Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 204 of 228
Found at i:59773069 original size:38 final size:36
Alignment explanation
Indices: 59772949--59773074 Score: 137
Period size: 38 Copynumber: 3.2 Consensus size: 36
59772939 ATACATAATA
*
59772949 ACATAATACATAACTTATATATAAGCTTGTATAACTT
1 ACATAATACATAACTTATATATAATCTTG-ATAACTT
59772986 ACATAATAACTTTCATAACTTATATATAATC-TGATAATACATT
1 ACATAAT-A----CATAACTTATATATAATCTTGAT-A-AC-TT
59773029 ACATAATACATAACTTATATTATAATCTTGCATAACTT
1 ACATAATACATAACTTATA-TATAATCTTG-ATAACTT
59773067 ACATAATA
1 ACATAATA
59773075 ACTTCCATAA
Statistics
Matches: 77, Mismatches: 1, Indels: 21
0.78 0.01 0.21
Matches are distributed among these distances:
37 7 0.09
38 22 0.29
39 9 0.12
40 5 0.06
41 5 0.06
42 20 0.26
43 9 0.12
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.38
Consensus pattern (36 bp):
ACATAATACATAACTTATATATAATCTTGATAACTT
Found at i:59773189 original size:9 final size:9
Alignment explanation
Indices: 59773175--59773701 Score: 345
Period size: 9 Copynumber: 59.4 Consensus size: 9
59773165 CATACATTAA
59773175 ATAACTTAC
1 ATAACTTAC
59773184 ATAACTTAC
1 ATAACTTAC
* *
59773193 ATAAATTAA
1 ATAACTTAC
59773202 ATAACTTAC
1 ATAACTTAC
*
59773211 ATAACCTAC
1 ATAACTTAC
* *
59773220 ATAAATTAA
1 ATAACTTAC
59773229 ATAACTTAC
1 ATAACTTAC
* *
59773238 ATAAATTAA
1 ATAACTTAC
59773247 ATAACTTAC
1 ATAACTTAC
59773256 ATAACTTAC
1 ATAACTTAC
* *
59773265 ATAAATTCC
1 ATAACTTAC
* *
59773274 GTGGACTTAC
1 AT-AACTTAC
*
59773284 ATAACCTAC
1 ATAACTTAC
* * *
59773293 ACAAATTAA
1 ATAACTTAC
59773302 ATAACTTAC
1 ATAACTTAC
59773311 ATAACTTAC
1 ATAACTTAC
59773320 ATAACTTAC
1 ATAACTTAC
* *
59773329 ATAA-ATAGTT
1 ATAACTTA--C
* *
59773339 ATAAATTAG
1 ATAACTTAC
59773348 ATAACTTAC
1 ATAACTTAC
59773357 ATAACTTAC
1 ATAACTTAC
*
59773366 AT-ACATTAA
1 ATAAC-TTAC
* *
59773375 ATTACTTAT
1 ATAACTTAC
59773384 ATAACTTAC
1 ATAACTTAC
*
59773393 ATTA--TAC
1 ATAACTTAC
59773400 ATAACTTAC
1 ATAACTTAC
* *
59773409 ATAAATTAA
1 ATAACTTAC
59773418 ATAACTTAC
1 ATAACTTAC
59773427 ATAACTTAC
1 ATAACTTAC
* *
59773436 ATAAATTCC
1 ATAACTTAC
* **
59773445 GTGGGCTTAC
1 AT-AACTTAC
*
59773455 ATAACCTAC
1 ATAACTTAC
* * *
59773464 ACAAATTAA
1 ATAACTTAC
59773473 ATAACTTAC
1 ATAACTTAC
59773482 ATAACTTAC
1 ATAACTTAC
59773491 ATAACTTAC
1 ATAACTTAC
* *
59773500 ATAA-ATAGTT
1 ATAACTTA--C
* *
59773510 ATAAATTAA
1 ATAACTTAC
59773519 ATAACTTAC
1 ATAACTTAC
59773528 ATAACTTAC
1 ATAACTTAC
*
59773537 AT-ACATTAA
1 ATAAC-TTAC
*
59773546 ATTACTTAC
1 ATAACTTAC
59773555 ATAACTTAC
1 ATAACTTAC
*
59773564 ATAA-ATA-
1 ATAACTTAC
*
59773571 GTAACCTT-C
1 ATAA-CTTAC
*
59773580 TTAACTTAC
1 ATAACTTAC
*
59773589 ATTA--TAC
1 ATAACTTAC
** *
59773596 ACGACTCAC
1 ATAACTTAC
59773605 ATAA-TTA-
1 ATAACTTAC
*
59773612 AT-ATTATAC
1 ATAACT-TAC
*
59773621 ACAACTTAC
1 ATAACTTAC
*
59773630 ATAA-TAAC
1 ATAACTTAC
**
59773638 -TTTCTTAC
1 ATAACTTAC
59773646 ATAACTTAC
1 ATAACTTAC
*
59773655 ATTACTTAC
1 ATAACTTAC
59773664 AGT-ACTTAC
1 A-TAACTTAC
59773673 ATAA--TAC
1 ATAACTTAC
59773680 ATAACTTAC
1 ATAACTTAC
59773689 ATAACTTAC
1 ATAACTTAC
59773698 ATAA
1 ATAA
59773702 TACATAAAAA
Statistics
Matches: 393, Mismatches: 95, Indels: 60
0.72 0.17 0.11
Matches are distributed among these distances:
6 1 0.00
7 25 0.06
8 24 0.06
9 315 0.80
10 24 0.06
11 4 0.01
