment explanation
Indices: 25073976--25074050 Score: 77
Period size: 30 Copynumber: 2.8 Consensus size: 27
25073966 TTAACATACT
*
25073976 TAATATAAAATTTGA-TTAAATTAAAA
1 TAATATAAAATTTAATTTAAATTAAAA
25074002 T-ATATAAAACTATTAAATGTTAAATTAAAA
1 TAATATAAAA-T-TT-AAT-TTAAATTAAAA
25074032 TAATAT-AAATTT-ATTTAAA
1 TAATATAAAATTTAATTTAAA
25074051 AAATTTAGAA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
25 13 0.31
26 4 0.10
27 2 0.05
28 3 0.07
29 1 0.02
30 15 0.36
31 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (27 bp):
TAATATAAAATTTAATTTAAATTAAAA
Found at i:25076853 original size:18 final size:18
Alignment explanation
Indices: 25076821--25076855 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25076811 TAAAAAAAAC
*
25076821 TAGAATAATAGTACATAA
1 TAGAATAAAAGTACATAA
*
25076839 TAGAATAAAATTACATA
1 TAGAATAAAAGTACATA
25076856 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
TAGAATAAAAGTACATAA
Found at i:25076899 original size:6 final size:6
Alignment explanation
Indices: 25076890--25076964 Score: 60
Period size: 6 Copynumber: 12.5 Consensus size: 6
25076880 AAAATAATGC
* * * * * *
25076890 TAACAA TAACAA CAACAA CAACAA CAACAA CAACAA CAACAA CAACAA
1 TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA TAACAA
* * * *
25076938 TAATAA TAATAA TAATAA TAATAA TAA
1 TAACAA TAACAA TAACAA TAACAA TAA
25076965 GATTAATTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.67, C:0.19, G:0.00, T:0.15
Consensus pattern (6 bp):
TAACAA
Found at i:25076905 original size:3 final size:3
Alignment explanation
Indices: 25076891--25076937 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
25076881 AAATAATGCT
*
25076891 AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
25076938 TAATAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:25076942 original size:3 final size:3
Alignment explanation
Indices: 25076936--25076964 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25076926 CAACAACAAC
25076936 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25076965 GATTAATTTT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25077964 original size:25 final size:25
Alignment explanation
Indices: 25077911--25077970 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
25077901 AAGAAAATCC
*
25077911 AAAAGAATGAAAGAATAATTACTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
25077936 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
25077961 AAAA-AATGAA
1 AAAAGAATGAA
25077971 TGAGAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 9 0.28
25 23 0.72
ACGTcount: A:0.58, C:0.07, G:0.17, T:0.18
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:25080301 original size:388 final size:390
Alignment explanation
Indices: 25079543--25080329 Score: 1454
Period size: 388 Copynumber: 2.0 Consensus size: 390
25079533 AATTCCAGGG
25079543 GACCTTTTTGCTATCCTTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCT
1 GACCTTTTTGCTATCCTTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCT
*
25079608 GTGCCCCTACCTCGTTAATATTAGGGCGCGAGATGATAATCACAGGATGATTTACTTTCAGAATT
66 GTGCCCCTACCTCGTTAATATTAGGGCACGAGATGATAATCACAGGATGATTTACTTTCAGAATT
*
25079673 CTCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCTACTTCTTCATAAAACTCTATTTC
131 CTCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTTC
* *
25079738 TTTATTATCCATCATGCTCTGGACCAGAACTCTGAATTCTTCACATCTTTGGATTTCGTGCCCCA
196 TTTATTATCCATCATGCTCCGGACCAGAACTCTGAATTCTTCACATCTTTGCATTTCGTGCCCCA
25079803 CCTCATGATGGAACTCACAATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAAC
261 CCTCATGATGGAACTCACAATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAAC
25079868 CCTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTT
326 CCTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTT
*
25079933 GACCTTTTTGTTATCCTTATATGAGAAATTT-ACTGGTTT-T-AATTACGATCTTTGGTGTCACC
1 GACCTTTTTGCTATCCTTATATGAGAAATTTGA-TGGTTTCTGAATTACGATCTTTGGTGTCACC
*
25079995 TGTGCCCCTACCTCGTTAATATTAGGGCACGATATGATAATCACAGGATGATTTACTTTCAGAAT
65 TGTGCCCCTACCTCGTTAATATTAGGGCACGAGATGATAATCACAGGATGATTTACTTTCAGAAT
* *
25080060 TCTCATCATTGACTCCGACGCGCATATGCTTCTTTTTTCCTCCGCTTCTTCATAAAACTCTATTT
130 TCTCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTT
25080125 CTTTATTATCCATCATGCTCCGGACCAGAACTCTGAATTCTTCACATCTTTGCATTTCGTGCCCC
195 CTTTATTATCCATCATGCTCCGGACCAGAACTCTGAATTCTTCACATCTTTGCATTTCGTGCCCC
*
25080190 ACCTCATGATGGAACTCACTATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAA
260 ACCTCATGATGGAACTCACAATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAA
25080255 CCCTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCT
325 CCCTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCT
25080320 T
390 T
25080321 GACTCTTTT
1 GAC-CTTTT
25080330 CCCTATATTT
Statistics
Matches: 386, Mismatches: 9, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
388 343 0.89
389 7 0.02
390 36 0.09
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (390 bp):
GACCTTTTTGCTATCCTTATATGAGAAATTTGATGGTTTCTGAATTACGATCTTTGGTGTCACCT
GTGCCCCTACCTCGTTAATATTAGGGCACGAGATGATAATCACAGGATGATTTACTTTCAGAATT
CTCATCATTGACTCCGACGCGCATATGCTTCCTTTTTCCTCCACTTCTTCATAAAACTCTATTTC
TTTATTATCCATCATGCTCCGGACCAGAACTCTGAATTCTTCACATCTTTGCATTTCGTGCCCCA
CCTCATGATGGAACTCACAATAATTTTTGGTCTCACCACCTTCCTCTAAATCCAAAATGATTAAC
CCTCTTCTTGCCATCTCTTCCCAAACCCATTTCAAAGGGGTTTTCACTTCAGCAATATTTGCCTT
Found at i:25081597 original size:28 final size:28
Alignment explanation
Indices: 25081520--25081599 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
25081510 TATTGGATTT
25081520 TAAAAAAAATAA-AATAGTACAT--T-A
1 TAAAAAAAATAATAATAGTACATAATAA
* *
25081544 TAAAATTAAATAATAATA-TATGATAATAA
1 TAAAA-AAAATAATAATAGTA-CATAATAA
*
25081573 TAAAAAAAAGAATAATAGTACATAATA
1 TAAAAAAAATAATAATAGTACATAATA
25081600 GAATAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 5 0.11
25 8 0.18
26 6 0.14
28 17 0.39
29 8 0.18
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (28 bp):
TAAAAAAAATAATAATAGTACATAATAA
Found at i:25081612 original size:18 final size:18
Alignment explanation
Indices: 25081581--25081630 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
25081571 AATAAAAAAA
* *
25081581 AGAATAATAGTACATAAT
1 AGAATAAAATTACATAAT
25081599 AGAATAAAATTACAT-AT
1 AGAATAAAATTACATAAT
*
25081616 A-AA-AAAATTAGATAA
1 AGAATAAAATTACATAA
25081631 ATTGCCATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 3 0.11
17 3 0.11
18 13 0.46
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (18 bp):
AGAATAAAATTACATAAT
Found at i:25081662 original size:15 final size:15
Alignment explanation
Indices: 25081650--25081679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25081640 ACAATAATGC
*
25081650 TAACGATAATAATAA
1 TAACAATAATAATAA
25081665 TAACAATAATAATAA
1 TAACAATAATAATAA
25081680 GATTAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
TAACAATAATAATAA
Found at i:25084355 original size:5 final size:5
Alignment explanation
