Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 23 of 54
Found at i:9978287 original size:74 final size:74
Alignment explanation
Indices: 9978062--9978274 Score: 227
Period size: 74 Copynumber: 2.9 Consensus size: 74
9978052 GTGAGATAGA
* * * * **
9978062 AAGACTTAGTCGACTAAGAAACACT-GTTAGTCAACTAAGAGCATACTACCAGAAATCTT-AATT
1 AAGACTTAATCAACTAAGAAGCA-TAGTTAGTCAACTAAGAGCACACTGTCAGAAAT-TTCAATT
*
9978125 AT-AAGACAAAG
64 -TCAAGACAGAG
* * *
9978136 -AGAACTTAATCAACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGTCAGAGATTTCAATTT
1 AAG-ACTTAATCAACTAAGAAGCATAGTTAGTCAACTAAGAGCACACTGTCAGAAATTTCAATTT
9978200 CAAGACAGAG
65 CAAGACAGAG
* * * *
9978210 AAGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCACTCTGTCTGAAAATTTGAATTT
1 AAGACTTAATCAACTAAGAAGCATAGTTAGTCAACTAAGAGCACACTGTCAG-AAATTTCAATTT
9978275 GAATGCTAGA
Statistics
Matches: 117, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
73 6 0.05
74 99 0.85
75 12 0.10
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (74 bp):
AAGACTTAATCAACTAAGAAGCATAGTTAGTCAACTAAGAGCACACTGTCAGAAATTTCAATTTC
AAGACAGAG
Found at i:9986008 original size:18 final size:19
Alignment explanation
Indices: 9985987--9986023 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9985977 AAAATCAAAA
9985987 AATAATAAAAT-AAATAAT
1 AATAATAAAATAAAATAAT
9986005 AATAATAAAATAAAATAAT
1 AATAATAAAATAAAATAAT
9986024 GAGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AATAATAAAATAAAATAAT
Found at i:9986033 original size:19 final size:19
Alignment explanation
Indices: 9985993--9986035 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9985983 AAAAAATAAT
* *
9985993 AAAAT-AAATAATAATAAT
1 AAAATAAAATAATAAGAAA
*
9986011 AAAATAAAATAATGAGAAA
1 AAAATAAAATAATAAGAAA
9986030 AAAATA
1 AAAATA
9986036 GGATTGGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAATAAAATAATAAGAAA
Found at i:9987387 original size:52 final size:51
Alignment explanation
Indices: 9987329--9987482 Score: 184
Period size: 51 Copynumber: 3.0 Consensus size: 51
9987319 CATGAACTAA
*
9987329 ACTTGATATATTCGCTTCAAGGGT-TGTTACGACTTGATCTTTGATCACGAAC
1 ACTTGATATATTCGCTTCAAGGGTCT-TAACGACTTGATC-TTGATCACGAAC
* * * * * *
9987381 ACTTGATATCTTCACTTCAAGGGTCTTAACAACTTAATCTTGATCACAAAT
1 ACTTGATATATTCGCTTCAAGGGTCTTAACGACTTGATCTTGATCACGAAC
* * * *
9987432 AATTGATATTTTCGCTTCAAGGATCTTGACGACTTGATCTTGATCACGAAC
1 ACTTGATATATTCGCTTCAAGGGTCTTAACGACTTGATCTTGATCACGAAC
9987483 TTCGCTTGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 52 0.61
52 32 0.38
53 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (51 bp):
ACTTGATATATTCGCTTCAAGGGTCTTAACGACTTGATCTTGATCACGAAC
Found at i:9987490 original size:23 final size:24
Alignment explanation
Indices: 9987464--9987565 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 24
9987454 ATCTTGACGA
9987464 CTTG-ATCTTGATCACGAACTTCG
1 CTTGCATCTTGATCACGAACTTCG
* * *
9987487 CTTGATATCTTGATTATGAACTTCG
1 CTTG-CATCTTGATCACGAACTTCG
*
9987512 C-TGCCA-CTTGATCACGAACTTCA
1 CTTG-CATCTTGATCACGAACTTCG
9987535 CTACTGCTTGATCTTGATCACGAACTTCG
1 CT--TGC---ATCTTGATCACGAACTTCG
9987564 CT
1 CT
9987566 ATCCCTTGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
23 19 0.31
24 3 0.05
25 19 0.31
26 2 0.03
28 1 0.02
29 18 0.29
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (24 bp):
CTTGCATCTTGATCACGAACTTCG
Found at i:9987573 original size:23 final size:23
Alignment explanation
Indices: 9987470--9987576 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 23
9987460 ACGACTTGAT
**
9987470 CTTGATCACGAACTTCGCTTGATAT
1 CTTGATCACGAACTTCGC-T-ATCC
* * *
9987495 CTTGATTATGAACTTCGCT-GCC
1 CTTGATCACGAACTTCGCTATCC
* *
9987517 ACTTGATCACGAACTTCACTACTGCTTGAT
1 -CTTGATCACGAACTTCGCTA-T-C----C
9987547 CTTGATCACGAACTTCGCTATCC
1 CTTGATCACGAACTTCGCTATCC
9987570 CTTGATC
1 CTTGATC
9987577 TTCACTTCAG
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
23 23 0.37
24 1 0.02
25 16 0.26
26 1 0.02
27 1 0.02
28 1 0.02
29 19 0.31
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (23 bp):
CTTGATCACGAACTTCGCTATCC
Found at i:9987573 original size:29 final size:29
Alignment explanation
Indices: 9987518--9987578 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
9987508 TTCGCTGCCA
*
9987518 CTTGATCACGAACTTCACTACTGCTTGAT
1 CTTGATCACGAACTTCACTACTCCTTGAT
*
9987547 CTTGATCACGAACTTCGCTA-TCCCTTGAT
1 CTTGATCACGAACTTCACTACT-CCTTGAT
9987576 CTT
1 CTT
9987579 CACTTCAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.36
Consensus pattern (29 bp):
CTTGATCACGAACTTCACTACTCCTTGAT
Found at i:9987576 original size:52 final size:48
Alignment explanation
Indices: 9987470--9987565 Score: 120
Period size: 52 Copynumber: 1.9 Consensus size: 48
9987460 ACGACTTGAT
* * *
9987470 CTTGATCACGAACTTCGCTTGATATCTTGATTATGAACTTCGCTGCCA
1 CTTGATCACGAACTTCACTTGATATCTTGATCACGAACTTCGCTGCCA
*
9987518 CTTGATCACGAACTTCACTACTGCTTGATCTTGATCACGAACTTCGCT
1 CTTGATCACGAACTTCACT--TG-AT-ATCTTGATCACGAACTTCGCT
9987566 ATCCCTTGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
48 18 0.45
50 2 0.05
51 1 0.03
52 19 0.47
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (48 bp):
CTTGATCACGAACTTCACTTGATATCTTGATCACGAACTTCGCTGCCA
Found at i:9988132 original size:81 final size:81
Alignment explanation
Indices: 9987930--9988133 Score: 311
Period size: 81 Copynumber: 2.5 Consensus size: 81
9987920 AGCATAACTA
* * * * *
9987930 TTAGAGATAAATTAAATGATCAATAATTAAATTTTGATCGGTCAAAAATATGAATAATATTTCTA
1 TTAGAGACAAATTATATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATAATATCTCTA
*
9987995 AATTATCTTGATTTTT
66 AATTATCTTGATTTTC
* *
9988011 TTAGAGACAAATTATATGACCAATAACTAAATTTTGATTGGTCAAAAATATGAATATTATCTCTA
1 TTAGAGACAAATTATATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATAATATCTCTA
9988076 AATTATCTTG-TTTTAC
66 AATTATCTTGATTTT-C
*
9988092 TTAGAGACAAATTATATGACCAATAATTAAATTTTAATTGGT
1 TTAGAGACAAATTATATGACCAATAATTAAATTTTGATTGGT
9988134 TCAATTTAAA
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 4 0.04
81 108 0.96
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (81 bp):
TTAGAGACAAATTATATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATAATATCTCTA
AATTATCTTGATTTTC
Found at i:9989440 original size:83 final size:84
Alignment explanation
Indices: 9989353--9989519 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
9989343 CTTATCATTC
* * * *
9989353 ATCAAATTGCAAGAACCCTTTCTC-TTTTTTTTTTTTTTAAATCAACCGAACAATTATCATTCAT
1 ATCAAATTGCAAAAACCATTTCTCATTTTTTTTATTTTTAAATCAACCAAACAATTATCATTCAT
*
9989417 GAAATTAAAAAAACCCTTT
66 CAAATTAAAAAAACCCTTT
* * **
9989436 ATCAAATTGGAAAAACCATTTCTCATTTTTTTTATTTTTGAATCATTCAAACAATTATCATTCAT
1 ATCAAATTGCAAAAACCATTTCTCATTTTTTTTATTTTTAAATCAACCAAACAATTATCATTCAT
* *
9989501 CAAATTAGAAAAGCCCTTT
66 CAAATTAAAAAAACCCTTT
9989520 CTCCTATTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 21 0.29
84 51 0.71
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (84 bp):
ATCAAATTGCAAAAACCATTTCTCATTTTTTTTATTTTTAAATCAACCAAACAATTATCATTCAT
CAAATTAAAAAAACCCTTT
Found at i:9993525 original size:34 final size:34
Alignment explanation
Indices: 9993447--9993525 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
9993437 ACTTCAACAA
* * * * *
9993447 CAAATGTTACACATCAAGGTCAAAGTTTTAGCAT
1 CAAATATTACACACCAAGGTCAAAGGTTCAGCAC
*
9993481 CAAATGTTACACACCAAGGTCAAAGGTTCAGCAC
1 CAAATATTACACACCAAGGTCAAAGGTTCAGCAC
*
9993515 CAGATATTACA
1 CAAATATTACA
9993526 TGGTAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (34 bp):
CAAATATTACACACCAAGGTCAAAGGTTCAGCAC
Found at i:9994819 original size:2 final size:2
Alignment explanation
Indices: 9994812--9994849 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9994802 ATGGAATAAA
*
9994812 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9994850 TTAGCAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9998919 original size:23 final size:22
Alignment explanation
Indices: 9998892--9998936 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9998882 ACAAATTTAG
9998892 TAATAA-AAGTTTAGTATAATTTT
1 TAATAATAA-TTTAGTA-AATTTT
*
9998915 TAATAATAATTTATTAAATTTT
1 TAATAATAATTTAGTAAATTTT
9998937 GTGTCTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TAATAATAATTTAGTAAATTTT
Found at i:10000064 original size:33 final size:33
Alignment explanation
Indices: 10000009--10000089 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
9999999 CTTTATGATC
* *
10000009 ATGTCAATATATCACATTATCATTCATTATAAT
1 ATGTCAACATATCACATCATCATTCATTATAAT
* *
10000042 ATGTCAACATATTACATCATCATTCATTATGAT
1 ATGTCAACATATCACATCATCATTCATTATAAT
10000075 ATGTCAACATATCAC
1 ATGTCAACATATCAC
10000090 GTCAACACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (33 bp):
ATGTCAACATATCACATCATCATTCATTATAAT
Found at i:10004965 original size:35 final size:35
Alignment explanation