ACGTcount: A:0.46, C:0.18, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:59773402 original size:43 final size:43
Alignment explanation
Indices: 59773354--59773437 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
59773344 TTAGATAACT
* * *
59773354 TACATAACTTACATACATTAAATTACTTATATAACTTACATTA
1 TACATAACTTACATAAATTAAATAACTTACATAACTTACATTA
59773397 TACATAACTTACATAAATTAAATAACTTACATAACTTACAT
1 TACATAACTTACATAAATTAAATAACTTACATAACTTACAT
59773438 AAATTCCGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (43 bp):
TACATAACTTACATAAATTAAATAACTTACATAACTTACATTA
Found at i:59773427 original size:171 final size:173
Alignment explanation
Indices: 59773170--59773569 Score: 714
Period size: 171 Copynumber: 2.3 Consensus size: 173
59773160 ACTGACATAC
* * *
59773170 ATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACCTACATAAATTAAATAACT
1 ATTAAATAACTTACATAACTTACATACATTAAATTACTTACATAACTTACATAAATTAAATAACT
59773235 TACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGACTTACATAACCTACACAAATT
66 TACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGACTTACATAACCTACACAAATT
59773300 AAATAACTTACATAACTTACATAACTTACATAAATAGTTATAA
131 AAATAACTTACATAACTTACATAACTTACATAAATAGTTATAA
* * * *
59773343 ATTAGATAACTTACATAACTTACATACATTAAATTACTTATATAACTTACAT-TA-TACATAACT
1 ATTAAATAACTTACATAACTTACATACATTAAATTACTTACATAACTTACATAAATTAAATAACT
*
59773406 TACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGGCTTACATAACCTACACAAATT
66 TACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGACTTACATAACCTACACAAATT
59773471 AAATAACTTACATAACTTACATAACTTACATAAATAGTTATAA
131 AAATAACTTACATAACTTACATAACTTACATAAATAGTTATAA
59773514 ATTAAATAACTTACATAACTTACATACATTAAATTACTTACATAACTTACATAAAT
1 ATTAAATAACTTACATAACTTACATACATTAAATTACTTACATAACTTACATAAAT
59773570 AGTAACCTTC
Statistics
Matches: 214, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
171 165 0.77
172 2 0.01
173 47 0.22
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (173 bp):
ATTAAATAACTTACATAACTTACATACATTAAATTACTTACATAACTTACATAAATTAAATAACT
TACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGACTTACATAACCTACACAAATT
AAATAACTTACATAACTTACATAACTTACATAAATAGTTATAA
Found at i:59773708 original size:16 final size:16
Alignment explanation
Indices: 59773643--59773692 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
59773633 ATAACTTTCT
*
59773643 TACATAACTTACATTACT
1 TACATAACTTACA-TA-A
59773661 TACAGT-ACTTACATAA
1 TACA-TAACTTACATAA
59773677 TACATAACTTACATAA
1 TACATAACTTACATAA
59773693 CTTACATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 1 0.03
16 14 0.48
17 2 0.07
18 11 0.38
19 1 0.03
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:59779648 original size:41 final size:43
Alignment explanation
Indices: 59779602--59779804 Score: 333
Period size: 42 Copynumber: 4.8 Consensus size: 43
59779592 GCATTTTTGT
* *
59779602 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGGCGCTT-AG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
59779644 AAAAAAA-GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
59779686 -AAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
* * *
59779728 AAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTT-AG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
59779770 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
59779805 TGTTTTTTCT