Indices: 25084345--25084372 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25084335 TTTTTTAAAT
25084345 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
25084373 TATAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:25089364 original size:18 final size:20
Alignment explanation
Indices: 25089327--25089371 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
25089317 TCTTTTCACG
25089327 TTCTTTTTCTTTGGGTTTTCC
1 TTCTTTTTCTTT-GGTTTTCC
*
25089348 TTCTTTTT-TTT-GTTTTCT
1 TTCTTTTTCTTTGGTTTTCC
25089366 TTCTTT
1 TTCTTT
25089372 GTTTACTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.76
Consensus pattern (20 bp):
TTCTTTTTCTTTGGTTTTCC
Found at i:25090218 original size:16 final size:16
Alignment explanation
Indices: 25090199--25090256 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
25090189 ATTATATTTT
25090199 TATATTTGTATATCTG
1 TATATTTGTATATCTG
* ** *
25090215 TATATCTACACATCTG
1 TATATTTGTATATCTG
* *
25090231 TATATTGGTATATCTT
1 TATATTTGTATATCTG
25090247 TAT-TTTGTAT
1 TATATTTGTAT
25090257 CTATATATGG
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
15 6 0.19
16 25 0.81
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.53
Consensus pattern (16 bp):
TATATTTGTATATCTG
Found at i:25091140 original size:12 final size:12
Alignment explanation
Indices: 25091123--25091149 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25091113 CATACCAAAC
25091123 CATGAATTAGCA
1 CATGAATTAGCA
25091135 CATGAATTAGCA
1 CATGAATTAGCA
25091147 CAT
1 CAT
25091150 TATTAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATGAATTAGCA
Found at i:25095989 original size:22 final size:22
Alignment explanation
Indices: 25095961--25096004 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25095951 CCCACTACGA
**
25095961 TTAACACTCCGTTCATCAGTGT
1 TTAACACTCCACTCATCAGTGT
25095983 TTAACACTCCACTCATCAGTGT
1 TTAACACTCCACTCATCAGTGT
25096005 CTCCCACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
TTAACACTCCACTCATCAGTGT
Found at i:25104783 original size:43 final size:43
Alignment explanation
Indices: 25104726--25105191 Score: 619
Period size: 43 Copynumber: 10.8 Consensus size: 43
25104716 TTTTTATAAT
*
25104726 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCCTATCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
25104769 AAAGGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCTATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
25104812 AAATGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCTATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
25104855 AAACGCCGCTATAGACCATGGTATTTAGCGGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
25104898 AAATGCCGCTATAGACCATGGTCTTTAACGGCGCTTATCCATA
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
25104941 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTTTGCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * * * * **
25104984 AAACGCCGCTATAGACCACGGTCTTTAGAGGTGTTTTTGTATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * * * *
25105027 AAAGGCCACTATAGACCATAGTCTTTAGCGGGGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * *
25105070 AAACGCCGCTACAGCCCATGGTCTTTAGCGGCGCTTACCCATC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* * * *
25105113 AAACGCCGCTATAGACCTTGGTCTTTAGCGGCGCTTAACAAAC
1 AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
* *
25105156 AAACGCCGCTATAG-CTCATGGTTTTTAGCGGTGCTT
1 AAACGCCGCTATAGAC-CATGGTCTTTAGCGGCGCTT
25105192 TTAGAAAAAC
Statistics
Matches: 375, Mismatches: 47, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
42 1 0.00
43 374 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGACCATGGTCTTTAGCGGCGCTTATCCATC
Found at i:25105536 original size:21 final size:21
Alignment explanation
Indices: 25105510--25105568 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
25105500 TTTAAGCTGT
25105510 TCTACTTCCCTCGCTGCAGCC
1 TCTACTTCCCTCGCTGCAGCC
** *
25105531 TCTACTTCCCTCATTGTAGCC
1 TCTACTTCCCTCGCTGCAGCC
* *
25105552 TCTGCTTCTCTCGCTGC
1 TCTACTTCCCTCGCTGC
25105569 CACATTTGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.08, C:0.42, G:0.14, T:0.36
Consensus pattern (21 bp):
TCTACTTCCCTCGCTGCAGCC
Found at i:25105645 original size:21 final size:21
Alignment explanation
Indices: 25105616--25105666 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
25105606 TTTCATTGAA
* *
25105616 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCCG
25105637 CCTCTGCTTCTCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCCG
*
25105658 CATCTGCTT
1 CCTCTGCTT
25105667 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.35
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCCG
Found at i:25105647 original size:87 final size:87
Alignment explanation
Indices: 25105549--25105732 Score: 273
Period size: 87 Copynumber: 2.1 Consensus size: 87
25105539 CCTCATTGTA
* *
25105549 GCCTCTGCTTCTCTCGCTGCCACATTTGCTTTAAGTTGCT-GCTGGAGTTGTTCATA-CTTTCAT
1 GCCTCTGCTTCTCTCGCTGCCACATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-AT
*
25105612 TGAACCTCAGCTTCTCTCGCTGCT
64 TGAACCTCAGCTTCTCTCGATGCT
* *
25105636 GCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTG
1 GCCTCTGCTTCTCTCGCTGCCACATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTG
*
25105701 AACCTCAGCTTCTCTCGATGTT
66 AACCTCAGCTTCTCTCGATGCT
*
25105723 GCCTCCGCTT
1 GCCTCTGCTT
25105733 TAAGTTGTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 1 0.01
87 83 0.94
88 4 0.05
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.40
Consensus pattern (87 bp):
GCCTCTGCTTCTCTCGCTGCCACATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTG
AACCTCAGCTTCTCTCGATGCT
Found at i:25113300 original size:16 final size:15
Alignment explanation
Indices: 25113279--25113308 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25113269 GTAAATGGAG
25113279 TTAGGGATTTCAGAAC
1 TTAGGGATTT-AGAAC
25113295 TTAGGGATTTAGAA
1 TTAGGGATTTAGAA
25113309 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (15 bp):
TTAGGGATTTAGAAC
Found at i:25114788 original size:22 final size:22
Alignment explanation
Indices: 25114760--25114828 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
25114750 TGTTGATAGT
*
25114760 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
25114782 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
25114804 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
25114826 ACG
1 ACG
25114829 AATTTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:25114900 original size:23 final size:23
Alignment explanation
Indices: 25114857--25114901 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25114847 TGCTTTTGTA
*
25114857 CCCTAAAACCCGAAGCTATTAAT
1 CCCTAAAACCCGAAACTATTAAT
*
25114880 CCCTATAACCCGTAAAC-ATTAA
1 CCCTAAAACCCG-AAACTATTAA
25114902 AATTAAAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.40, C:0.31, G:0.07, T:0.22
Consensus pattern (23 bp):
CCCTAAAACCCGAAACTATTAAT
Found at i:25116168 original size:38 final size:39