Indices: 10004918--10005049 Score: 122
Period size: 35 Copynumber: 3.8 Consensus size: 35
10004908 TTGTACAAAG
* * *
10004918 AATAACTTGAACAAGTGAAGTGCTACTTCACACAT
1 AATAACTAGAACAAGTGAAGTACTACTTCACACAA
* * **
10004953 AATAACTAGAACAAGTAAAGCACTACTTCATGCAA
1 AATAACTAGAACAAGTGAAGTACTACTTCACACAA
* * *
10004988 AACAACTAGAATAAGTGAAGTACTACTT-AAAGCAA
1 AATAACTAGAACAAGTGAAGTACTACTTCACA-CAA
* * * *
10005023 AACAACTAGAATAAGTAAAGCACTACT
1 AATAACTAGAACAAGTGAAGTACTACT
10005050 CCATATGGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
34 1 0.01
35 80 0.99
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (35 bp):
AATAACTAGAACAAGTGAAGTACTACTTCACACAA
Found at i:10005062 original size:35 final size:34
Alignment explanation
Indices: 10004956--10005065 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 34
10004946 CACACATAAT
* *
10004956 AACTAGAACAAGTAAAGCACTACTTCATGCA-AAAC
1 AACTAGAATAAGTAAAGCACTAC-TCAT-AAGAAAC
* * *
10004991 AACTAGAATAAGTGAAGTACTACTTA-AAGCAAAAC
1 AACTAGAATAAGTAAAGCACTACTCATAAG--AAAC
* *
10005026 AACTAGAATAAGTAAAGCACTACTCCATATGGAAC
1 AACTAGAATAAGTAAAGCACTACT-CATAAGAAAC
10005061 AACTA
1 AACTA
10005066 ATACAAGTAG
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
32 1 0.02
34 2 0.03
35 54 0.90
36 1 0.02
37 2 0.03
ACGTcount: A:0.49, C:0.19, G:0.13, T:0.19
Consensus pattern (34 bp):
AACTAGAATAAGTAAAGCACTACTCATAAGAAAC
Found at i:10005065 original size:70 final size:70
Alignment explanation
Indices: 10004921--10005054 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
10004911 TACAAAGAAT
* * * * * * *
10004921 AACTTGAACAAGTGAAGTGCTACTTCACACATAATAACTAGAACAAGTAAAGCACTACTTCATGC
1 AACTAGAACAAGTGAAGTACTACTTCAAACAAAACAACTAGAACAAGTAAAGCACTACTCCATAC
10004986 AAAAC
66 AAAAC
* *
10004991 AACTAGAATAAGTGAAGTACTACTT-AAAGCAAAACAACTAGAATAAGTAAAGCACTACTCCATA
1 AACTAGAACAAGTGAAGTACTACTTCAAA-CAAAACAACTAGAACAAGTAAAGCACTACTCCATA
10005055 TGGAACAACT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 2 0.04
70 52 0.96
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (70 bp):
AACTAGAACAAGTGAAGTACTACTTCAAACAAAACAACTAGAACAAGTAAAGCACTACTCCATAC
AAAAC
Found at i:10005354 original size:29 final size:29
Alignment explanation
Indices: 10005279--10005346 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
10005269 CTTATTCTCG
10005279 TGTACCTATTCTCGTACAGCTTCTTCTTT
1 TGTACCTATTCTCGTACAGCTTCTTCTTT
10005308 TGTACCTATTCTCGTACAGCTTCTTCTTT
1 TGTACCTATTCTCGTACAGCTTCTTCTTT
10005337 TGTACCTATT
1 TGTACCTATT
10005347 ATTGTACACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.15, C:0.26, G:0.10, T:0.49
Consensus pattern (29 bp):
TGTACCTATTCTCGTACAGCTTCTTCTTT
Found at i:10012913 original size:18 final size:18
Alignment explanation
Indices: 10012890--10012928 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10012880 TCCTGATTAT
10012890 TAGAATTTGGCATTTAAG
1 TAGAATTTGGCATTTAAG
10012908 TAGAATTTGGCATTTAAG
1 TAGAATTTGGCATTTAAG
10012926 TAG
1 TAG
10012929 TTACAGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (18 bp):
TAGAATTTGGCATTTAAG
Found at i:10021024 original size:26 final size:26
Alignment explanation
Indices: 10020973--10021025 Score: 54
Period size: 26 Copynumber: 2.0 Consensus size: 26
10020963 TTTAAATTTA
* * *
10020973 TAAATTA-AACTAAAATTATGAGTATT
1 TAAATTATAAATAAAA-TATTAATATT
*
10020999 TAAATTATAAATAAAATCTTAATATT
1 TAAATTATAAATAAAATATTAATATT
10021025 T
1 T
10021026 TTGAAAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (26 bp):
TAAATTATAAATAAAATATTAATATT
Found at i:10032777 original size:27 final size:27
Alignment explanation
Indices: 10032712--10032922 Score: 163
Period size: 27 Copynumber: 7.7 Consensus size: 27
10032702 ACTTTTTCAT
* * *
10032712 CATGACGTGTAATAATTAAAATTTTCAA
1 CATGACGTATAACAATT-AAATTTTTAA
*** *
10032740 CATGGTATATAACAAATAAATTTTTAA
1 CATGACGTATAACAATTAAATTTTTAA
* *
10032767 TATGACGTATAACAATTATATTTTTTAA
1 CATGACGTATAACAATTA-AATTTTTAA
* ** * *
10032795 TATGACGTGCAATAATTAAATTTTCAA
1 CATGACGTATAACAATTAAATTTTTAA
* * * *
10032822 CATGATGAATAACAATTATATTTTCAA
1 CATGACGTATAACAATTAAATTTTTAA
* * *
10032849 CATGACGTGTAATAATTATATTTTTCAA
1 CATGACGTATAACAATTAAATTTTT-AA
10032877 CATGA-GAATATAACAATTAAATTTTTAA
1 CATGACG--TATAACAATTAAATTTTTAA
* *
10032905 CATGACGTGTAATAATTA
1 CATGACGTATAACAATTA
10032923 TTTATAAGAT
Statistics
Matches: 143, Mismatches: 35, Indels: 11
0.76 0.19 0.06
Matches are distributed among these distances:
27 79 0.55
28 48 0.34
29 16 0.11
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (27 bp):
CATGACGTATAACAATTAAATTTTTAA
Found at i:10032845 original size:82 final size:84
Alignment explanation
Indices: 10032704--10032881 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 84
10032694 ATGTAATAAC
* * * * *
10032704 TTTTTCATCATGACGTGTAATAATTAAAATTTTCAACATGGTATATAACAAATAAATTTTTAATA
1 TTTTTAATCATGACGTGCAATAATTAAAATTTTCAACATGATATATAACAAATAAATTTTCAACA
10032769 TGACGTATAACAATTATAT
66 TGACGTATAACAATTATAT
* *
10032788 TTTTTAAT-ATGACGTGCAATAATT-AAATTTTCAACATGATGA-ATAACAATTATATTTTCAAC
1 TTTTTAATCATGACGTGCAATAATTAAAATTTTCAACATGAT-ATATAACAAATAAATTTTCAAC
* *
10032850 ATGACGTGTAATAATTATAT
65 ATGACGTATAACAATTATAT
*
10032870 TTTTCAA-CATGA
1 TTTTTAATCATGA
10032882 GAATATAACA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
82 59 0.72
83 16 0.20
84 7 0.09
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (84 bp):
TTTTTAATCATGACGTGCAATAATTAAAATTTTCAACATGATATATAACAAATAAATTTTCAACA
TGACGTATAACAATTATAT
Found at i:10032886 original size:54 final size:57
Alignment explanation
Indices: 10032774--10032923 Score: 218
Period size: 56 Copynumber: 2.7 Consensus size: 57
10032764 TAATATGACG
* *
10032774 TATAACAATTATATTTTTTAATATGACGTGCAATAATTA-AATTTTCAACATGATG-A
1 TATAACAATTATA-TTTTTAACATGACGTGTAATAATTATAATTTTCAACATGATGAA
* *
10032830 -ATAACAATTATATTTTCAACATGACGTGTAATAATTATATTTTTCAACATGA-GAA
1 TATAACAATTATATTTTTAACATGACGTGTAATAATTATAATTTTCAACATGATGAA
*
10032885 TATAACAATTAAATTTTTAACATGACGTGTAATAATTAT
1 TATAACAATTATATTTTTAACATGACGTGTAATAATTAT
10032924 TTATAAGATA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
54 23 0.27
55 26 0.31
56 36 0.42
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (57 bp):
TATAACAATTATATTTTTAACATGACGTGTAATAATTATAATTTTCAACATGATGAA
Found at i:10036472 original size:25 final size:25
Alignment explanation
Indices: 10036444--10036497 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
10036434 ACCATAAGTG
* *
10036444 AAAAAAGACTTATTTGATTTAAAAT
1 AAAAAAAAATTATTTGATTTAAAAT
*
10036469 AAAAAAAAATTGTTTGATTTAAAAT
1 AAAAAAAAATTATTTGATTTAAAAT
10036494 AAAA
1 AAAA
10036498 CAAGTAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAAAAAAATTATTTGATTTAAAAT
Found at i:10039386 original size:17 final size:16
Alignment explanation
Indices: 10039357--10039410 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 16
10039347 TGTTTTTCTT
*
10039357 AAATTAA-AATTTTTA
1 AAATTAATATTTTTTA
*
10039372 AAATTTATATTTTTTAA
1 AAATTAATATTTTTT-A
* *
10039389 AAAATAATATTATTTA
1 AAATTAATATTTTTTA
10039405 AAATTA
1 AAATTA
10039411 TTATACAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 13 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAATTAATATTTTTTA
Found at i:10040516 original size:19 final size:19
Alignment explanation
Indices: 10040492--10040533 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10040482 ATTTGCATCG
**
10040492 TATCCAATATATCTTCTCA
1 TATCCAATATATCCCCTCA
10040511 TATCCAATATATCCCCTCA
1 TATCCAATATATCCCCTCA
10040530 TATC
1 TATC
10040534 TAAGATCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (19 bp):
TATCCAATATATCCCCTCA
Found at i:10042667 original size:60 final size:60
Alignment explanation
Indices: 10042587--10042705 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
10042577 CATCATCACT
* *
10042587 TACTTGTGGGAACTGTCCACGCCA-CCATATATAAATCGAGGCTTCAGGTCCCCCTTTACC
1 TACTCGTGGGAACTGCCCACGCCACCCA-ATATAAATCGAGGCTTCAGGTCCCCCTTTACC
* *
10042647 TACTCGTGGGAACTGCCCACGCCACCCAATATGAATCGAGGCTTCAGGTCGCCCTTTAC
1 TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCAGGTCCCCCTTTAC
10042706 AATCAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 51 0.94
61 3 0.06
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (60 bp):
TACTCGTGGGAACTGCCCACGCCACCCAATATAAATCGAGGCTTCAGGTCCCCCTTTACC
Found at i:10056797 original size:3 final size:3
Alignment explanation
Indices: 10056789--10056826 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10056779 TCCCGCTCTT
10056789 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10056827 CTTTTTCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10057037 original size:16 final size:16
Alignment explanation
Indices: 10057012--10057053 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
10057002 CACTGCTCCC
*
10057012 TCTTTCTCTTTCTTCT
1 TCTTTTTCTTTCTTCT