Statistics
Matches: 150, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
41 36 0.24
42 78 0.52
43 36 0.24
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
Found at i:59779765 original size:85 final size:83
Alignment explanation
Indices: 59779602--59779804 Score: 327
Period size: 85 Copynumber: 2.4 Consensus size: 83
59779592 GCATTTTTGT
* * * *
59779602 AAAAAAACGCTGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAAGCCGCTAAAGACCATG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAGCCACTAAAGAACATG
*
59779667 TTCTTTAGCGGCGCTTA-
66 TTCTTTAGAGGCGCTTAG
59779684 AGAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAAC
1 A-AAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT-AGAAAAAAA-GCCACTAAAGAAC
59779749 ATGTTCTTTAGAGGCGCTTAG
63 ATGTTCTTTAGAGGCGCTTAG
59779770 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
59779805 TGTTTTTTCT
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
82 1 0.01
83 37 0.33
84 9 0.08
85 64 0.57
86 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (83 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAGCCACTAAAGAACATG
TTCTTTAGAGGCGCTTAG
Found at i:59781109 original size:43 final size:43
Alignment explanation
Indices: 59781061--59781462 Score: 267
Period size: 43 Copynumber: 9.3 Consensus size: 43
59781051 TTTTTTCTCA
* *
59781061 AAACGCCGCTAAAGACCCTAATCTATAGCGGCGCTTCTAGCAC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
* * ****
59781104 AAACGCCGCTGAAGA--CTAAGACCTTTAGCGGCGCTT-TAGTGG
1 AAACGCCGCTAAAGACCCT-A-ATCTTTAGCGGCGCTTCTACCAC
* * * * * * *
59781146 AAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTGTGCTAG
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
* * * * **** * * ** *
59781189 AAGCGCCTCTATAGATCAGGGTCTTTAGCGGCGTTTTTTTCTC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
* * * *
59781232 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCAGA
1 AAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTCTACCA-C
* * * *
59781276 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTCGACCAGA
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCA-C
* * * *
59781320 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTT-TCCCCC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
* * * * *
59781362 AAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC
1 -AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
* *
59781406 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTT-TGACCAA
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCT-ACCAC
*
59781449 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
59781463 GCCAACACCT
Statistics
Matches: 286, Mismatches: 62, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 33 0.12
43 170 0.59
44 79 0.28
45 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTCTACCAC
Found at i:59781432 original size:86 final size:86
Alignment explanation
Indices: 59781052--59781487 Score: 294
Period size: 86 Copynumber: 5.1 Consensus size: 86
59781042 TTGCGGCATT
* *** * *
59781052 TTTTTCTCA-AAACGCCGCTAAAGACCCTAATCTATAGCGGCGC-TTCTAGCACAAACGCCGCTG
1 TTTTTC-CACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCCA-AAACGCCACTA
* *
59781115 AAGACTAAGACCTTTAGCGGCGC
64 AAGACCAAGATCTTTAGCGGCGC
* ** * * *** * * *
59781138 TTTAGT--GGAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCG-TTTGTGCTAGAAGCGCCTCTA