Alignment explanation
Indices: 25116110--25116255 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 39
25116100 TTACTCTATT
* * *
25116110 GCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTTTA
1 GCGGCGTTTTTTATAAAACGCCGCTAATGCTTGATTTTA
** * *
25116149 GCGGC-TTTTTTATGTAACGCCGCTAATGCTCGATATTTT
1 GCGGCGTTTTTTATAAAACGCCGCTAATGCTTGAT-TTTA
* *
25116188 GCGGCGTTTTTCATAAAATGCCGCTAATGCTTGATTGTTA
1 GCGGCGTTTTTTATAAAACGCCGCTAATGCTTGATT-TTA
* * *
25116228 GTGGCGTTTTTTGTCCAAACGCCGCTAA
1 GCGGCGTTTTTTAT-AAAACGCCGCTAA
25116256 AAGCGCCGCT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
38 23 0.27
39 14 0.16
40 37 0.44
41 11 0.13
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (39 bp):
GCGGCGTTTTTTATAAAACGCCGCTAATGCTTGATTTTA
Found at i:25124197 original size:20 final size:20
Alignment explanation
Indices: 25124160--25124199 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25124150 GTCAATAAAT
*
25124160 AATTTAAAAGTTATAAAAAA
1 AATTTAAAAGTTAAAAAAAA
25124180 AATTGTAAAA-TTAAAAAAAA
1 AATT-TAAAAGTTAAAAAAAA
25124200 CATGAAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTTAAAAGTTAAAAAAAA
Found at i:25124198 original size:19 final size:20
Alignment explanation
Indices: 25124160--25124199 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
25124150 GTCAATAAAT
25124160 AATTTAAAAGTTATAAAAAA
1 AATTTAAAAGTTATAAAAAA
25124180 AATTGTAAAA-TTA-AAAAAA
1 AATT-TAAAAGTTATAAAAAA
25124199 A
1 A
25124200 CATGAAGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTTAAAAGTTATAAAAAA
Found at i:25126535 original size:24 final size:24
Alignment explanation
Indices: 25126493--25126544 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
25126483 AATCAAAGTC
** *
25126493 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
25126517 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
25126541 AAAT
1 AAAT
25126545 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:25131331 original size:19 final size:21
Alignment explanation
Indices: 25131304--25131353 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
25131294 TATTTATACT
*
25131304 TATTCTTTATAT-AA-AAATA
1 TATTTTTTATATGAATAAATA
25131323 TATTTTTTATATGAATAAATA
1 TATTTTTTATATGAATAAATA
*
25131344 AAGTTTTTTA
1 TA-TTTTTTA
25131354 AGATCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 11 0.42
20 2 0.08
21 6 0.23
22 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
TATTTTTTATATGAATAAATA
Found at i:25131350 original size:21 final size:19
Alignment explanation
Indices: 25131309--25131351 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
25131299 ATACTTATTC
* *
25131309 TTTATATAAAAATATATTT
1 TTTATATAAAAATAAAGTT
25131328 TTTATATGAATAAATAAAGTT
1 TTTATAT-AA-AAATAAAGTT
25131349 TTT
1 TTT
25131352 TAAGATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTATATAAAAATAAAGTT
Found at i:25136030 original size:9 final size:9
Alignment explanation
Indices: 25136016--25136046 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
25136006 TTGGTTATAA
25136016 TTACAGTAT
1 TTACAGTAT
25136025 TTACAGTAT
1 TTACAGTAT
25136034 TTACAGTAT
1 TTACAGTAT
25136043 TTAC
1 TTAC
25136047 TGTTTGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (9 bp):
TTACAGTAT
Found at i:25136691 original size:34 final size:35
Alignment explanation
Indices: 25136647--25136713 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
25136637 CAGTAAAATA
*
25136647 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
25136681 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
25136714 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:25138235 original size:49 final size:49
Alignment explanation
Indices: 25138178--25138281 Score: 163
Period size: 49 Copynumber: 2.1 Consensus size: 49
25138168 TCATGTGTTA
* ** * *
25138178 TAATTTTATAAAGTGTTGAGGTTTTGATTCATGATGTTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
25138227 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
25138276 TAATTT
1 TAATTT
25138282 ATTTTTTTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:25139697 original size:20 final size:20
Alignment explanation
Indices: 25139666--25139715 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
25139656 ACTATTATAT
*
25139666 ATTATGATTTTAGTACATTAA
1 ATTAT-ATTTTAGCACATTAA
25139687 ATTATATTTTAGCACATTAA
1 ATTATATTTTAGCACATTAA
25139707 ATTATATTT
1 ATTATATTT
25139716 AATAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (20 bp):
ATTATATTTTAGCACATTAA
Found at i:25139813 original size:61 final size:61
Alignment explanation
Indices: 25139748--25140053 Score: 267
Period size: 61 Copynumber: 5.1 Consensus size: 61
25139738 ATTTTATAGT
* *
25139748 ATTATATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAA
1 ATTATATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAA
* * * *
25139809 A-T-TATAT-AT--TTTTATTAAATT-ATATTTAATAAT-TATAATTTTAAATTATATTTTA-TA
1 ATTATATATAATGATTTTAGTAAATTCATA--TAATAATATTTAATATT-AA-GA-ATTTTATTA
*
25139866 GT
61 -A
*
25139868 ATTATATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAA
** * ** * * * * * * *
25139929 ATTATATATTTTTATTAAATTATATTTA-ATAATTATTATTTTAGATT-A-AATTTTA-TACT
1 ATTATATATAATGATTTTAGTAAATTCATATAA-TAATATTTAATATTAAGAATTTTATTA-A
*
25139988 ATTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAA
25140049 ATTAT
1 ATTAT
25140054 TTATTTTTTA
Statistics
Matches: 188, Mismatches: 37, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
55 3 0.02
56 18 0.10
57 8 0.04
58 7 0.04
59 50 0.27
60 12 0.06
61 54 0.29
62 7 0.04
63 8 0.04
64 18 0.10
65 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAA
Found at i:25139815 original size:59 final size:59
Alignment explanation
Indices: 25139752--25140053 Score: 252
Period size: 56 Copynumber: 5.1 Consensus size: 59
25139742 TATAGTATTA
* *
25139752 TATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAAT
1 TATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAAT
* * * * *
25139811 TATAT-AT--TTTTATTAAATT-ATATTTAATAAT-TATAATTTTAAATTATATTTTA-TAGTAT
1 TATATAATGATTTTAGTAAATTCATA--TAATAATATTTAATATT-AA-GA-ATTTTATTA--AA
25139870 T
59 T
*
25139871 ATATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 -TATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAAT
* * * *
25139931 TATAT-AT--TTTTATTAAATT-ATATTTAATAAT-TATT-ATTTTAGATTAAATTTTA-TACTA
1 TATATAATGATTTTAGTAAATTCATA--TAATAATAT-TTAATATTA-A--GAATTTTATTA-AA
25139989 T
59 T
25139990 TATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAAT
1 TATATA--ATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAAT
25140051 TAT
1 TAT
25140054 TTATTTTTTA
Statistics
Matches: 191, Mismatches: 22, Indels: 58
0.70 0.08 0.21
Matches are distributed among these distances:
55 6 0.03
56 35 0.18
57 17 0.09
58 9 0.05
59 29 0.15
60 4 0.02
61 23 0.12
62 9 0.05
63 18 0.09
64 35 0.18
65 6 0.03
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (59 bp):
TATATAATGATTTTAGTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAAT
Found at i:25139841 original size:120 final size:120
Alignment explanation
Indices: 25139702--25140085 Score: 664
Period size: 120 Copynumber: 3.2 Consensus size: 120
25139692 ATTTTAGCAC
25139702 ATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATAATGATTTTA
1 ATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATAATGATTTTA
*
25139767 GTAAATTCATATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTT
66 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTT
* * *
25139822 ATTAAATTATATTTAATAATTATAATTTTAAATTATATTTTATAGTATTATATATAATGATTTTA
1 ATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATAATGATTTTA
25139887 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTT
66 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTT
* * * *
25139942 ATTAAATTATATTTAATAATTATTATTTTAGATTAAATTTTATACTATTATATATTATGATTTTA
1 ATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATAATGATTTTA
* *
25140007 GTAAATTCATATAATAATATTTAATATTAAGAATTTTATTAAATTATTTA-TTTT
66 GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTT
25140061 -TTAAATTATATTTAATAATAATTAT
1 ATTAAATTATATTTAATAATAATTAT
25140086 GTTAAAATAT
Statistics
Matches: 252, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
118 24 0.10
119 4 0.02
120 224 0.89
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTAAATTATATTTAATAATAATTATTTTAGATTATATTTTATAGTATTATATATAATGATTTTA
GTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTT
Found at i:25139980 original size:18 final size:17
Alignment explanation
Indices: 25139919--25139984 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
25139909 AATATTAAGA
25139919 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTAT-T
*
25139936 ATTTTTATTAAATTA-T
1 ATTTTAATTAAATTATT
25139952 A-TTTAA-T-AATTATT
1 ATTTTAATTAAATTATT
25139966 ATTTTAGATTAAATT-TT
1 ATTTTA-ATTAAATTATT
25139983 AT
1 AT
25139985 ACTATTATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 5 0.12
14 3 0.07
15 8 0.19
16 3 0.07
17 10 0.24
18 13 0.31
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTAATTAAATTATT
Found at i:25140072 original size:26 final size:27
Alignment explanation
Indices: 25140038--25140113 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 27
25140028 TAATATTAAG
* *
25140038 AATTTTATTAAATTATTTATT-TTTTA
1 AATTATATTAAATTATTTATTATGTTA
* * *
25140064 AATTATATTTAA-TAATAATTATGTTA
1 AATTATATTAAATTATTTATTATGTTA
*
25140090 AAATATGATTAAATTATTTATTAT
1 AATTAT-ATTAAATTATTTATTAT
25140114 TATTTATATT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 6 0.16
26 19 0.50
27 5 0.13
28 8 0.21
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
AATTATATTAAATTATTTATTATGTTA
Found at i:25140082 original size:61 final size:61
Alignment explanation
Indices: 25139777--25140082 Score: 214
Period size: 59 Copynumber: 5.1 Consensus size: 61
25139767 GTAAATTCAT
* *
25139777 ATAAGAATATTTAATATTAAGAATTGTATTAAATTATATATTTTTATTAAATTATATTTAATA
1 ATAATAATATTTAATATTAAGAATTTTATTAAATTATATA-TTTT-TTAAATTATATTTAATA
* * * * * *
25139840 ATTATAAT-TTTAA-ATT-A-TATTTTA-TAGTATTATATATAATGATTTT--AGTA-AATTCAT
1 ATAATAATATTTAATATTAAGAATTTTATTA-AATTATATAT--T--TTTTAAATTATATTTAAT
25139897 -
61 A
*
25139897 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATA
1 ATAATAATATTTAATATTAAGAATTTTATTAAATTATATA-TTTT-TTAAATTATATTTAATA
* * * * * * * *
25139960 AT--TATTATTTTAGATT-A-AATTTTA-TACTATTATATATTATGATTT-TAGTA-AATTCAT-
1 ATAATAATATTTAATATTAAGAATTTTATTA-AATTATATATT-T--TTTAAATTATATTTAATA
*
25140017 ATAATAATATTTAATATTAAGAATTTTATTAAATTATTTATTTTTTAAATTATATTTAATA
1 ATAATAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTTAAATTATATTTAATA
25140078 ATAAT
1 ATAAT
25140083 TATGTTAAAA
Statistics
Matches: 182, Mismatches: 33, Indels: 58
0.67 0.12 0.21
Matches are distributed among these distances:
57 8 0.04
58 27 0.15
59 54 0.30
60 14 0.08
61 54 0.30
62 17 0.09
63 8 0.04
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (61 bp):
ATAATAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTTAAATTATATTTAATA
Found at i:25143667 original size:14 final size:14
Alignment explanation
Indices: 25143648--25143677 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25143638 ATCTATTTAC
*
25143648 TATAATATTTTGAA
1 TATAATATTTTAAA
25143662 TATAATATTTTAAA
1 TATAATATTTTAAA
25143676 TA
1 TA
25143678 AAAAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TATAATATTTTAAA
Found at i:25148241 original size:17 final size:16
Alignment explanation
Indices: 25148212--25148245 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
25148202 TTTGCAATCG
25148212 ATTTTTTTATATTTTT
1 ATTTTTTTATATTTTT
*
25148228 ATTTTTGTTTTATTTTT
1 ATTTTT-TTATATTTTT
25148245 A
1 A
25148246 AACAACGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
ATTTTTTTATATTTTT
Found at i:25149049 original size:2 final size:2
Alignment explanation
Indices: 25149042--25149071 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
25149032 TTCTAACTTT
25149042 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
25149072 CGTCTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25149895 original size:22 final size:22
Alignment explanation
Indices: 25149867--25149911 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
25149857 TTTCTCGAGA
25149867 CGAGGATTTTTCGAAATAAATG
1 CGAGGATTTTTCGAAATAAATG
25149889 CGAGGATTTTTCGAAATAAATG
1 CGAGGATTTTTCGAAATAAATG
25149911 C
1 C
25149912 AATATTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (22 bp):
CGAGGATTTTTCGAAATAAATG
Found at i:25151100 original size:21 final size:21
Alignment explanation
Indices: 25151074--25151126 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
25151064 AGCGGTGGCG
*
25151074 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
25151095 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
25151116 GTGAGATTAGA
1 GTGAGATTAGA
25151127 AACAATGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:25156099 original size:38 final size:40
Alignment explanation
Indices: 25155994--25156099 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 40
25155984 AGAGAATTTT
* * * *
25155994 TTTCAATATATTCAGTAGGTATGGCTTGAGAGCACATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACG
* * *
25156034 TTTCAGTAGATTCAATAGGTAAGGCTCGAAAGCGCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACG
* *
25156074 -TT-AGTAGATTTAGTAGGTATCGCTCG
1 TTTCAGTAGATTCAGTAGGTATGGCTCG
25156100 TCTGAGCACC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 20 0.36
39 2 0.04
40 33 0.60
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCGAAAGCACATACG
Found at i:25166329 original size:55 final size:55
Alignment explanation
Indices: 25166270--25166419 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 55
25166260 TTTGGATTTG
*
25166270 AACTGATTGTTATGTTGAAATATTGTTTCTTTTGAATCAATTGTATATATGTTTA
1 AACTGATTGTTATGTTGAAATATTGTTTCTTTTAAATCAATTGTATATATGTTTA
* * * ** *