*
10057028 TCTTTTTCTTTTTTCT
1 TCTTTTTCTTTCTTCT
10057044 TCTTTCTTCT
1 TCTTT-TTCT
10057054 CTCTCCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TCTTTTTCTTTCTTCT
Found at i:10057052 original size:7 final size:7
Alignment explanation
Indices: 10057012--10057053 Score: 54
Period size: 6 Copynumber: 6.4 Consensus size: 7
10057002 CACTGCTCCC
10057012 TCTTTC-
1 TCTTTCT
10057018 TCTTTCT
1 TCTTTCT
10057025 TC-TTCT
1 TCTTTCT
10057031 T-TTTCT
1 TCTTTCT
*
10057037 TTTTTCT
1 TCTTTCT
10057044 TCTTTCT
1 TCTTTCT
10057051 TCT
1 TCT
10057054 CTCTCCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
6 16 0.50
7 16 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TCTTTCT
Found at i:10068065 original size:19 final size:19
Alignment explanation
Indices: 10068041--10068109 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
10068031 ATATATGTGA
* *
10068041 ATATCCATTGTATTTCATC
1 ATATCCAATGTATTTCCTC
* *
10068060 ATATCCAATGTATCTCCTT
1 ATATCCAATGTATTTCCTC
*
10068079 ATATCCAATGTACTTCCTC
1 ATATCCAATGTATTTCCTC
*
10068098 ATATCCAGTGTA
1 ATATCCAATGTA
10068110 CATATTTATG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (19 bp):
ATATCCAATGTATTTCCTC
Found at i:10070227 original size:22 final size:22
Alignment explanation
Indices: 10070197--10070244 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
10070187 TAGTCACAAT
* *
10070197 TTTTTATATGAAAAAG-CTTAAC
1 TTTTCATAT-AAAAAGACATAAC
*
10070219 TTTTCATATAAAGAGACATAAC
1 TTTTCATATAAAAAGACATAAC
10070241 TTTT
1 TTTT
10070245 TATTTTGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (22 bp):
TTTTCATATAAAAAGACATAAC
Found at i:10079323 original size:17 final size:18
Alignment explanation
Indices: 10079288--10079328 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10079278 TAAAAATCAC
10079288 ATTATTTAAATTTAAAAT-
1 ATTA-TTAAATTTAAAATA
10079306 ATTATTAAA-TTAATAATA
1 ATTATTAAATTTAA-AATA
10079324 ATTAT
1 ATTAT
10079329 ATCCGAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTAAATTTAAAATA
Found at i:10089121 original size:2 final size:2
Alignment explanation
Indices: 10089109--10089154 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
10089099 CAAAGATAAA
*
10089109 AT AT TT 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
10089151 AT AT
1 AT AT
10089155 NCAAGTCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10089280 original size:2 final size:2
Alignment explanation
Indices: 10089273--10089336 Score: 76
Period size: 2 Copynumber: 32.0 Consensus size: 2
10089263 TCAAATAAAA
*
10089273 AT AT AT AT AT AT AT A- AT AT AA AT AT AT AT AT AT AGT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
10089315 AT AT AT AT CT AT CT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
10089337 TATGCTAGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
1 1 0.02
2 49 0.94
3 2 0.04
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10089299 original size:17 final size:18
Alignment explanation
Indices: 10089277--10089321 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
10089267 ATAAAAATAT
10089277 ATATATATATAATA-TAA
1 ATATATATATAATAGTAA
*
10089294 ATATATATAT-ATAGTAT
1 ATATATATATAATAGTAA
10089311 ATATATATATA
1 ATATATATATA
10089322 TCTATCTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATATATATAATAGTAA
Found at i:10089299 original size:19 final size:19
Alignment explanation
Indices: 10089275--10089322 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
10089265 AAATAAAAAT
10089275 ATATATATATATAATATAA
1 ATATATATATATAATATAA
* *
10089294 ATATATATATATAGTATAT
1 ATATATATATATAATATAA
10089313 ATATATATAT
1 ATATATATAT
10089323 CTATCTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATATATATAATATAA
Found at i:10089312 original size:21 final size:21
Alignment explanation
Indices: 10089266--10089322 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
10089256 ACTTATTTCA
*
10089266 AATAAAAATATATATATATAT
1 AATATAAATATATATATATAT
10089287 AATATAAATATATATATATAGT
1 AATATAAATATATATATATA-T
*
10089309 -ATATATATATATAT
1 AATATAAATATATAT
10089323 CTATCTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATAAATATATATATATAT
Found at i:10090039 original size:3 final size:3
Alignment explanation
Indices: 10090031--10090057 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10090021 GATATCTAGC
10090031 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
10090058 CTGATTCATG
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:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10091613 original size:17 final size:18
Alignment explanation
Indices: 10091591--10091658 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 18
10091581 TGGTACAAAG
10091591 AAAAT-ATTTATTATATA
1 AAAATAATTTATTATATA
*
10091608 AAAATAATTATAATTATACAA
1 AAAATAATT-T-ATTATA-TA
10091629 GAAAATAATGTTTATTATATA
1 -AAAATAA--TTTATTATATA
10091650 AAAATAATT
1 AAAATAATT
10091659 ATAATTGTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
17 5 0.12
18 5 0.12
19 1 0.02
20 13 0.31
21 2 0.05
22 13 0.31
23 1 0.02
24 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATAATTTATTATATA
Found at i:10091625 original size:20 final size:20
Alignment explanation
Indices: 10091600--10091664 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 20
10091590 GAAAATATTT
10091600 ATTATATAAAAATAATTATA
1 ATTATATAAAAATAATTATA
* *
10091620 ATTATACAAGAAAATAATGT-TT
1 ATTATA-TA-AAAATAAT-TATA
10091642 ATTATATAAAAATAATTATA
1 ATTATATAAAAATAATTATA
10091662 ATT
1 ATT
10091665 GTACGAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 2 0.05
22 15 0.41
23 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (20 bp):
ATTATATAAAAATAATTATA
Found at i:10091636 original size:22 final size:22
Alignment explanation
Indices: 10091608--10091675 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
10091598 TTATTATATA
10091608 AAAATAATTATAATTATACAAG
1 AAAATAATTATAATTATACAAG
* *
10091630 AAAATAATGT-TTATTATA-TA-
1 AAAATAAT-TATAATTATACAAG
* *
10091650 AAAATAATTATAATTGTACGAG
1 AAAATAATTATAATTATACAAG
10091672 AAAA
1 AAAA
10091676 CAAGTTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 14 0.38
21 2 0.05
22 19 0.51
23 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (22 bp):
AAAATAATTATAATTATACAAG
Found at i:10093917 original size:2 final size:2
Alignment explanation
Indices: 10093912--10093936 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10093902 TTTTTTTAAG
10093912 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
10093937 NNNNNNNNNN
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:10094023 original size:2 final size:2
Alignment explanation
Indices: 10094018--10094044 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10094008 CTTTTTTAAG
10094018 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10094045 CATAAACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10095228 original size:3 final size:3
Alignment explanation
Indices: 10095220--10095246 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10095210 TCTTATTACT
10095220 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
10095247 AGTCGACGTT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10096496 original size:3 final size:3
Alignment explanation
Indices: 10096488--10096537 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
10096478 CACTTTCCTC
**
10096488 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10096536 AT
1 AT
10096538 GATCATTCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:10127832 original size:60 final size:60
Alignment explanation
Indices: 10127713--10127949 Score: 318
Period size: 60 Copynumber: 4.0 Consensus size: 60
10127703 ACATCATCAT
* * *
10127713 CTACTCATGGGAACTACCCACGCCACCA-A-ATGAATCGGAGCTTCAGGTCCTCCTTTTTAC
1 CTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGAGCTTCAGGTCC-CC-CTTTAC
* * * *
10127773 CTACTTGTGGGAACTACCAACGCCACCATACATAAATCGGGGCTTCAAGTCCCCCTTTAC
1 CTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGAGCTTCAGGTCCCCCTTTAC
* *
10127833 CTACTCGTGGGAACTACCCACGCCACTATACATAAATCGGGGCTTCAGGTCCCCCTTTAC
1 CTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGAGCTTCAGGTCCCCCTTTAC
* * * *
10127893 CTACTCGT-GGAACTACGCATGCCACCATACGTAAATCAGAGCTTCAGGTCCCCCTTT
1 CTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGAGCTTCAGGTCCCCCTTT
10127950 TTAAATCAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
59 43 0.27
60 94 0.59
61 3 0.02
62 18 0.11
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (60 bp):
CTACTCGTGGGAACTACCCACGCCACCATACATAAATCGGAGCTTCAGGTCCCCCTTTAC
Found at i:10128645 original size:20 final size:20
Alignment explanation
Indices: 10128616--10128661 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
10128606 TTCTCTTTCT
10128616 CTTTTT-CTTTCTCTTCTTC
1 CTTTTTCCTTTCTCTTCTTC