1 TTT-TTCCACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCCA-AAACGCCACTA
* * * * *
59781200 TAGATCAGGGTCTTTAGCGGCGT
64 AAGACCAAGATCTTTAGCGGCGC
* * * * **
59781223 TTTTTTCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGC-TTCGACCAGAAAACGCCACT
1 TTTTTCCACAAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTC--CCCCAAAACGCCACT
*
59781286 AAAGAACCTA-ATCTTTAGCGGCGC
63 AAAG-ACCAAGATCTTTAGCGGCGC
*** * * * *
59781310 TTCGACCAGAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCCAAAACGCCGCTAA
1 TTTTTCCA-CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCCAAAACGCCACTAA
* *
59781375 AGACCATGATCTTTAGTGGCGC
65 AGACCAAGATCTTTAGCGGCGC
* ** *
59781397 TTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 TTTTTCCACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCCAAAACGCCACTAAA
* * * * *
59781462 GGCCAACACCTTTAGTGGCGT
66 GACCAAGATCTTTAGCGGCGC
59781483 TTTTT
1 TTTTT
59781488 TAAAAACGCC
Statistics
Matches: 266, Mismatches: 70, Indels: 28
0.73 0.19 0.08
Matches are distributed among these distances:
84 1 0.00
85 63 0.24
86 106 0.40
87 61 0.23
88 30 0.11
89 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (86 bp):
TTTTTCCACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTCCCCCAAAACGCCACTAAA
GACCAAGATCTTTAGCGGCGC
Found at i:59781475 original size:43 final size:42
Alignment explanation
Indices: 59781252--59781503 Score: 218
Period size: 43 Copynumber: 5.9 Consensus size: 42
59781242 ATAGACCCTG
* * *
59781252 ATCTATAGCGGCGCTTCGACCAGAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
* *
59781296 ATCTTTAGCGGCGCTTCGACCAGAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** * * *
59781340 ATCTTTAGCGGCGCTTTCCCCCAAAACGCCGCTAAAGACCATG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * **
59781383 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
*
59781426 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * ****
59781468 CACCTTTAGTGGCG-TTTTTTTAAAAACGCCACTAAA
1 -ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
59781504 TTTGGCAGAT
Statistics
Matches: 176, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
42 23 0.13
43 90 0.51
44 63 0.36
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:59781899 original size:21 final size:21
Alignment explanation
Indices: 59781804--59781896 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
59781794 TTTGACGCTG
59781804 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
59781825 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
59781846 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
59781867 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
59781888 CTCTGCTTC
1 CTCTGCTTC
59781897 TCTTACTGCC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:59781905 original size:21 final size:21
Alignment explanation
Indices: 59781844--59781916 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
59781834 CCTCGCTTTA
* ** *
59781844 GCCTCTGCTTCCCTCGCTGCA
1 GCCTCTGCTTCTCTTACTGCC
* *
59781865 GCCTGTACTTCTC-TAGCTGCC
1 GCCTCTGCTTCTCTTA-CTGCC
59781886 GCCTCTGCTTCTCTTACTGCC
1 GCCTCTGCTTCTCTTACTGCC
**
59781907 GTATCTGCTT
1 GCCTCTGCTT
59781917 TAAGCTACTG
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 38 0.95
22 2 0.05
ACGTcount: A:0.07, C:0.40, G:0.18, T:0.36
Consensus pattern (21 bp):
GCCTCTGCTTCTCTTACTGCC