25166325 AACTGATTGTCATGTTGAAATA---CTACTTTTAAATTGATTGTTTATATGTTTA
1 AACTGATTGTTATGTTGAAATATTGTTTCTTTTAAATCAATTGTATATATGTTTA
25166377 AA-TCGATTGTTATGTT-AGAAT-TCTGTTTCTTTTAAATCAATTG
1 AACT-GATTGTTATGTTGA-AATAT-TGTTTCTTTTAAATCAATTG
25166420 ATACGTAGCA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
51 2 0.03
52 40 0.52
55 35 0.45
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.49
Consensus pattern (55 bp):
AACTGATTGTTATGTTGAAATATTGTTTCTTTTAAATCAATTGTATATATGTTTA
Found at i:25180987 original size:40 final size:40
Alignment explanation
Indices: 25180943--25181033 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
25180933 CGTTTGGACA
* **
25180943 AAAAACGTCGCTATAGATCGAGC-ATTAGTGGCGCTTTT-TG
1 AAAAACGCCGCTATAGATCGA-CAATTAGCAGCG-TTTTCTG
*
25180983 AAAAACGCCGCTATAGGTCGACAATTAGCAGCGTTTTCTG
1 AAAAACGCCGCTATAGATCGACAATTAGCAGCGTTTTCTG
25181023 AAAAACGCCGC
1 AAAAACGCCGC
25181034 AAAAACAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 5 0.11
40 40 0.89
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGACAATTAGCAGCGTTTTCTG
Found at i:25181228 original size:40 final size:40
Alignment explanation
Indices: 25181143--25181292 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 40
25181133 AGCTTTAGTG
* * *
25181143 GCATTAGCGGCGCTTTTTGAAAAACACCGCTT-TAGGTCGA
1 GCATTAGCGACGCTTTTTGAAAAACGCCG-TTATAGATCGA
* **
25181183 CCATTAGCGACGCTTTTTGAAAAACGTTGTTATAGATCGA
1 GCATTAGCGACGCTTTTTGAAAAACGCCGTTATAGATCGA
**
25181223 GCATTAGC-AGCGCTTCTTT-AAAAACGCCACTATAGATCGA
1 GCATTAGCGA-CGCTT-TTTGAAAAACGCCGTTATAGATCGA
** * * *
25181263 GCATTAATGGCGCTTTCTAAAAAACGCCGT
1 GCATTAGCGACGCTTTTTGAAAAACGCCGT
25181293 AAAAAATTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
39 5 0.06
40 80 0.91
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
GCATTAGCGACGCTTTTTGAAAAACGCCGTTATAGATCGA
Found at i:25181874 original size:15 final size:15
Alignment explanation
Indices: 25181832--25181896 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
25181822 GTTTATGGAC
25181832 TATGGGTTTAGGGATT
1 TATGGGTTTAGGG-TT
* *
25181848 ATATATGGTTTATGGTT
1 -TAT-GGGTTTAGGGTT
25181865 TATGGGTTTAAGGG-T
1 TATGGGTTT-AGGGTT
*
25181880 TAGGGGTTTAGGGTT
1 TATGGGTTTAGGGTT
25181895 TA
1 TA
25181897 ATGTTTATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
14 4 0.10
15 17 0.43
16 6 0.15
17 5 0.12
18 8 0.20
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (15 bp):
TATGGGTTTAGGGTT
Found at i:25181946 original size:7 final size:7
Alignment explanation
Indices: 25181854--25181947 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
25181844 GATTATATAT
*
25181854 GGTTTAT
1 GGTTTAG
25181861 GGTTTATG
1 GGTTTA-G
25181869 GGTTTAAG
1 GGTTT-AG
25181877 GG-TTAGG
1 GGTTTA-G
25181884 GGTTTAG
1 GGTTTAG
*
25181891 GGTTTAA
1 GGTTTAG
* *
25181898 TGTTTAT
1 GGTTTAG
* *
25181905 GATTTAT
1 GGTTTAG
* *
25181912 GATTTAA
1 GGTTTAG
25181919 GGTTTAG
1 GGTTTAG
**
25181926 GGGATAG
1 GGTTTAG
25181933 AGGTTTAG
1 -GGTTTAG
25181941 GGTTTAG
1 GGTTTAG
25181948 ATTAATTAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
6 1 0.01
7 51 0.74
8 16 0.23
9 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:25181948 original size:15 final size:15
Alignment explanation
Indices: 25181861--25181948 Score: 51
Period size: 15 Copynumber: 6.0 Consensus size: 15
25181851 TATGGTTTAT
25181861 GGTTTATGGGTTTA-A
1 GGTTTA-GGGTTTAGA
*
25181876 GGGTTAGGGGTTTAG-
1 GGTTTA-GGGTTTAGA
**
25181891 GGTTTAATGTTTATGA
1 GGTTTAGGGTTTA-GA
* *
25181907 --TTTATGATTTA-A
1 GGTTTAGGGTTTAGA
**
25181919 GGTTTAGGGGATAGA
1 GGTTTAGGGTTTAGA
25181934 GGTTTAGGGTTTAGA
1 GGTTTAGGGTTTAGA
25181949 TTAATTAGTG
Statistics
Matches: 53, Mismatches: 14, Indels: 12
0.67 0.18 0.15
Matches are distributed among these distances:
12 1 0.02
14 20 0.38
15 32 0.60
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (15 bp):
GGTTTAGGGTTTAGA
Found at i:25183893 original size:19 final size:19
Alignment explanation
Indices: 25183869--25183905 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25183859 CAACATATAA
25183869 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
25183888 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
25183906 AAACAAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAACAAAATTTTAG
Found at i:25185587 original size:115 final size:114
Alignment explanation
Indices: 25185223--25185673 Score: 394
Period size: 116 Copynumber: 3.9 Consensus size: 114
25185213 GGCCATTACA
* * * * * * *
25185223 GCCGCAAAA-ATTATTTTGTTTTAATAAAAAC-GACACCATTTTATTGGATTTCTTAGAGGCATT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGA-GCCATTTTATTTGATTTTTTAGTGGC-GT
* * * * * *
25185286 TTTTGTGAAACGCCACAATATGTCGAGCTGTAGCGGCGCTATCC-TAAAAAC
64 TTTCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCAT-AAAAC
* * * * ** * * *
25185337 GTCGTAAAAAAT-TTATTCTGTTTTTATCAAAATAGCGCCTTTTTATTTGATTTTTTAGTGGTGT
1 GCCG--CAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTGATTTTTTAGTGGCG-
* ** *
25185401 TTTTGGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGGTAAAAAAC
63 TTTTCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCATAAAAC
* *
25185453 GCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCATTTTATTTGAATTTTTTAGTGGCGTT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTG-ATTTTTTAGTGGCGTT
*
25185518 TTCGTCAAAACACCGCAATAGGTC-AGGCTTTAGCGGCGCTA-CCATAAAAC
65 TTCGT-AAAACGCCGCAATAGGTCGA-GCTTTAGCGGCGCTAGCCATAAAAC
* * * * **
25185568 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGCGCTATTTT-TGTAGGTTTTTTAGTGGTATT
1 GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTAT-TTGATTTTTTAGTGGCGTT
* * * * *
25185632 TTCGGTTAAACGCCGCAATATGTAGGGATTTAGCGGCGCTAG
65 TTC-GTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAG
25185674 TGGATAAACA
Statistics
Matches: 270, Mismatches: 53, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
114 52 0.19
115 86 0.32
116 131 0.49
117 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (114 bp):
GCCGCAAAATGTTATTTTGTTTTAATCAAAACGGAGCCATTTTATTTGATTTTTTAGTGGCGTTT
TCGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGCTAGCCATAAAAC
Found at i:25185688 original size:115 final size:115
Alignment explanation
Indices: 25185377--25185704 Score: 346
Period size: 115 Copynumber: 2.9 Consensus size: 115
25185367 AATAGCGCCT
* * * *
25185377 TTTTATTTG-ATTTTTTAGTGGTGTTTTTGGTAAAACGCCGCAATAGGTCGAGCTTTAGCGGCGC
1 TTTTATTAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCGC
*
25185441 TAGGTAAAAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
66 TAGG-AATAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
* * *
25185492 TTTTATTTGAATTTTTTAGTGGCGTTTTC-GTCAAAACACCGCAATAGGTCA-GGCTTTAGCGGC
1 TTTTATTAGAATTTTTTAGTGGTGTTTTCGGT-AAAACGCCGCAATAGGT-AGGGCTTTAGCGGC
** * * * *
25185555 GCTA-CCATAAAACGCCGCAAAATGTTATTTTGTTTTAATCAAAACGGCGCTA
64 GCTAGGAAT-AAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
* * * * *
25185607 TTTT-TGTAG-GTTTTTTAGTGGTATTTTCGGTTAAACGCCGCAATATGTAGGGATTTAGCGGCG