*
10128635 CTTTTTCCTTTTTCTTCTTC
1 CTTTTTCCTTTCTCTTCTTC
*
10128655 CTCTTTC
1 CTTTTTC
10128662 TCCTCCGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTTTCCTTTCTCTTCTTC
Found at i:10128715 original size:20 final size:21
Alignment explanation
Indices: 10128682--10128720 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10128672 CCGTCGCTGC
10128682 TTTTCTCTCTTTCTTCTTTTT
1 TTTTCTCTCTTTCTTCTTTTT
*
10128703 TTTTCTTTC-TTCTTCTTT
1 TTTTCTCTCTTTCTTCTTT
10128721 CCCTCTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTCTCTTTCTTCTTTTT
Found at i:10128865 original size:9 final size:9
Alignment explanation
Indices: 10128851--10128894 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
10128841 CCCCACTCTC
10128851 TTTCTTTTT
1 TTTCTTTTT
10128860 TTTCTTTTTT
1 TTTC-TTTTT
10128870 TTTCTTTTT
1 TTTCTTTTT
* *
10128879 CTTCTCTTT
1 TTTCTTTTT
*
10128888 CTTCTTT
1 TTTCTTT
10128895 CTCTTGACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:10129018 original size:22 final size:20
Alignment explanation
Indices: 10128975--10129052 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 20
10128965 ACTTAACTTT
*
10128975 TCTTCTTCTTTTTT-TCTCTC
1 TCTTCTTCTTTTTTCT-TTTC
10128995 TCATTTCTTCTTTTTTCTTTTC
1 TC--TTCTTCTTTTTTCTTTTC
*
10129017 TCTTC-TCTTTTATCTTTT-
1 TCTTCTTCTTTTTTCTTTTC
10129035 TCCTT-TTCTTTTTCTCTT
1 T-CTTCTTCTTTTT-TCTT
10129053 CACATGCCGG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
18 1 0.02
19 21 0.43
20 9 0.18
22 17 0.35
23 1 0.02
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTCTTCTTTTTTCTTTTC
Found at i:10129032 original size:26 final size:26
Alignment explanation
Indices: 10128973--10129052 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
10128963 CGACTTAACT
*
10128973 TTTCTTCTTCTTT-TTTTCTC-TCTC
1 TTTCTTCTTTTTTCTTTTCTCTTCTC
10128997 ATTTCTTCTTTTTTCTTTTCTCTTCTC
1 -TTTCTTCTTTTTTCTTTTCTCTTCTC
* *
10129024 TTT-TATCTTTTTCCTTTTCTTTTTCTC
1 TTTCT-TCTTTTTTCTTTTC-TCTTCTC
10129051 TT
1 TT
10129053 CACATGCCGG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
25 13 0.27
26 23 0.48
27 12 0.25
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTCTTCTTTTTTCTTTTCTCTTCTC
Found at i:10129370 original size:21 final size:21
Alignment explanation
Indices: 10129346--10129385 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10129336 TGAGGGTTGG
10129346 GTTAAAACAAAAAGAAAAGAA
1 GTTAAAACAAAAAGAAAAGAA
* **
10129367 GTTAAGACCCAAAGAAAAG
1 GTTAAAACAAAAAGAAAAG
10129386 CCCAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.17, T:0.10
Consensus pattern (21 bp):
GTTAAAACAAAAAGAAAAGAA
Found at i:10132630 original size:54 final size:54
Alignment explanation
Indices: 10132561--10132663 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
10132551 ACACGATGAC
*
10132561 TCCGACTATGTGCACGATGTGGGGGGATGCACATGAGCTAGG-TGAGATGGGATG
1 TCCGACTATGTGCACGATGTGGGGGGATGCACAGGAGCT-GGATGAGATGGGATG
* *
10132615 TCCGGCTATGTGCACGATGTGGGGGGATGCATAGGAGCTGGATGAGATG
1 TCCGACTATGTGCACGATGTGGGGGGATGCACAGGAGCTGGATGAGATG
10132664 TGGTGATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (54 bp):
TCCGACTATGTGCACGATGTGGGGGGATGCACAGGAGCTGGATGAGATGGGATG
Found at i:10140054 original size:5 final size:5
Alignment explanation
Indices: 10140041--10140075 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
10140031 AAACATACTA
*
10140041 AATAC AATAT AATAT AATAT AATAT AATAT -ATAT A
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT A
10140076 GAGAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:10140502 original size:19 final size:19
Alignment explanation
Indices: 10140461--10140505 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
10140451 ATATTACCCT
**
10140461 TTTATATCTTTAGATACNT
1 TTTATATCTTTAGATACAA
10140480 TTTATATCTTTAGATACAA
1 TTTATATCTTTAGATACAA
10140499 TTTATAT
1 TTTATAT
10140506 TTAATTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTATATCTTTAGATACAA
Found at i:10142252 original size:214 final size:214
Alignment explanation
Indices: 10141866--10142295 Score: 542
Period size: 214 Copynumber: 2.0 Consensus size: 214
10141856 CATAGTAGGT
* * *
10141866 CATGTTTAGTGAATTTATTCTTTAACAAGCACCTACATGTTATCCTTAAGTATCCCATATGCTTC
1 CATGTTCAGTGAACTTATTCTTTAACAAGCACCTACATGTTATCCTTAAGTATCCCATATACTTC
* ** **
10141931 AATTTATGAGATCGATTGCTTACTTCCCAAGTAAGTGGGCTTAACATGTGTTAATCTTTAAGCAG
66 AATCTATGAGATCGATTGCTTACTTCCCAAGTAAGTAAGCTTAACATGTCCTAATCTTTAAGCAG
* * * * *
10141996 TGTCAATACCCTGTTTTGACATTACAATGACTAGGAACAATTTTAAGAATATGACTTTAATGTAT
131 TGTCAATACCCTATCTTGACAATACAATGACTAGGAACAATTTTAAGAACATAACTTTAATGTAT
*
10142061 AGTGATCTCATAATTGTAA
196 AGTGATCTCATAATTATAA
* * * *
10142080 CATGTTCAGTGAACTTGTTCTTTACCAAGCACCTATATGTTAT-CTTCAAGTATCCTATATACTT
1 CATGTTCAGTGAACTTATTCTTTAACAAGCACCTACATGTTATCCTT-AAGTATCCCATATACTT
* * *
10142144 CAATCTATGAGATCGATTGCTTACTTTCCAAGTAAAG-AAGCTTAATATGTACCT-ATCTTTGAG
65 CAATCTATGAGATCGATTGCTTACTTCCCAAGT-AAGTAAGCTTAACATGT-CCTAATCTTTAAG
* * ** * * * * *
10142207 TATTGTCAATGTCTTATCTTGACAATAGAATGACTATGAACAATTTTAGGAACATAACTTTGATG
128 CAGTGTCAATACCCTATCTTGACAATACAATGACTAGGAACAATTTTAAGAACATAACTTTAATG
10142272 TATAGTGATCTCATAATTATAA
193 TATAGTGATCTCATAATTATAA
10142294 CA
1 CA
10142296 ACTTTGCAAT
Statistics
Matches: 183, Mismatches: 30, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
213 3 0.02
214 176 0.96
215 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (214 bp):
CATGTTCAGTGAACTTATTCTTTAACAAGCACCTACATGTTATCCTTAAGTATCCCATATACTTC
AATCTATGAGATCGATTGCTTACTTCCCAAGTAAGTAAGCTTAACATGTCCTAATCTTTAAGCAG
TGTCAATACCCTATCTTGACAATACAATGACTAGGAACAATTTTAAGAACATAACTTTAATGTAT
AGTGATCTCATAATTATAA
Found at i:10152838 original size:4 final size:4
Alignment explanation
Indices: 10152829--10152853 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10152819 CCTGTGTTTT
10152829 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
10152854 ATAAGATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:10152901 original size:2 final size:2
Alignment explanation
Indices: 10152888--10152923 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10152878 TAATATTAGA
* *
10152888 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10152924 GTTCGTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:10152968 original size:8 final size:8
Alignment explanation
Indices: 10152955--10153005 Score: 79
Period size: 8 Copynumber: 6.6 Consensus size: 8
10152945 ATCCAATATG
10152955 TATATGTA
1 TATATGTA
10152963 TATATGTA
1 TATATGTA
10152971 TATATGTA
1 TATATGTA
*
10152979 GATA--TA
1 TATATGTA
10152985 TATATGTA
1 TATATGTA
10152993 TATATGTA
1 TATATGTA
10153001 TATAT
1 TATAT
10153006 ATAGTTTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 5 0.13
8 34 0.87
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (8 bp):
TATATGTA
Found at i:10152969 original size:14 final size:14
Alignment explanation
Indices: 10152950--10153008 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
10152940 GCCAGATCCA
10152950 ATATGTATATGTAT
1 ATATGTATATGTAT
*
10152964 ATATGTATATATGTAG
1 ATATG--TATATGTAT
*
10152980 ATATATATATGTAT
1 ATATGTATATGTAT
*
10152994 ATATGTATATATAT
1 ATATGTATATGTAT
10153008 A
1 A
10153009 GTTTATCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 26 0.68
16 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (14 bp):
ATATGTATATGTAT
Found at i:10152975 original size:22 final size:22
Alignment explanation
Indices: 10152950--10153008 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
10152940 GCCAGATCCA
*
10152950 ATATGTATATGTATATATGTAT
1 ATATGTATATATATATATGTAT
*
10152972 ATATGTAGATATATATATGTAT
1 ATATGTATATATATATATGTAT
10152994 ATATGTATATATATA
1 ATATGTATATATATA
10153009 GTTTATCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (22 bp):
ATATGTATATATATATATGTAT
Found at i:10158484 original size:20 final size:19
Alignment explanation
Indices: 10158445--10158484 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10158435 CCCACAAATC
*
10158445 AGTTATAGCACACGTTTCA
1 AGTTATAGCACACGTCTCA
*
10158464 AGTTATAAGCACATGTCTCA
1 AGTTAT-AGCACACGTCTCA
10158484 A
1 A
10158485 CATGTAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (19 bp):
AGTTATAGCACACGTCTCA
Found at i:10170234 original size:33 final size:33
Alignment explanation
Indices: 10170192--10170256 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
10170182 AACAAATTAC
*
10170192 CATACCAAATCATCATTAATTATGATATGTTAA
1 CATACCAAATCATCATTAATTATAATATGTTAA
*
10170225 CATATCAAATCATCATTAATTATAATATGTTA
1 CATACCAAATCATCATTAATTATAATATGTTA
10170257 GCATGCTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (33 bp):
CATACCAAATCATCATTAATTATAATATGTTAA
Found at i:10170366 original size:30 final size:30
Alignment explanation
Indices: 10170330--10170387 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10170320 AATCATAAGG