Found at i:59781999 original size:66 final size:66
Alignment explanation
Indices: 59781926--59782049 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
59781916 TTAAGCTACT
*
59781926 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAACTTCTCTCGCTGCTGCATCTGCTTTCAATTG
1 GCTGGAGTTCTTCATATCTTT-GTTGAACCTCAACTTCTCTCGATGCTGCATCTGCTTTCAATTG
59781990 TA
65 TA
* * * *
59781992 GCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTTGCCTCTGCTTT
1 GCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCGATGCTGCATCTGCTTT
59782050 AAGTTGTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 48 0.92
67 4 0.08
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCGATGCTGCATCTGCTTTCAATTGT
A
Found at i:59787409 original size:9 final size:9
Alignment explanation
Indices: 59787395--59787602 Score: 137
Period size: 9 Copynumber: 24.8 Consensus size: 9
59787385 AATTGCACGG
59787395 GTAAGTTAT
1 GTAAGTTAT
59787404 GTAAGTTAT
1 GTAAGTTAT
*
59787413 GTAAGTTGT
1 GTAAGTTAT
59787422 GT-A-TTAT
1 GTAAGTTAT
59787429 GTAAGTTAT
1 GTAAGTTAT
59787438 -T-A-TTAT
1 GTAAGTTAT
59787444 GTAAGTTAT
1 GTAAGTTAT
*
59787453 GTAAGTAAT
1 GTAAGTTAT
59787462 GT-A-TTAT
1 GTAAGTTAT
*
59787469 GTAAGTTGT
1 GTAAGTTAT
*
59787478 GT-A-TAAT
1 GTAAGTTAT
*
59787485 GTTAGTTAT
1 GTAAGTTAT
**
59787494 CAAAGTTA-
1 GTAAGTTAT
*
59787502 --CAG-TAT
1 GTAAGTTAT
59787508 GTAAGTTAT
1 GTAAGTTAT
*
59787517 TTAAGTTAT
1 GTAAGTTAT
*
59787526 GTAAGTTGT
1 GTAAGTTAT
59787535 GT-A-TTAT
1 GTAAGTTAT
59787542 GTAAGTTAT
1 GTAAGTTAT
*
59787551 GTAGGTTAT
1 GTAAGTTAT
*
59787560 GT-A-TAAT
1 GTAAGTTAT
59787567 GTAAGTTAT
1 GTAAGTTAT
*
59787576 -TATGTTATTAT
1 GTAAG---TTAT
59787587 GTAAGTTAT
1 GTAAGTTAT
*
59787596 GCAAGTT
1 GTAAGTT
59787603 TATATATAAG
Statistics
Matches: 154, Mismatches: 24, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
5 2 0.01
6 6 0.04
7 26 0.17
8 16 0.10
9 97 0.63
11 4 0.03
12 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:59787430 original size:16 final size:16
Alignment explanation
Indices: 59787395--59787553 Score: 100
Period size: 16 Copynumber: 9.8 Consensus size: 16
59787385 AATTGCACGG
59787395 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
*
59787413 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
59787429 GTAAGTTAT-TATTAT
1 GTAAGTTATGTATTAT
59787444 GTAAGTTATGTA--A-
1 GTAAGTTATGTATTAT
59787457 GT-A---ATGTATTAT
1 GTAAGTTATGTATTAT
* *
59787469 GTAAGTTGTGTATAAT
1 GTAAGTTATGTATTAT
* *
59787485 GTTAGTTATCAAAGTTACAGTAT
1 GTAAGTTAT----G-T--ATTAT
*
59787508 GTAAGTTATTTAAGTTAT
1 GTAAGTTATGT-A-TTAT
*
59787526 GTAAGTTGTGTATTAT
1 GTAAGTTATGTATTAT
59787542 GTAAGTTATGTA
1 GTAAGTTATGTA
59787554 GGTTATGTAT
Statistics
Matches: 110, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
9 5 0.05
11 1 0.01
12 3 0.03
13 3 0.03
14 1 0.01
15 15 0.14
16 43 0.39
17 3 0.03
18 23 0.21
20 1 0.01
21 1 0.01
23 11 0.10
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:59787493 original size:25 final size:25
Alignment explanation
Indices: 59787395--59787575 Score: 135
Period size: 25 Copynumber: 7.4 Consensus size: 25
59787385 AATTGCACGG
* *
59787395 GTAAGTTATGTAAGTTATGTAAGTTGT
1 GTAAGTTATGTAAGTAATGT-A-TTAT
*
59787422 GT-A-TTATGTAAGTTAT-TATTAT
1 GTAAGTTATGTAAGTAATGTATTAT
59787444 GTAAGTTATGTAAGTAATGTATTAT
1 GTAAGTTATGTAAGTAATGTATTAT
*