1 TTTTAT-TAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCG
* * * *
25185670 CTAGTGGATAAACACCGC-AAAGGTTGATTTCTTTT
65 CTAG-GAATAAACGCCGCAAAAGGTTAATTTGTTTT
25185705 TGGCAAAACG
Statistics
Matches: 177, Mismatches: 27, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
113 1 0.01
114 60 0.34
115 66 0.37
116 50 0.28
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (115 bp):
TTTTATTAGAATTTTTTAGTGGTGTTTTCGGTAAAACGCCGCAATAGGTAGGGCTTTAGCGGCGC
TAGGAATAAACGCCGCAAAAGGTTAATTTGTTTTAATCAAAACGGAGCCA
Found at i:25185879 original size:28 final size:29
Alignment explanation
Indices: 25185847--25185901 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
25185837 AAATTTGCAG
*
25185847 CCCAACCTTTTTTCCTT-TGCTTTTTTTC
1 CCCAACCTTTTCTCCTTATGCTTTTTTTC
*
25185875 CCCAACCTTTTCTCCTTATTCTTTTTT
1 CCCAACCTTTTCTCCTTATGCTTTTTT
25185902 CCCACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.09, C:0.33, G:0.02, T:0.56
Consensus pattern (29 bp):
CCCAACCTTTTCTCCTTATGCTTTTTTTC
Found at i:25193120 original size:59 final size:59
Alignment explanation
Indices: 25193028--25193165 Score: 267
Period size: 59 Copynumber: 2.3 Consensus size: 59
25193018 TTACAGCGGG
25193028 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
*
25193087 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
25193146 ATTACCAATCCAGGCTAAAT
1 ATTACCAATCCAGGCTAAAT
25193166 TCAGACCCTA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 77 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (59 bp):
ATTACCAATCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
Found at i:25204724 original size:16 final size:18
Alignment explanation
Indices: 25204698--25204730 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25204688 TTAATTTAAA
25204698 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
25204715 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
25204731 CCCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:25206212 original size:21 final size:21
Alignment explanation
Indices: 25206188--25206260 Score: 53
Period size: 23 Copynumber: 3.5 Consensus size: 21
25206178 GAATTATATA
25206188 TTAAATATATATATTTTATTT
1 TTAAATATATATATTTTATTT
* * *
25206209 TTAATCAAATATATTTTTTAAATT
1 TTAA--ATATATATATTTT-ATTT
* *
25206233 TT-AATATGT-TATTTTCTTT
1 TTAAATATATATATTTTATTT
25206252 TTAAA-ATAT
1 TTAAATATAT
25206261 GTTATTTTGG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 7 0.18
20 7 0.18
21 8 0.21
23 12 0.31
24 5 0.13
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (21 bp):
TTAAATATATATATTTTATTT
Found at i:25207546 original size:25 final size:25
Alignment explanation
Indices: 25207518--25207603 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 25
25207508 CTAGCTTGTA
25207518 CTTCCCGATATATGGCTATCCGGAG
1 CTTCCCGATATATGGCTATCCGGAG
* * *
25207543 CTTCCCAAT-TGATGGCTCTTCGGAG
1 CTTCCCGATAT-ATGGCTATCCGGAG
* * * **
25207568 CTACCCGTTATA-GGCTAGCATGAG
1 CTTCCCGATATATGGCTATCCGGAG
*
25207592 CTTCCCGTTATA
1 CTTCCCGATATA
25207604 CAGCCCGGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
24 19 0.40
25 27 0.57
26 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATCCGGAG
Found at i:25207640 original size:25 final size:25
Alignment explanation
Indices: 25207612--25207684 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
25207602 TACAGCCCGG
* * *
25207612 ATAAGCTTCCTGTTACATGGCTCAC
1 ATAAGTTTCCCGTTATATGGCTCAC
25207637 ATAAGTTTCCCGTTATATGGCTCAC
1 ATAAGTTTCCCGTTATATGGCTCAC
*
25207662 ATGAGTTTCCCGTTATATGGCTC
1 ATAAGTTTCCCGTTATATGGCTC
25207685 GAGAGTGTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
ATAAGTTTCCCGTTATATGGCTCAC
Found at i:25216126 original size:23 final size:24
Alignment explanation
Indices: 25216102--25216150 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
25216092 ATTTTACATT
*
25216102 AATAAAATTAGCATAACTTTTTTAAA
1 AATAAAATTAGCACAACTTTTTT--A
*
25216128 AATAAAATTATCACAACTTTTTT
1 AATAAAATTAGCACAACTTTTTT
25216151 TTTACATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (24 bp):
AATAAAATTAGCACAACTTTTTTA
Found at i:25221598 original size:14 final size:14
Alignment explanation
Indices: 25221579--25221618 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
25221569 TTGATTGCCA
25221579 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
25221593 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
25221607 GGAAAATGTTTT
1 GTAAAATGTTTT
25221619 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:25221627 original size:20 final size:20
Alignment explanation
Indices: 25221602--25221641 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25221592 CGTAAAATGA
*
25221602 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
25221622 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
25221642 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:25221631 original size:34 final size:35
Alignment explanation
Indices: 25221587--25221653 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
25221577 CAGTAAAATG
*
25221587 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
25221621 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
25221654 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:25221657 original size:14 final size:15
Alignment explanation
Indices: 25221581--25221657 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
25221571 GATTGCCAGT
* *
25221581 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
25221595 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
25221609 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
25221629 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
25221644 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
25221658 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:25225239 original size:68 final size:68
Alignment explanation
Indices: 25225130--25225266 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
25225120 TATATTTATT
* *
25225130 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTATAAAATGTGATGTGACTATTGA
1 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
25225195 CGG
66 CGG
25225198 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
1 CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
25225263 CGG
66 CGG
25225266 C
1 C
25225267 GCTGCCGCAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (68 bp):
CTATAAAATGGCGGCGATCAAATTTGTATAAACCTAATAAGTACAAAATGTGATATGACTATTGA
CGG
Found at i:25230608 original size:12 final size:12
Alignment explanation
Indices: 25230591--25230623 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
25230581 AACCGAGCCG
25230591 TAAATATTTTTA
1 TAAATATTTTTA
25230603 TAAATATTTTTA
1 TAAATATTTTTA
25230615 TAAATATTT
1 TAAATATTT
25230624 ACGGAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAAATATTTTTA
Found at i:25233347 original size:32 final size:31
Alignment explanation