10170330 ACTTATTTTA-CTCAAAATAAAAAAACAATA
1 ACTTA-TTTAGCTCAAAATAAAAAAACAATA
* *
10170360 ACTTATTTAGCTGAAAATAAAAATACAA
1 ACTTATTTAGCTCAAAATAAAAAAACAA
10170388 GGGTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
ACTTATTTAGCTCAAAATAAAAAAACAATA
Found at i:10185758 original size:20 final size:19
Alignment explanation
Indices: 10185725--10185764 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10185715 TGTCTATTTT
10185725 TTATTATTAAATATTATAAA
1 TTATTATTAAATATT-TAAA
10185745 TTATT-TTAATATATTTAAA
1 TTATTATTAA-ATATTTAAA
10185764 T
1 T
10185765 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTATTAAATATTTAAA
Found at i:10187703 original size:144 final size:144
Alignment explanation
Indices: 10187441--10187774 Score: 650
Period size: 144 Copynumber: 2.3 Consensus size: 144
10187431 CACATGCATA
10187441 AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTCCCATCTGTAATTTTGTCCT
1 AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTCCCATCTGTAATTTTGTCCT
*
10187506 CTTCACATGCATAAATTAAGTGTTTTGTTAACATTTCCCATTTTGTAACTTTGCACTTCATAACT
66 CTTCACATGCATAAATTAAGTGTTTTGTTAACATTTCCCATTTTGTAAATTTGCACTTCATAACT
10187571 AAGCGTAATTCTTC
131 AAGCGTAATTCTTC
*
10187585 AATTAAGTGTTTTGTTAACATTTCCCATTTACATTTTGATATATTCCCATCTGTAATTTTGTCCT
1 AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTCCCATCTGTAATTTTGTCCT
10187650 CTTCACATGCATAAATTAAGTGTTTTGTTAACATTTCCCATTTTGTAAATTTGCACTTCATAACT
66 CTTCACATGCATAAATTAAGTGTTTTGTTAACATTTCCCATTTTGTAAATTTGCACTTCATAACT
10187715 AAGCGTAATTCTTC
131 AAGCGTAATTCTTC
10187729 AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTC
1 AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTC
10187775 ATGCAGTTAC
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 187 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.46
Consensus pattern (144 bp):
AATTAAGTGTTTTGTTAACATTTCCCATTTACGTTTTGATATATTCCCATCTGTAATTTTGTCCT
CTTCACATGCATAAATTAAGTGTTTTGTTAACATTTCCCATTTTGTAAATTTGCACTTCATAACT
AAGCGTAATTCTTC
Found at i:10194747 original size:24 final size:24
Alignment explanation
Indices: 10194689--10194747 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
10194679 TTTAAATTTT
10194689 AAAT-TTTTTATTTATATTTTAAA
1 AAATCTTTTTATTTATATTTTAAA
*
10194712 AAATTTTATTTATTT-TATTTTTAAA
1 AAATCTT-TTTATTTATA-TTTTAAA
**
10194737 TGATCTTTTTA
1 AAATCTTTTTA
10194748 AAATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 18 0.60
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
AAATCTTTTTATTTATATTTTAAA
Found at i:10195058 original size:17 final size:16
Alignment explanation
Indices: 10195036--10195067 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10195026 TTTTTCTTTT
10195036 TATTTATATTATTTAAC
1 TATTTATA-TATTTAAC
10195053 TATTTATATATTTAA
1 TATTTATATATTTAA
10195068 TGATTGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTATATATTTAAC
Found at i:10198731 original size:217 final size:215
Alignment explanation
Indices: 10198353--10199007 Score: 894
Period size: 217 Copynumber: 3.1 Consensus size: 215
10198343 ACATAACTGT
*
10198353 ATAAATATAT-TATATATACATATATTTAATTTATACATAAACATTACTATAATTTATAATAAAC
1 ATAAATATATATATATATACATATATTTAATTTATACATAAACATTACTATAACTTATAATAAAC
*
10198417 TTTATTTATATGATTACA-TTTAATAACTTTATTAGTTATCACCTTAGATTTTATAATATATTGT
66 TTTATTTATATGATTACACTTT-ATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTGT
*
10198481 CTATAATTAGTTATTATTTATACAAACTTTGATATAAAAC-TTATAATATATAAGTTATGTCATT
130 TTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTATAATATATAAGTTATGTCATT
*
10198545 AATTTCACATATATATATATA
195 AATTTCAAATATATATATATA
* *
10198566 ATAAACTAATATATTATATATACATATATTTAATTTATACATAAGCATTACTATAGCTTATAATA
1 ATAAA-T-ATATA-TATATATACATATATTTAATTTATACATAAACATTACTATAACTTATAATA
** * *
10198631 GGCCTTATTTATATGATTACACTTTATAACTTTATTAGTTATCACCTTAAATTTTATAACATATT
63 AACTTTATTTATATGATTACACTTTATAACTTTATTAGTTATCACCTTAGATTTTATAACATATT
* * * * *
10198696 GTTTGTAATTAGTTATTATTTATACAAGCTTTGATATAAAACGTTTTAACATATAA-TT-TGT-A
128 GTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTATAATATATAAGTTATGTCA
*
10198758 -TCA--T-AAAT-TATATATATA
193 TTAATTTCAAATATATATATATA
* *
10198776 ATAAAGTA-ATATAT-TAT--ATATATTTAATTTATACATAAATATTACTCTAACTTATAATAAA
1 ATAAA-TATATATATATATACATATATTTAATTTATACATAAACATTACTATAACTTATAATAAA
* * * * *
10198837 CTTTATTTATATGAGTACACTTAATAAGTTTATTAGCTACCACCTTAGATTTTATAACATATTGT
65 CTTTATTTATATGATTACACTTTATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTGT
* * *
10198902 TTATAATT-GTTATTATTTATACAAACTTTAATATAAAACATTATAATATATAAGTTATATCCTT
130 TTATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTATAATATATAAGTTATGTCATT
*
10198966 AATTTCATATATATATATAT-
195 AATTTCAAATATATATATATA
*
10198986 ATATATATATATATATATACAT
1 ATAAATATATATATATATACAT
10199008 TTACATATAT
Statistics
Matches: 384, Mismatches: 40, Indels: 36
0.83 0.09 0.08
Matches are distributed among these distances:
203 40 0.10
204 105 0.27
205 2 0.01
206 3 0.01
207 5 0.01
208 3 0.01
209 4 0.01
210 29 0.08
211 15 0.04
212 1 0.00
213 7 0.02
214 3 0.01
215 5 0.01
216 3 0.01
217 145 0.38
218 14 0.04
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (215 bp):
ATAAATATATATATATATACATATATTTAATTTATACATAAACATTACTATAACTTATAATAAAC
TTTATTTATATGATTACACTTTATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTGTT
TATAATTAGTTATTATTTATACAAACTTTGATATAAAACATTATAATATATAAGTTATGTCATTA
ATTTCAAATATATATATATA
Found at i:10198979 original size:2 final size:2
Alignment explanation
Indices: 10198972--10199018 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
10198962 CCTTAATTTC
* * *
10198972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT TT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10199014 AT AT A
1 AT AT A
10199019 ATTATGGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10200926 original size:18 final size:18
Alignment explanation
Indices: 10200864--10200927 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
10200854 TAACCCATTA
*
10200864 AAAAATGGATAATCCACC
1 AAAAATGGATAACCCACC
* * *
10200882 AGAAGTGGATAACCCATC
1 AAAAATGGATAACCCACC
* ** *
10200900 ATACGTGGATCACCCACC
1 AAAAATGGATAACCCACC
10200918 AAAAATGGAT
1 AAAAATGGAT
10200928 GTACATTTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (18 bp):
AAAAATGGATAACCCACC
Found at i:10205152 original size:11 final size:11
Alignment explanation
Indices: 10205132--10205178 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
10205122 TATGGCCGGC
10205132 CAAAGGAAGAA
1 CAAAGGAAGAA
*
10205143 CAAAGCAAGAA
1 CAAAGGAAGAA
10205154 CAAAGGAA-AA
1 CAAAGGAAGAA
*
10205164 AAAAGGAAGAA
1 CAAAGGAAGAA
10205175 CAAA
1 CAAA
10205179 ACCCTAGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.68, C:0.11, G:0.21, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:10205173 original size:21 final size:22
Alignment explanation
Indices: 10205132--10205178 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
10205122 TATGGCCGGC
*
10205132 CAAAGGAAGAACAAAGCAAGAA
1 CAAAGGAAGAAAAAAGCAAGAA
*
10205154 CAAAGGAA-AAAAAAGGAAGAA
1 CAAAGGAAGAAAAAAGCAAGAA
10205175 CAAA
1 CAAA
10205179 ACCCTAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.68, C:0.11, G:0.21, T:0.00
Consensus pattern (22 bp):
CAAAGGAAGAAAAAAGCAAGAA
Found at i:10208203 original size:19 final size:19
Alignment explanation
Indices: 10208165--10208203 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10208155 ATCTTCTTAC
* *
10208165 TCCCTCTAAATATTTTTTT
1 TCCCTCTAAATACTTATTT
10208184 TCCCTCTAAATACTTATTT
1 TCCCTCTAAATACTTATTT
10208203 T
1 T
10208204 TATATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (19 bp):
TCCCTCTAAATACTTATTT
Found at i:10208460 original size:2 final size:2
Alignment explanation
Indices: 10208453--10208504 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
10208443 ATGGACATTC
10208453 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
10208495 AT AT AT AT AT
1 AT AT AT AT AT
10208505 TCATAACATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10208971 original size:15 final size:15
Alignment explanation
Indices: 10208953--10209038 Score: 77
Period size: 15 Copynumber: 5.5 Consensus size: 15
10208943 TATAAAAAAG
10208953 GGAAGAAGGAAAATA
1 GGAAGAAGGAAAATA
*
10208968 GGAAGAA-GAAAAGCTT
1 GGAAGAAGGAAAA--TA
10208984 GAGAAGAAGGAAAATA
1 G-GAAGAAGGAAAATA
*
10209000 GGAAGAA-GAAAAGCTT
1 GGAAGAAGGAAAA--TA
10209016 GAGAAGAAGGAAAATA
1 G-GAAGAAGGAAAATA
*
10209032 AGAAGAA
1 GGAAGAA
10209039 AAGAATTAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
14 10 0.17
15 19 0.33
16 7 0.12
17 12 0.21
18 10 0.17
ACGTcount: A:0.58, C:0.02, G:0.31, T:0.08
Consensus pattern (15 bp):
GGAAGAAGGAAAATA
Found at i:10208977 original size:18 final size:18
Alignment explanation