59787469 GTAAGTTGTGT-A-TAATGTTAGTTAT
1 GTAAGTTATGTAAGTAATG-TA-TTAT
** * *
59787494 CAAAGTTACAGTATGTAA-G--TTAT
1 GTAAGTTA-TGTAAGTAATGTATTAT
* **
59787517 TTAAGTTATGTAAGTTGTGTATTAT
1 GTAAGTTATGTAAGTAATGTATTAT
* * *
59787542 GTAAGTTATGTAGGTTATGTATAAT
1 GTAAGTTATGTAAGTAATGTATTAT
59787567 GTAAGTTAT
1 GTAAGTTAT
59787576 TATGTTATTA
Statistics
Matches: 125, Mismatches: 18, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
22 10 0.08
23 18 0.14
24 16 0.13
25 72 0.58
26 3 0.02
27 3 0.02
28 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (25 bp):
GTAAGTTATGTAAGTAATGTATTAT
Found at i:59787590 original size:20 final size:21
Alignment explanation
Indices: 59787536--59787596 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
59787526 GTAAGTTGTG
59787536 TATTATGTAAGTTATGTAGGT
1 TATTATGTAAGTTATGTAGGT
*
59787557 TATGTATAATGTAAGTTAT-TATGT
1 TA--T-T-ATGTAAGTTATGTAGGT
59787581 TATTATGTAAGTTATG
1 TATTATGTAAGTTATG
59787597 CAAGTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 11 0.32
21 3 0.09
22 1 0.03
23 1 0.03
24 7 0.21
25 11 0.32
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
TATTATGTAAGTTATGTAGGT
Found at i:59787909 original size:43 final size:43
Alignment explanation
Indices: 59787807--59787895 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
59787797 ATTTATTGAC
*
59787807 AATAAAATTGTAATATAGGTTATATATCCATACCATATATATA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
59787850 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
59787893 AAT
1 AAT
59787896 TTTAAATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (43 bp):
AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
Found at i:59787944 original size:18 final size:18
Alignment explanation
Indices: 59787921--59788091 Score: 105
Period size: 18 Copynumber: 8.5 Consensus size: 18
59787911 ATATATAAAT
59787921 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
59787939 TTTAAGTAATGTAAGTTAAAAATTT
1 TTTAAGTAATGTAA--T----A-TA
59787964 TTGTAAGTAATGTAATA-A
1 TT-TAAGTAATGTAATATA
59787982 TTTTAAGTAATGTAATATA
1 -TTTAAGTAATGTAATATA
*
59788001 TTTCAGTAATATTGTAATATA
1 TTTAAGT-A-A-TGTAATATA
*
59788022 TTTAAGTAATGTAAGTTAAAAATTT
1 TTTAAGTAATGTAA--T----A-TA
59788047 TTGTAAGTAATGTAATA-A
1 TT-TAAGTAATGTAATATA
59788065 TTTTAAGTAA-GTAATATA
1 -TTTAAGTAATGTAATATA
59788083 TTTAAGTAA
1 TTTAAGTAA
59788092 ATTTTAGTAA
Statistics
Matches: 124, Mismatches: 6, Indels: 47
0.70 0.03 0.27
Matches are distributed among these distances:
17 15 0.12
18 47 0.38
19 7 0.06
20 6 0.05
21 15 0.12
24 4 0.03
25 6 0.05
26 24 0.19
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:59787969 original size:22 final size:23
Alignment explanation
Indices: 59787926--59788079 Score: 79
Period size: 21 Copynumber: 7.2 Consensus size: 23
59787916 TAAATTTTAA
*
59787926 GTAATGT-AATATATTTAAGTAAT
1 GTAATGTAAAAAT-TTTAAGTAAT
*
59787949 GTAA-GTTAAAAATTTT-TGTAA-
1 GTAATG-TAAAAATTTTAAGTAAT
*
59787970 GTAATGTAATAATTTTAAGTAAT
1 GTAATGTAAAAATTTTAAGTAAT
* *
59787993 GTAA--T--ATA-TTTCAGTAA-
1 GTAATGTAAAAATTTTAAGTAAT
* *
59788010 -TATTGT-AATATATTTAAGTAAT
1 GTAATGTAAAAAT-TTTAAGTAAT
*
59788032 GTAA-GTTAAAAATTTT-TGTAA-
1 GTAATG-TAAAAATTTTAAGTAAT
*
59788053 GTAATGTAATAATTTTAAGTAA-
1 GTAATGTAAAAATTTTAAGTAAT
59788075 GTAAT
1 GTAAT
59788080 ATATTTAAGT
Statistics
Matches: 101, Mismatches: 14, Indels: 33