Indices: 25233330--25233396 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 31
25233320 TCTATACATA
*
25233330 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATA-TGAAACCACAATAC
*
25233362 TCAAGGATAACCCAATATTGATACCACAATAC
1 TCAAGGATAACCCAATA-TGAAACCACAATAC
25233394 TCA
1 TCA
25233397 TGAAGTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.22
Consensus pattern (31 bp):
TCAAGGATAACCCAATATGAAACCACAATAC
Found at i:25236981 original size:50 final size:48
Alignment explanation
Indices: 25236922--25237108 Score: 259
Period size: 50 Copynumber: 3.8 Consensus size: 48
25236912 GGCAGTGAGT
*
25236922 GTGCCAGTGTAAGACCATGTCTCGGACATGGCATCGGCACAGACCGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA-CGAGGA
*
25236972 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGACAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAC-GAGGA
* * * * *
25237022 GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTCGA-GATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
*
25237069 GTGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
25237109 CGATATGTGA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
47 39 0.32
49 3 0.02
50 80 0.66
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGACGAGGA
Found at i:25237102 original size:97 final size:99
Alignment explanation
Indices: 25236926--25237108 Score: 289
Period size: 97 Copynumber: 1.9 Consensus size: 99
25236916 GTGAGTGTGC
* * *
25236926 CAGTGTAAGACCATGTCTCGGACATGGCATCGGCACAGACCGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTCGGACATGGCATCAGCACAGA-CGAGGAGTGCCAATGTAAGACCATG
25236991 TCTGGGACATGGCATCGGCACGGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACGGACAGAGGAGAGT
* * *
25237026 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCTC-GA-GATGAGTGCCAATGTAAGACCATGT
1 CAGTGTAAGACCATGTCTCGGACATGGCATCAGCACAGACGAGGAGTGCCAATGTAAGACCATGT
25237089 CTGGGACATGGCATCGGCAC
66 CTGGGACATGGCATCGGCAC
25237109 CGATATGTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
97 42 0.55
99 2 0.03
100 33 0.43
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.19
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTCGGACATGGCATCAGCACAGACGAGGAGTGCCAATGTAAGACCATGT
CTGGGACATGGCATCGGCACGGACAGAGGAGAGT
Found at i:25237148 original size:48 final size:48
Alignment explanation
Indices: 25236929--25237155 Score: 213
Period size: 50 Copynumber: 4.7 Consensus size: 48
25236919 AGTGTGCCAG
* * * ** * *
25236929 TGTAAGACCATGTCTCGGACATGGCATCGGCACAGACCGAGGAGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGA--GATGAGACCCAA
* * ** *
25236979 TGTAAGACCATGTCTGGGACATGGCATCGGCACGGACAGAGGAGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCG--AGATGAGACCCAA
* * **
25237029 TGTAAGACCATGTCTGGGACATGGCATCAGC-TCGAGATGAGTGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
* * *
25237076 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGACCCCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
* * *
25237124 TGTAAGACCATATCTGGGATATGGCATTGGCA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA
25237156 TCCTACTAGG
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
47 39 0.26
48 39 0.26
49 1 0.01
50 72 0.47
52 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATGAGACCCAA
Found at i:25237634 original size:45 final size:44
Alignment explanation
Indices: 25237545--25237700 Score: 163
Period size: 45 Copynumber: 3.5 Consensus size: 44
25237535 TATAGGTGGA
* * ** **
25237545 TGCTATGTGCTGATTCCACCTGATATTAATGAAAATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATG-GTATAAAGGTGAT
25237590 TGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGG-TATA-AAGGTGAT
* * *
25237635 TGCTATGTGCTGAATTCACCCGG-TACCATTGAGTATAAAGGTGGT
1 TGCTATGTGCTGATTTCA-CCGGATACCAATG-GTATAAAGGTGAT
*
25237680 TGCTATGTGCTAATTTCACCG
1 TGCTATGTGCTGATTTCACCG
25237701 AGTACTCTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
44 5 0.05
45 83 0.87
46 7 0.07
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (44 bp):
TGCTATGTGCTGATTTCACCGGATACCAATGGTATAAAGGTGAT
Found at i:25237723 original size:45 final size:45
Alignment explanation
Indices: 25237579--25237724 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
25237569 ATTAATGAAA
* * * **
25237579 ATAAAGGTGATTGCTATGTGCTGATTTCA-CCGGATACCAATGGTT
1 ATAAAGGTGGTTGCTATGTGCTGAATTCACCCGG-TACCATTGACT
* *
25237624 ATATAA-GTGATTGCTATGTGCTGAATTCACCCGGTACCATTGAGT
1 ATA-AAGGTGGTTGCTATGTGCTGAATTCACCCGGTACCATTGACT
25237669 ATAAAGGTGGTTGCTATGTGCT-AATTTCA-CCGAGTACTC-TTGACT
1 ATAAAGGTGGTTGCTATGTGCTGAA-TTCACCCG-GTAC-CATTGACT
25237714 A-AAAGGGTGGT
1 ATAAA-GGTGGT
25237725 GTTGTGTGCT
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
44 10 0.11
45 71 0.81
46 7 0.08
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGAATTCACCCGGTACCATTGACT
Found at i:25238601 original size:5 final size:5
Alignment explanation
Indices: 25238593--25238618 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25238583 GAGATGGAAT
25238593 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
25238619 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:25239547 original size:9 final size:9
Alignment explanation
Indices: 25239533--25239569 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25239523 TATAGTTTGA
25239533 TATTCGAAT
1 TATTCGAAT
25239542 TATTCGAAT
1 TATTCGAAT
*
25239551 TATTCGAGT
1 TATTCGAAT
25239560 TATTCGAAT
1 TATTCGAAT
25239569 T
1 T
25239570 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:25241004 original size:34 final size:34
Alignment explanation
Indices: 25240952--25241020 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
25240942 CCATCCATTT
* *
25240952 TCCTTAGTTTTTAAATCATTCCACCCTTAAAATA
1 TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
*
25240986 TCCTTAGCTTCTAGATCATTCCACCCTTAAAATA
1 TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
25241020 T
1 T
25241021 TTACACTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.39
Consensus pattern (34 bp):
TCCTTAGCTTCTAAATCATTCCACCCTTAAAATA
Found at i:25241053 original size:30 final size:29
Alignment explanation
Indices: 25241016--25241084 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
25241006 CCACCCTTAA
* * *
25241016 AATATTTACACTATTAATCCTTTAACTTTT
1 AATATTTACACT-TTAACCCCTTAAATTTT
*
25241046 CATATTTACACTTTAACCCCTTAAATTTT
1 AATATTTACACTTTAACCCCTTAAATTTT
25241075 AAGTATTTAC
1 AA-TATTTAC
25241085 TCCTGGGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.33, C:0.19, G:0.01, T:0.46
Consensus pattern (29 bp):
AATATTTACACTTTAACCCCTTAAATTTT
Found at i:25247353 original size:16 final size:16
Alignment explanation
Indices: 25247332--25247363 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25247322 CCGTTTACTG
25247332 ATTCCTTGCCTATTCC
1 ATTCCTTGCCTATTCC
*
25247348 ATTCCTTGCTTATTCC
1 ATTCCTTGCCTATTCC
25247364 TTCAGCAGCT
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:0.12, C:0.34, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTCCTTGCCTATTCC
Found at i:25248430 original size:21 final size:21
Alignment explanation
Indices: 25248406--25248446 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25248396 CATGTTTTGG
* *
25248406 TTTCTGTATTAAGTTCATGTT
1 TTTCTATATTAAGTTAATGTT
25248427 TTTCTATATTAAGTTAATGT
1 TTTCTATATTAAGTTAATGT
25248447 ATGGCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTCTATATTAAGTTAATGTT
Found at i:25249664 original size:49 final size:49
Alignment explanation
Indices: 25249607--25249710 Score: 190
Period size: 49 Copynumber: 2.1 Consensus size: 49
25249597 TCATGTGTTA
* *
25249607 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
25249656 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
25249705 TAATTT
1 TAATTT
25249711 GTTTTTTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:25251136 original size:21 final size:21
Alignment explanation
Indices: 25251091--25251137 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
25251081 AAATAATAAA
*
25251091 ATAG-ATTATATATAATTTTT
1 ATAGTATTATATATAATATTT
*
25251111 ATAGTATTATATATTATGATTT
1 ATAGTATTATATATAAT-ATTT
25251133 -TAGTA
1 ATAGTA
25251138 AATTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
ATAGTATTATATATAATATTT
Found at i:25251186 original size:17 final size:17
Alignment explanation
Indices: 25251166--25251199 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25251156 TATATTAAGA
*
25251166 ATTTTATTAAATTATAT
1 ATTTGATTAAATTATAT
25251183 ATTTGATTAAATTATAT
1 ATTTGATTAAATTATAT
25251200 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTGATTAAATTATAT
Found at i:25251221 original size:17 final size:17
Alignment explanation
Indices: 25251199--25251233 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
25251189 TTAAATTATA
25251199 TTTAATAATAATTATGT
1 TTTAATAATAATTATGT
25251216 TTTAATAATAATTATGT
1 TTTAATAATAATTATGT
25251233 T
1 T
25251234 AAAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
TTTAATAATAATTATGT
Found at i:25251239 original size:14 final size:16
Alignment explanation
Indices: 25251192--25251233 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
25251182 TATTTGATTA
*
25251192 AATTATATTTAATAAT
1 AATTATGTTTAATAAT
25251208 AATTATGTTTTAATAAT
1 AATTATG-TTTAATAAT
25251225 AATTATGTT
1 AATTATGTT
25251234 AAAATATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (16 bp):
AATTATGTTTAATAAT
Found at i:25251239 original size:17 final size:17
Alignment explanation
Indices: 25251202--25251239 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
25251192 AATTATATTT
**
25251202 AATAATAATTATGTTTT
1 AATAATAATTATGTTAA
25251219 AATAATAATTATGTTAA
1 AATAATAATTATGTTAA
25251236 AATA
1 AATA
25251240 TGATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
AATAATAATTATGTTAA
Found at i:25251653 original size:18 final size:18
Alignment explanation
Indices: 25251627--25251661 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
25251617 GCAGAAACCA
25251627 AAAACTAAAAGCAAAAGT
1 AAAACTAAAAGCAAAAGT
*
25251645 AAAAGTAAAAGCAAAAG
1 AAAACTAAAAGCAAAAG
25251662 CAATCATCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAACTAAAAGCAAAAGT
Found at i:25256042 original size:16 final size:17
Alignment explanation
Indices: 25256021--25256053 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25256011 CATTCATCTA
25256021 TATT-AAATCGTTAGAG
1 TATTAAAATCGTTAGAG
25256037 TATTAAAATCGTTAGAG
1 TATTAAAATCGTTAGAG
25256054 GTTTCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.36
Consensus pattern (17 bp):
TATTAAAATCGTTAGAG
Found at i:25258822 original size:6 final size:6
Alignment explanation
Indices: 25258811--25258938 Score: 193
Period size: 6 Copynumber: 21.3 Consensus size: 6
25258801 GTAACCAGTG
25258811 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
*
25258859 CACCAT CACCGT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
** * * * *
25258907 TTCCAT CTCCAT CTCCAT CTCCAT CTCCAT CA
1 CACCAT CACCAT CACCAT CACCAT CACCAT CA
25258939 TCTTCAAGTG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 116 1.00
ACGTcount: A:0.29, C:0.49, G:0.01, T:0.21
Consensus pattern (6 bp):
CACCAT
Found at i:25269428 original size:132 final size:132
Alignment explanation
Indices: 25269186--25269450 Score: 458
Period size: 132 Copynumber: 2.0 Consensus size: 132
25269176 CACTTTGTAC
*
25269186 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCGCAAAACATAAAAAT
1 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
** * * *
25269251 AAGTCATTATAAGCTTTCTTCCACTCCGCATCTCATATGGTGCCATCCTTGTTTTAGGCTTCAAA
66 AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
25269316 GT
131 GT
25269318 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
1 ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
* *
25269383 AAGTCACGATAGGCTTTCTTCCTCTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
66 AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
25269448 GT
131 GT
25269450 A
1 A
25269451 CATTGTTAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (132 bp):
ATCAAAATTTCCCTGATAAGCATGATCTTTGAAAAGGTAATAAGTGCTCCCCAAAACATAAAAAT
AAGTCACGATAAGCTTTCTTCCACTCCACATCTCATATGGAGCCATCCTTGTTTTAGGCCTCAAA
GT
Found at i:25273086 original size:15 final size:15
Alignment explanation
Indices: 25273066--25273097 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25273056 CATTTCACTA
*
25273066 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
25273081 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
25273096 TT
1 TT
25273098 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:25274675 original size:18 final size:18
Alignment explanation
Indices: 25274618--25274677 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
25274608 AATAATATTT
* *
25274618 TAATATTTTAATATTAAA
1 TAATATTTTATTATTTAA
25274636 TTAA-ATTTAATACTTATCTTAA
1 -TAATATTT--TA-TTAT-TTAA
25274658 TAATATTTTATTATTTAA
1 TAATATTTTATTATTTAA
25274676 TA
1 TA
25274678 TTAAAGTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 4 0.12
21 6 0.18
22 7 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATATTTTATTATTTAA
Found at i:25274697 original size:20 final size:19
Alignment explanation
Indices: 25274665--25274702 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
25274655 TAATAATATT
25274665 TTATTATTTAATATTAAAG
1 TTATTATTTAATATTAAAG
25274684 TTATTATCTTAATATTAAA
1 TTATTAT-TTAATATTAAA
25274703 TTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATTATTTAATATTAAAG
Found at i:25274768 original size:22 final size:20
Alignment explanation
Indices: 25274736--25274791 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
25274726 ATTAACATTC
*
25274736 TATTATTTTAATAAGAT-TTAA
1 TATTAATTTAATAA-ATATT-A
25274757 TATTAAATTTAATCAAATATTA
1 TATT-AATTTAAT-AAATATTA
25274779 TATTAATTTAATA
1 TATTAATTTAATA
25274792 TTAAAGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
22 14 0.45
23 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTAATTTAATAAATATTA
Done.