Indices: 10208954--10209009 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
10208944 ATAAAAAAGG
10208954 GAAGAAGGAAAATAGGAA
1 GAAGAAGGAAAATAGGAA
** *
10208972 GAAGAA--AAGCT-TG-A
1 GAAGAAGGAAAATAGGAA
10208986 GAAGAAGGAAAATAGGAA
1 GAAGAAGGAAAATAGGAA
10209004 GAAGAA
1 GAAGAA
10209010 AAGCTTGAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.25
15 1 0.04
16 6 0.21
17 1 0.04
18 13 0.46
ACGTcount: A:0.59, C:0.02, G:0.32, T:0.07
Consensus pattern (18 bp):
GAAGAAGGAAAATAGGAA
Found at i:10208991 original size:17 final size:18
Alignment explanation
Indices: 10208969--10209029 Score: 78
Period size: 17 Copynumber: 3.7 Consensus size: 18
10208959 AGGAAAATAG
10208969 GAAGAA-GAAAAGCTTGA
1 GAAGAAGGAAAAGCTTGA
*
10208986 GAAGAAGGAAAA--TAG-
1 GAAGAAGGAAAAGCTTGA
10209001 GAAGAA-GAAAAGCTTGA
1 GAAGAAGGAAAAGCTTGA
10209018 GAAGAAGGAAAA
1 GAAGAAGGAAAA
10209030 TAAGAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 5 0.14
15 6 0.16
16 4 0.11
17 12 0.32
18 10 0.27
ACGTcount: A:0.57, C:0.03, G:0.31, T:0.08
Consensus pattern (18 bp):
GAAGAAGGAAAAGCTTGA
Found at i:10208995 original size:32 final size:32
Alignment explanation
Indices: 10208954--10209038 Score: 161
Period size: 32 Copynumber: 2.7 Consensus size: 32
10208944 ATAAAAAAGG
10208954 GAAGAAGGAAAATAGGAAGAAGAAAAGCTTGA
1 GAAGAAGGAAAATAGGAAGAAGAAAAGCTTGA
10208986 GAAGAAGGAAAATAGGAAGAAGAAAAGCTTGA
1 GAAGAAGGAAAATAGGAAGAAGAAAAGCTTGA
*
10209018 GAAGAAGGAAAATAAGAAGAA
1 GAAGAAGGAAAATAGGAAGAA
10209039 AAGAATTAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.59, C:0.02, G:0.31, T:0.08
Consensus pattern (32 bp):
GAAGAAGGAAAATAGGAAGAAGAAAAGCTTGA
Found at i:10209797 original size:84 final size:85
Alignment explanation
Indices: 10209689--10209859 Score: 263
Period size: 85 Copynumber: 2.0 Consensus size: 85
10209679 GAGACAATGA
* *
10209689 AAATAATAAAATAGAAAATAGGTAA-AAGAAATCAATTGGAATATTGAATTAAAATTCTTTCAAA
1 AAATAATAAAATAGAAAATAGGTAAGAAGAAATAAATTGGAATACTGAATTAAAATTCTTTCAAA
*
10209753 AAATCTAAAATATAATATAT
66 AAATCTAAAACATAATATAT
* * * **
10209773 AAATAATAAAATAGAAAATAGGTAAGAAGAAATAAATTTGAATACTGAATTAAATTTTTTTTGAA
1 AAATAATAAAATAGAAAATAGGTAAGAAGAAATAAATTGGAATACTGAATTAAAATTCTTTCAAA
10209838 AAATCTAAAACATAATATAT
66 AAATCTAAAACATAATATAT
10209858 AA
1 AA
10209860 TTTTTTTTAG
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 25 0.32
85 53 0.68
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (85 bp):
AAATAATAAAATAGAAAATAGGTAAGAAGAAATAAATTGGAATACTGAATTAAAATTCTTTCAAA
AAATCTAAAACATAATATAT
Found at i:10210955 original size:15 final size:17
Alignment explanation
Indices: 10210925--10210964 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
10210915 GAATTAAATC
10210925 ATAAAATAATTTTATTA
1 ATAAAATAATTTTATTA
10210942 ATAAAA-AA-TTTATTA
1 ATAAAATAATTTTATTA
10210957 AGTAAAAT
1 A-TAAAAT
10210965 TATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
ATAAAATAATTTTATTA
Found at i:10211465 original size:29 final size:28
Alignment explanation
Indices: 10211429--10211492 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
10211419 AATATTATAT
10211429 TAATTATAAATAAATTATAA-ATAAAAAA
1 TAATTATAAATAAATT-TAATATAAAAAA
* *
10211457 TAATATATAATTAAATTTAATATTAAAAA
1 TAAT-TATAAATAAATTTAATATAAAAAA
*
10211486 TTATTAT
1 TAATTAT
10211493 TTATAATCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
TAATTATAAATAAATTTAATATAAAAAA
Found at i:10219592 original size:28 final size:28
Alignment explanation
Indices: 10219544--10219763 Score: 126
Period size: 27 Copynumber: 8.1 Consensus size: 28
10219534 AATTATGGTG
10219544 TGACATGTAACAACT---T-TTTC-ATAA
1 TGACATGTAACAACTAAATCTTTCAAT-A
*
10219568 TGGCATGTAACAACTAAATCTTTCAATA
1 TGACATGTAACAACTAAATCTTTCAATA
* * *
10219596 TGACGTGTAACAATTAAATC-TTCAACA
1 TGACATGTAACAACTAAATCTTTCAATA
* * * *
10219623 TGGCATATAATAA-TAATTACATTTTTCAATA
1 TGACATGTAACAACT-A--A-ATCTTTCAATA
* * * *
10219654 TGACGTGTAACAATTAAAT-TTTTAACA
1 TGACATGTAACAACTAAATCTTTCAATA
*
10219681 TGATATGTAACAACTAAAT-TTTC-ATCA
1 TGACATGTAACAACTAAATCTTTCAAT-A
10219708 TGACATGT---AACTAAATC-TTCAATA
1 TGACATGTAACAACTAAATCTTTCAATA
* * * * *
10219732 TGGCGTATAACAACTACATTTTTCAATA
1 TGACATGTAACAACTAAATCTTTCAATA
10219760 TGAC
1 TGAC
10219764 GTATAACTAA
Statistics
Matches: 149, Mismatches: 29, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
24 31 0.21
25 2 0.01
26 2 0.01
27 57 0.38
28 34 0.23
29 4 0.03
30 2 0.01
31 16 0.11
32 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (28 bp):
TGACATGTAACAACTAAATCTTTCAATA
Found at i:10219675 original size:27 final size:27
Alignment explanation
Indices: 10219573--10219781 Score: 128
Period size: 27 Copynumber: 7.7 Consensus size: 27
10219563 CATAATGGCA
10219573 TGTAACAACTAAATCTTTCAATATGACG
1 TGTAACAACTAAAT-TTTCAATATGACG
* * * * *
10219601 TGTAACAATTAAATCTTCAACATGGCA
1 TGTAACAACTAAATTTTCAATATGACG
* *
10219628 TATAATAA-TAATTACATTTTTCAATATGACG
1 TGTAACAACT-A--A-A-TTTTCAATATGACG
* * * **
10219659 TGTAACAATTAAATTTTTAACATGATA
1 TGTAACAACTAAATTTTCAATATGACG
*
10219686 TGTAACAACTAAATTTTC-ATCATGACA
1 TGTAACAACTAAATTTTCAAT-ATGACG
* *
10219713 TGT---AACTAAATCTTCAATATGGCG
1 TGTAACAACTAAATTTTCAATATGACG
* *
10219737 TATAACAACTACATTTTTCAATATGAC-
1 TGTAACAACTA-AATTTTCAATATGACG
*
10219764 -GT-ATAACTAAATTTTCAA
1 TGTAACAACTAAATTTTCAA
10219782 CATAATATAT
Statistics
Matches: 138, Mismatches: 31, Indels: 28
0.70 0.16 0.14
Matches are distributed among these distances:
24 25 0.18
25 8 0.06
26 3 0.02
27 55 0.40
28 26 0.19
29 2 0.01
30 1 0.01
31 17 0.12
32 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TGTAACAACTAAATTTTCAATATGACG
Found at i:10223339 original size:28 final size:27
Alignment explanation
Indices: 10223299--10223352 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
10223289 TTTTTATTTT
* *
10223299 TTATTATAGTTAATTAAATCTTTATAC
1 TTATTATAATTAAATAAATCTTTATAC
*
10223326 TTATTATTAATTAAATAAATTTTTATA
1 TTATTA-TAATTAAATAAATCTTTATA
10223353 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (27 bp):
TTATTATAATTAAATAAATCTTTATAC
Found at i:10227768 original size:21 final size:21
Alignment explanation
Indices: 10227718--10227769 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
10227708 CTAAACCTAA
* * *
10227718 AACCCCAATTTCCAAGACCTT
1 AACCCTAATTTCCAAAACCCT
* *
10227739 TACCTTAATTTCCAAAACCCT
1 AACCCTAATTTCCAAAACCCT
10227760 AACCCTAATT
1 AACCCTAATT
10227770 CTCGAATTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (21 bp):
AACCCTAATTTCCAAAACCCT
Found at i:10231102 original size:34 final size:33
Alignment explanation
Indices: 10231026--10231102 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
10231016 TTTAATATTT
* *
10231026 CAACAA-TTTTGCATTTAATATTTCACAACTTG
1 CAACAACTTTTGCATTCAATATTTCACAACTTC
* *
10231058 CAACAGCTTTTGCATTCAATATTTCAATAACTTC
1 CAACAACTTTTGCATTCAATATTTC-ACAACTTC
*
10231092 CAAGAACTTTT
1 CAACAACTTTT
10231103 ATCAAACAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
32 5 0.14
33 17 0.46
34 15 0.41
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (33 bp):
CAACAACTTTTGCATTCAATATTTCACAACTTC
Found at i:10234037 original size:66 final size:66
Alignment explanation
Indices: 10233945--10234077 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
10233935 TCATTTAATG
10233945 ACCCCCAACTACTCCAATGCCCTTTCTATGTATAAAAAGAGGTCTACCTCAGTTCATTTATGAAG
1 ACCCCCAACTACTCCAATGCCCTTTCTATGTATAAAAAGAGGTCTACCTCAGTTCATTTATGAAG
10234010 T
66 T
*
10234011 ACCCCCAACTGCTCCAATGCCCTTTCTATGTATAAAAAGAGGTCTACCTCAGTTCATTTATGAAG
1 ACCCCCAACTACTCCAATGCCCTTTCTATGTATAAAAAGAGGTCTACCTCAGTTCATTTATGAAG
10234076 T
66 T
10234077 A
1 A
10234078 AGAAAAGAGA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (66 bp):
ACCCCCAACTACTCCAATGCCCTTTCTATGTATAAAAAGAGGTCTACCTCAGTTCATTTATGAAG
T
Found at i:10234421 original size:30 final size:30
Alignment explanation
Indices: 10234380--10234511 Score: 101
Period size: 30 Copynumber: 4.4 Consensus size: 30
10234370 AATACCTTAG
* *
10234380 CTTTGAAAAGGTAGAAAGATTCTATCTTAAC
1 CTTT-AAAAGGTAGAAAGGTTATATCTTAAC
10234411 CTTTAAAAGGTA-AAGAGGTT-TCATCTTAAC
1 CTTTAAAAGGTAGAA-AGGTTAT-ATCTTAAC
* * * *
10234441 CTTGAAAAGATATG-GAGGTTATATCTTAGC
1 CTTTAAAAGGTA-GAAAGGTTATATCTTAAC
* * **
10234471 TTTTAAAAGATAGAAA-GTTATCCCTTAAC
1 CTTTAAAAGGTAGAAAGGTTATATCTTAAC
*
10234500 CTTGAAAAGGTA
1 CTTTAAAAGGTA
10234512 TTTGTATTGA
Statistics
Matches: 81, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
29 23 0.28
30 53 0.65
31 5 0.06
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (30 bp):
CTTTAAAAGGTAGAAAGGTTATATCTTAAC
Found at i:10234507 original size:29 final size:30
Alignment explanation
Indices: 10234435--10234508 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
10234425 GAGGTTTCAT
* * *
10234435 CTTAACCTTGAAAAGATATGGAGGTTATAT
1 CTTAACCTTGAAAAGATATGAAAGTTATAC
* * * *