0.68 0.09 0.22
Matches are distributed among these distances:
16 2 0.02
18 9 0.09
19 4 0.04
21 35 0.35
22 25 0.25
23 18 0.18
24 8 0.08
ACGTcount: A:0.43, C:0.01, G:0.13, T:0.44
Consensus pattern (23 bp):
GTAATGTAAAAATTTTAAGTAAT
Found at i:59787973 original size:44 final size:44
Alignment explanation
Indices: 59787923--59788135 Score: 207
Period size: 44 Copynumber: 5.0 Consensus size: 44
59787913 ATATAAATTT
59787923 TAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTG
1 TAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTG
* **
59787967 TAAGTAATGTAATA-ATTTTAAGTAATGTAA--T--ATATTTCAG
1 TAAGTAATGTAATATA-TTTAAGTAATGTAAGTTAAAAATTTTTG
*
59788007 TAA-TATTGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTG
1 TAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTG
* *
59788050 TAAGTAATGTAATA-ATTTTAAGTAAGTAATATATTTAAGTAAA--TTT-
1 TAAGTAATGTAATATA-TTTAAGTAA-T-GTA-AGTTAA--AAATTTTTG
* *
59788096 T-AGTAAT-TAATATATTTACGTAATGTAAGTTATAAATTTT
1 TAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATTTT
59788136 AAATATATAT
Statistics
Matches: 139, Mismatches: 14, Indels: 35
0.74 0.07 0.19
Matches are distributed among these distances:
39 26 0.19
40 10 0.07
41 7 0.05
42 3 0.02
43 12 0.09
44 59 0.42
45 8 0.06
46 3 0.02
47 8 0.06
49 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.45
Consensus pattern (44 bp):
TAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTG
Found at i:59788021 original size:83 final size:83
Alignment explanation
Indices: 59787930--59788135 Score: 315
Period size: 83 Copynumber: 2.4 Consensus size: 83
59787920 TTTTAAGTAA
59787930 TGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTGTAAGTAATGTAATAATTTTAAGTAATGT
1 TGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTGTAAGTAATGTAATAATTTTAAGTAA-GT
*
59787995 AATATATTTCAGT-AATAT
65 AATATATTTAAGTAAATAT
59788013 TGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTGTAAGTAATGTAATAATTTTAAGTAAGTA
1 TGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTGTAAGTAATGTAATAATTTTAAGTAAGTA
*
59788078 ATATATTTAAGTAAATTT
66 ATATATTTAAGTAAATAT
* *
59788096 TAGTAATTAATATATTTACGTAATGTAAGTTATAAATTTT
1 T-G----TAATATATTTAAGTAATGTAAGTTAAAAATTTT
59788136 AAATATATAT
Statistics
Matches: 113, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
82 14 0.12
83 67 0.59
84 1 0.01
88 31 0.27
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (83 bp):
TGTAATATATTTAAGTAATGTAAGTTAAAAATTTTTGTAAGTAATGTAATAATTTTAAGTAAGTA
ATATATTTAAGTAAATAT
Found at i:59788080 original size:17 final size:18
Alignment explanation
Indices: 59788050--59788091 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
59788040 AAAATTTTTG
59788050 TAAGTAATGTAATA-ATTT
1 TAAGTAATGTAATATA-TT
59788068 TAAGTAA-GTAATATATT
1 TAAGTAATGTAATATATT
59788085 TAAGTAA
1 TAAGTAA
59788092 ATTTTAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (18 bp):
TAAGTAATGTAATATATT
Found at i:59788106 original size:27 final size:28
Alignment explanation
Indices: 59788063--59788118 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
59788053 GTAATGTAAT
59788063 AATTTTAAGTAAGTAATATATTTAAGTA
1 AATTTTAAGTAAGTAATATATTTAAGTA
* *
59788091 AATTTT-AGTAATTAATATATTTACGTA
1 AATTTTAAGTAAGTAATATATTTAAGTA
59788118 A
1 A
59788119 TGTAAGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (28 bp):
AATTTTAAGTAAGTAATATATTTAAGTA