10234465 CTTAGCTTTTAAAAGATA-GAAAGTTATCC
1 CTTAACCTTGAAAAGATATGAAAGTTATAC
10234494 CTTAACCTTGAAAAG
1 CTTAACCTTGAAAAG
10234509 GTATTTGTAT
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (30 bp):
CTTAACCTTGAAAAGATATGAAAGTTATAC
Found at i:10235303 original size:14 final size:14
Alignment explanation
Indices: 10235281--10235331 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
10235271 AGAGAGAGGA
*
10235281 AAGAGGAAAATAAG
1 AAGAAGAAAATAAG
10235295 AAGAAGAAAAGCTCAAG
1 AAGAAGAAAA--T-AAG
10235312 AAGAAAGAAAATAAG
1 AAG-AAGAAAATAAG
10235327 AAGAA
1 AAGAA
10235332 AACAATTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.34
15 6 0.19
16 2 0.06
17 6 0.19
18 7 0.22
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.06
Consensus pattern (14 bp):
AAGAAGAAAATAAG
Found at i:10243270 original size:6 final size:6
Alignment explanation
Indices: 10243251--10243281 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10243241 AAAAATTACT
*
10243251 ACCCTA ACCTTA ACCCTA ACCCTA ACCCTA A
1 ACCCTA ACCCTA ACCCTA ACCCTA ACCCTA A
10243282 TACATTCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (6 bp):
ACCCTA
Found at i:10243607 original size:41 final size:41
Alignment explanation
Indices: 10243510--10243666 Score: 155
Period size: 40 Copynumber: 4.0 Consensus size: 41
10243500 AAAGATCTTA
* * * * * *
10243510 AACATCAACTTAAATAACTATACATAAATATTCATATAAA-
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAAC
* *
10243550 AATATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAAC
* *
10243591 AACATAAACTTAAATAACCAAACACAAATATCCGAAC-AAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAAC
* *
10243631 AACA-ACAA---AAATAACTAAAAATAAATATCCAAACAA
1 AACATA-AACTTAAATAACTAAACACAAATATCCAAACAA
10243667 CTACTTAAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
37 22 0.22
38 1 0.01
39 1 0.01
40 41 0.42
41 33 0.34
ACGTcount: A:0.61, C:0.19, G:0.01, T:0.19
Consensus pattern (41 bp):
AACATAAACTTAAATAACTAAACACAAATATCCAAACAAAC
Found at i:10243643 original size:37 final size:38
Alignment explanation
Indices: 10243560--10243667 Score: 121
Period size: 37 Copynumber: 2.8 Consensus size: 38
10243550 AATATAAACT
*
10243560 TAAATAACTAAACACAAAGATCCAAACAAACAACATAAA
1 TAAATAACTAAACACAAATATCCAAAC-AACAACATAAA
* *
10243599 CTTAAATAACCAAACACAAATATCCGAACAACAACA-ACAA
1 --TAAATAACTAAACACAAATATCCAAACAACAACATA-AA
* *
10243639 -AAATAACTAAAAATAAATATCCAAACAAC
1 TAAATAACTAAACACAAATATCCAAACAAC
10243668 TACTTAAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
37 25 0.42
39 1 0.02
40 9 0.15
41 24 0.41
ACGTcount: A:0.62, C:0.22, G:0.02, T:0.14
Consensus pattern (38 bp):
TAAATAACTAAACACAAATATCCAAACAACAACATAAA
Found at i:10256992 original size:15 final size:15
Alignment explanation
Indices: 10256942--10256992 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
10256932 TTCTTAAAAC
10256942 AACTTTAAAA-CTAAA
1 AACTTTAAAATC-AAA
*
10256957 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
10256972 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
10256987 ATCTTT
1 AACTTT
10256993 GATCTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 30 0.97
16 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:10261511 original size:15 final size:16
Alignment explanation
Indices: 10261486--10261517 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
10261476 TTCTTTTTAG
10261486 ATAATTAAGTTTATAT
1 ATAATTAAGTTTATAT
10261502 ATAA-TAAGTTTATAT
1 ATAATTAAGTTTATAT
10261517 A
1 A
10261518 AACAAAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAATTAAGTTTATAT
Found at i:10261772 original size:19 final size:21
Alignment explanation
Indices: 10261745--10261791 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
10261735 AAGAGACAAG
*
10261745 ATAAAATTTTTA-GAAT-AAA
1 ATAATATTTTTATGAATAAAA
*
10261764 ATAATA-TTTTATTAATAAAA
1 ATAATATTTTTATGAATAAAA
10261784 ATAATATT
1 ATAATATT
10261792 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.22
19 8 0.35
20 9 0.39
21 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
ATAATATTTTTATGAATAAAA
Found at i:10264417 original size:13 final size:13
Alignment explanation
Indices: 10264392--10264428 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10264382 ATCAGTTAAT
10264392 TAAAAAA-AT-AA
1 TAAAAAATATAAA
10264403 TAAAAAATATAAA
1 TAAAAAATATAAA
10264416 TAAAAAATA-AAA
1 TAAAAAATATAAA
10264428 T
1 T
10264429 TACCATCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 7 0.29
12 6 0.25
13 11 0.46
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAAAATATAAA
Found at i:10275168 original size:28 final size:29
Alignment explanation
Indices: 10275127--10275186 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
10275117 GTCTATGGGC
*
10275127 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
10275155 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
10275185 AA
1 AA
10275187 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:10285758 original size:60 final size:60
Alignment explanation
Indices: 10285694--10285900 Score: 179
Period size: 60 Copynumber: 3.5 Consensus size: 60
10285684 GAAATATAGG
* *
10285694 GGAGGTTTTACCTTAGCCTTGAAAAGGTAGAGAGGTTATATCTTTACCTTTAAAACATAT
1 GGAGGTTATACCTTAGCCTTGAAAAGGTAGAGAGGTTATATCTTTACCTTTAAAAGATAT
** * * * ** * *
10285754 GGAGGTTATATTTTAGGCTTGAAGAGGTAGAAAAATTCTATC-TTAACTTATAAAAGAT-T
1 GGAGGTTATACCTTAGCCTTGAAAAGGTAGAGAGGTTATATCTTTACCTT-TAAAAGATAT
* * * * ** * *
10285813 GGAAGGTTCTATCTTAACTTTGAAAAAATAGAGAGGTTATATCTTAACTTTTAAAAGATA-
1 GG-AGGTTATACCTTAGCCTTGAAAAGGTAGAGAGGTTATATCTTTACCTTTAAAAGATAT
* *
10285873 -GAAGTTATACCTTAGCCTTAAAAAGGTA
1 GGAGGTTATACCTTAGCCTTGAAAAGGTA
10285901 TTTGTATTGA
Statistics
Matches: 109, Mismatches: 34, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
58 19 0.17
59 10 0.09
60 76 0.70
61 4 0.04
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (60 bp):
GGAGGTTATACCTTAGCCTTGAAAAGGTAGAGAGGTTATATCTTTACCTTTAAAAGATAT
Found at i:10285874 original size:30 final size:30
Alignment explanation
Indices: 10285715--10285886 Score: 111
Period size: 30 Copynumber: 5.8 Consensus size: 30
10285705 CTTAGCCTTG
* * *
10285715 AAAAGGTAGAGAGGTTATATCTTTACCTTT
1 AAAAGATAGAGAGGTTATATCTTAACTTTT
* * * *
10285745 AAAACATATG-GAGGTTATATTTTAGGC-TTG
1 AAAAGATA-GAGAGGTTATATCTTA-ACTTTT
* * * ** * *
10285775 AAGAGGTAGAAAAATTCTATCTTAACTTAT
1 AAAAGATAGAGAGGTTATATCTTAACTTTT
* * *
10285805 AAAAGATTG-GAAGGTTCTATCTTAACTTTG
1 AAAAGATAGAG-AGGTTATATCTTAACTTTT
*
10285835 AAAAAATAGAGAGGTTATATCTTAACTTTT
1 AAAAGATAGAGAGGTTATATCTTAACTTTT
*
10285865 AAAAGATAGA-A-GTTATACCTTA
1 AAAAGATAGAGAGGTTATATCTTA
10285887 GCCTTAAAAA
Statistics
Matches: 105, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
28 10 0.10
29 3 0.03
30 89 0.85
31 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (30 bp):
AAAAGATAGAGAGGTTATATCTTAACTTTT
Found at i:10286343 original size:23 final size:24
Alignment explanation
Indices: 10286301--10286346 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
10286291 AAAGTGGGAA
*
10286301 TCCTAATCTCAGTTTGAATCAAAT
1 TCCTAATCTCAGTTTAAATCAAAT
10286325 TCCTAATCT-AGTTTAAATCAAA
1 TCCTAATCTCAGTTTAAATCAAA
10286347 CTCTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.37
Consensus pattern (24 bp):
TCCTAATCTCAGTTTAAATCAAAT
Found at i:10290793 original size:30 final size:29
Alignment explanation
Indices: 10290755--10290817 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
10290745 AAAGGTAGAG
*
10290755 AAAATATGGAGGGTATTTCTTAACCTTGA
1 AAAATATGGAGGGTATATCTTAACCTTGA
* **
10290784 AAAATTATGGAGGTTATATCTTAGTCTTGA
1 AAAA-TATGGAGGGTATATCTTAACCTTGA
10290814 AAAA
1 AAAA
10290818 GTAGAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (29 bp):
AAAATATGGAGGGTATATCTTAACCTTGA
Found at i:10291417 original size:24 final size:24
Alignment explanation
Indices: 10291390--10291439 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
10291380 TAAGGATCTT
* * * *
10291390 AATCTCAGTTTGAATCTAATTCAA
1 AATCCCAGTTTAAATCAAACTCAA
10291414 AATCCCAGTTTAAATCAAACTCAA
1 AATCCCAGTTTAAATCAAACTCAA
10291438 AA
1 AA
10291440 AAGCAAGCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (24 bp):
AATCCCAGTTTAAATCAAACTCAA
Found at i:10293707 original size:20 final size:20
Alignment explanation
Indices: 10293684--10293723 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10293674 ATAGGTGGAG
*
10293684 AATTTGAAATATGTTTTGTT
1 AATTTGAAATATATTTTGTT
10293704 AATTTGAAATATATTTTGTT
1 AATTTGAAATATATTTTGTT
10293724 TTATATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (20 bp):
AATTTGAAATATATTTTGTT
Found at i:10294341 original size:12 final size:11
Alignment explanation
Indices: 10294305--10294347 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
10294295 CATTCAAGTA
10294305 TTATTTCTTCTT
1 TTATTT-TTCTT
*
10294317 TTTTTTTTCTT
1 TTATTTTTCTT
*
10294328 TTGTTTTTCATT
1 TTATTTTTC-TT
10294340 TTATTTTT
1 TTATTTTT
10294348 TATATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 13 0.48
12 14 0.52
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.81
Consensus pattern (11 bp):
TTATTTTTCTT
Found at i:10303894 original size:48 final size:48
Alignment explanation
Indices: 10303837--10303933 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
10303827 GCTGTGTGAC
10303837 AAGGCTGTGTAATACAGAGCACAGACTTTGCTATTGCTGGATTTAATT
1 AAGGCTGTGTAATACAGAGCACAGACTTTGCTATTGCTGGATTTAATT
*
10303885 AAGGCTGTGTAATACAGAGCACAGGCTTTGCTATTGCTGGATTTAATT
1 AAGGCTGTGTAATACAGAGCACAGACTTTGCTATTGCTGGATTTAATT
10303933 A
1 A
10303934 TCTGGTTGTC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (48 bp):
AAGGCTGTGTAATACAGAGCACAGACTTTGCTATTGCTGGATTTAATT
Found at i:10306716 original size:63 final size:63
Alignment explanation
Indices: 10306600--10306750 Score: 189
Period size: 63 Copynumber: 2.3 Consensus size: 63
10306590 TGCTTTCGCG
* * * * * *
10306600 ATTTTATTTTTTGAAAA-AAGATATCTCATAGAAAATATTGTTTGTTTTGAAACTTATTTTTATA
1 ATTTTATTTTTT-AAAATAA-AAATCTCATAGAAAATATTATTTATTTTAAAACTTATTTTCACA
10306664 ATTTTATTTTTTAAAATAAAAATCTCATA-ATAAATATTATTTATTTTAAAACTTATTTTCACA
1 ATTTTATTTTTTAAAATAAAAATCTCATAGA-AAATATTATTTATTTTAAAACTTATTTTCACA
10306727 ATTTTATATTTTTACAAATAAAAA
1 ATTTTAT-TTTTTA-AAATAAAAA
10306751 GACATCTTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
62 1 0.01
63 47 0.61
64 20 0.26
65 9 0.12
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (63 bp):
ATTTTATTTTTTAAAATAAAAATCTCATAGAAAATATTATTTATTTTAAAACTTATTTTCACA
Found at i:10307455 original size:25 final size:26
Alignment explanation
Indices: 10307402--10307466 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
10307392 TGTCATATAC
10307402 AAAAATTTATTACACATCATGGTTAA
1 AAAAATTTATTACACATCATGGTTAA
* ** *
10307428 AAAAATTTGTTACAGGTCATGTTTAA
1 AAAAATTTATTACACATCATGGTTAA
10307454 AAAAATATTATTA
1 AAAAAT-TTATTA
10307467 TTACGTGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 28 0.85
27 5 0.15
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (26 bp):
AAAAATTTATTACACATCATGGTTAA
Found at i:10307510 original size:80 final size:78
Alignment explanation
Indices: 10307356--10307573 Score: 194
Period size: 80 Copynumber: 2.8 Consensus size: 78
10307346 TTGTTTATAA
* * *
10307356 TGTTACACGTTATGTTGAAAAAATATTATTATTACATGTCATATACAAAAATTTATTACACATCA
1 TGTTACACGTCATGTTAAAAAAATATTATTATTACATGTCATATACAAAAATTTATTACACATAA
*
10307421 TGGTTAAAAAAATT
66 T-GTAAAAAAAATT
* * * **
10307435 TGTTACAGGTCATGTTTAAAAAAATATTATTATTACGTGTCATGTACAAAACATGTTA-TATGTC
1 TGTTACACGTCATG-TTAAAAAAATATTATTATTACATGTCATATACAAAA-AT-TTATTA-CAC
*
10307499 ATAAT-TAAAAAAAGTT
62 ATAATGTAAAAAAAATT
* * *** *
10307515 AT-TATACAC-T-ATATTAAAAAATTATTATTATTACACACCATATACAAAAATATATTACA
1 -TGT-TACACGTCATGTTAAAAAAATATTATTATTACATGTCATATACAAAAATTTATTACA
10307574 AGTCATGCTG
Statistics
Matches: 111, Mismatches: 21, Indels: 17
0.74 0.14 0.11
Matches are distributed among these distances:
76 2 0.02
77 4 0.04
78 30 0.27
79 14 0.13
80 44 0.40
81 9 0.08
82 8 0.07
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (78 bp):
TGTTACACGTCATGTTAAAAAAATATTATTATTACATGTCATATACAAAAATTTATTACACATAA
TGTAAAAAAAATT
Found at i:10307557 original size:29 final size:30
Alignment explanation
Indices: 10307513--10307571 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
10307503 TTAAAAAAAG
* *
10307513 TTATTATACACTATATTA-AAAAAT-TATTA
1 TTATTACACACCATA-TACAAAAATATATTA
10307542 TTATTACACACCATATACAAAAATATATTA
1 TTATTACACACCATATACAAAAATATATTA
10307572 CAAGTCATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.08
29 19 0.73
30 5 0.19
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (30 bp):
TTATTACACACCATATACAAAAATATATTA
Found at i:10307654 original size:28 final size:27
Alignment explanation
Indices: 10307585--10307656 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
10307575 GTCATGCTGA
*
10307585 AAAAAATAATGTTATTACACGTTATGTTT
1 AAAAAAT--TGTTGTTACACGTTATGTTT
* *
10307614 AAAAAATTTTTGTTACACTTTAATGTTT
1 AAAAAATTGTTGTTACACGTT-ATGTTT
**
10307642 AAAATGTTGTTGTTA
1 AAAAAATTGTTGTTA
10307657 TTTGCGAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 11 0.31
28 18 0.50
29 7 0.19
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.46
Consensus pattern (27 bp):
AAAAAATTGTTGTTACACGTTATGTTT
Found at i:10315935 original size:36 final size:36
Alignment explanation
Indices: 10315895--10316007 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
10315885 CCTTATCTAT
* *
10315895 TTTAAAAAGAAAATTAGTTAGTTTTGTCTTAACACG
1 TTTAAAAAGAAAAGTAGTTAGTTTTATCTTAACACG
* * ** *
10315931 TTT-AAAAGAAAAGTAGTCAG-TTAATCTTGTCATG
1 TTTAAAAAGAAAAGTAGTTAGTTTTATCTTAACACG
* * *
10315965 TTTTAAAAAGAAAAGTAATTAGTTTTATCTCAATACG
1 -TTTAAAAAGAAAAGTAGTTAGTTTTATCTTAACACG
10316002 TTTAAA
1 TTTAAA
10316008 TATAAATAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
34 9 0.15
35 18 0.31
36 24 0.41
37 8 0.14
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (36 bp):
TTTAAAAAGAAAAGTAGTTAGTTTTATCTTAACACG
Found at i:10321416 original size:37 final size:36
Alignment explanation
Indices: 10321335--10321493 Score: 130
Period size: 37 Copynumber: 4.4 Consensus size: 36
10321325 ATTACGTTAT
* *
10321335 CACGTTTAAAAGAAAATTAGTCAGTTTTACCTTATTG
1 CACGTTTAAAAGAAAATTAGTCAGTTTTATCTT-TAG
* *
10321372 TA-TTTTAAAAAGAAAATTAGTCAGTTTTATCTTTAG
1 CACGTTT-AAAAGAAAATTAGTCAGTTTTATCTTTAG
** * * *
10321408 CACGTTT-AAAGAAAAACAGTCA-ATTAAT-TTTAT
1 CACGTTTAAAAGAAAATTAGTCAGTTTTATCTTTAG
* * * *
10321441 CACGTTTTAAAAAGAAAAGTAATCAGTTTTATC-TCAA
1 CACG-TTT-AAAAGAAAATTAGTCAGTTTTATCTTTAG
10321478 CACGTTTAAAAGAAAA
1 CACGTTTAAAAGAAAA
10321494 GCAATAAAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
33 8 0.08
34 7 0.07
35 22 0.23
36 21 0.22
37 39 0.40
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.35
Consensus pattern (36 bp):
CACGTTTAAAAGAAAATTAGTCAGTTTTATCTTTAG
Found at i:10323010 original size:20 final size:20
Alignment explanation
Indices: 10322985--10323023 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10322975 GAGCACCAGA
10322985 TCAACGTTCCCTTAGGAGCC
1 TCAACGTTCCCTTAGGAGCC
10323005 TCAACGTTCCCTTAGGAGC
1 TCAACGTTCCCTTAGGAGC
10323024 AACATGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (20 bp):
TCAACGTTCCCTTAGGAGCC
Found at i:10323628 original size:29 final size:30
Alignment explanation
Indices: 10323523--10323629 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 30
10323513 ATCATTAGTA
*
10323523 ATAAGGGTTTATTTG-ACTTAA-AATAAAAAGT
1 ATAAGAGTTTATTTGAAC--AACAAT-AAAAGT
*
10323554 ATAA-AGATTTATTTG-ACTAACAATAAAAGA
1 ATAAGAG-TTTATTTGAAC-AACAATAAAAGT
* * * *
10323584 ATAAGGGCTTAATTGAAC-GCAATAAAAGT
1 ATAAGAGTTTATTTGAACAACAATAAAAGT
10323613 ATAAGAGTTTATTTGAA
1 ATAAGAGTTTATTTGAA
10323630 TTTTCTTAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
29 23 0.37
30 19 0.31
31 20 0.32
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.32
Consensus pattern (30 bp):
ATAAGAGTTTATTTGAACAACAATAAAAGT
Found at i:10331503 original size:32 final size:33
Alignment explanation
Indices: 10331466--10331534 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
10331456 CAACGACAAT
* * *
10331466 ATCAGCAACATTT-CAAATAGTTAACCCTTATC
1 ATCAGCAACATTTCCAAATAATTAACCCCTACC
10331498 ATCAGCAACATTTCCAAATAATTAACCCCTACC
1 ATCAGCAACATTTCCAAATAATTAACCCCTACC
10331531 ATCA
1 ATCA
10331535 ATTTGGATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.28
Consensus pattern (33 bp):
ATCAGCAACATTTCCAAATAATTAACCCCTACC
Found at i:10336997 original size:2 final size:2
Alignment explanation
Indices: 10336990--10337026 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10336980 TTTCTATAAC
10336990 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
10337027 NNNNNNNNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10339526 original size:53 final size:53
Alignment explanation
Indices: 10339448--10339603 Score: 156
Period size: 51 Copynumber: 3.0 Consensus size: 53
10339438 TTACGGTATT
* *
10339448 CATCCACTTCTGGTGGTAAAAATTATCCATCTACTTTTGGTGGTAAAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATCCATCCACTTCTGGTGGT-AAAATTATC
* * *
10339502 CATCTACTTTTGGTGG-CAAAATTATCCATCCACTTCTGGTGGTAAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATCCATCCACTTCTGGTGGTAAAATTATC
* ** ** * ** *
10339554 CTTAGA-TTCTAATAGT-AAAATTATCCATTTACTTCTGATGGTAAAATTAT
1 CATCCACTTCTGGTGGTAAAAATTATCCATCCACTTCTGGTGGTAAAATTAT
10339604 TCTTAGATTC
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
51 36 0.42
52 12 0.14
53 24 0.28
54 14 0.16
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (53 bp):
CATCCACTTCTGGTGGTAAAAATTATCCATCCACTTCTGGTGGTAAAATTATC
Done.