Found at i:59788183 original size:11 final size:11
Alignment explanation
Indices: 59788152--59788184 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
59788142 ATATATTAAT
59788152 AATTCATTGAC
1 AATTCATTGAC
59788163 -ATTCATTGAC
1 AATTCATTGAC
*
59788173 AATTCACTGAC
1 AATTCATTGAC
59788184 A
1 A
59788185 GTCAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:59789258 original size:12 final size:12
Alignment explanation
Indices: 59789237--59789267 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59789227 AAATATCGCT
*
59789237 AAACAGACTAGA
1 AAACAAACTAGA
59789249 AAACAAACTAGA
1 AAACAAACTAGA
59789261 AAACAAA
1 AAACAAA
59789268 ACCCAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.16, G:0.10, T:0.06
Consensus pattern (12 bp):
AAACAAACTAGA
Found at i:59789761 original size:157 final size:157
Alignment explanation
Indices: 59789475--59789786 Score: 597
Period size: 157 Copynumber: 2.0 Consensus size: 157
59789465 CTTCATTATT
59789475 ATTTTGAGATTCAATTTACCTAGATTTTCCCTTTTGTGTCCTGCACTTAAAAAAGCCACTAACAA
1 ATTTTGAGATTCAATTTACCTAGATTTTCCCTTTTGTGTCCTGCACTTAAAAAAGCCACTAACAA
*
59789540 ACCCATCATTTTGCAACATATGCTAAGAAACAGTTTTCAATAAACATGAAATGATGATATTTTCT
66 ACCCATCATTTTGCAACATATGCTAAGAAACAGTTCTCAATAAACATGAAATGATGATATTTTCT
*
59789605 GCTGCAGATTAGCTAGAGGAATGGTTA
131 GCTGCAGATTAGCTAGACGAATGGTTA
*
59789632 ATTTTGAGATTCAATTTAGCTAGATTTTCCCTTTTGTGTCCTGCACTTAAAAAAGCCACTAACAA
1 ATTTTGAGATTCAATTTACCTAGATTTTCCCTTTTGTGTCCTGCACTTAAAAAAGCCACTAACAA
59789697 ACCCATCATTTTGCAACATATGCTAAGAAACAGTTCTCAATAAACATGAAATGATGATATTTTCT
66 ACCCATCATTTTGCAACATATGCTAAGAAACAGTTCTCAATAAACATGAAATGATGATATTTTCT
59789762 GCTGCAGATTAGCTAGACGAATGGT
131 GCTGCAGATTAGCTAGACGAATGGT
59789787 CAAAGACATT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (157 bp):
ATTTTGAGATTCAATTTACCTAGATTTTCCCTTTTGTGTCCTGCACTTAAAAAAGCCACTAACAA
ACCCATCATTTTGCAACATATGCTAAGAAACAGTTCTCAATAAACATGAAATGATGATATTTTCT
GCTGCAGATTAGCTAGACGAATGGTTA
Found at i:59789858 original size:16 final size:16
Alignment explanation
Indices: 59789839--59789899 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
59789829 AAATTTGAGT
59789839 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
** *
59789855 ATACCAAAATAAGAATT
1 ATACCAAAATAATTA-G
59789872 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
59789888 ATACCAAAATAA
1 ATACCAAAATAA
59789900 GGAAACAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (16 bp):
ATACCAAAATAATTAG
Found at i:59789878 original size:33 final size:33
Alignment explanation
Indices: 59789838--59789900 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
59789828 GAAATTTGAG
59789838 TATACCAAAATAATTAGATACCAAAATAAGAAT
1 TATACCAAAATAATTAGATACCAAAATAAGAAT
59789871 TATACCAAAATAATTAGATACCAAAATAAG
1 TATACCAAAATAATTAGATACCAAAATAAG
59789901 GAAACAGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.24
Consensus pattern (33 bp):
TATACCAAAATAATTAGATACCAAAATAAGAAT
Found at i:59790252 original size:14 final size:14
Alignment explanation
Indices: 59790215--59790253 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
59790205 CTCCTCTGAT
*
59790215 TTTTTTTCTTTGTA
1 TTTTTTTCTTTCTA
**
59790229 TTTTGGTCTTTCTA
1 TTTTTTTCTTTCTA
59790243 TTTTTTTCTTT
1 TTTTTTTCTTT
59790254 TCCTTTCGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTTTTCTTTCTA
Found at i:59792254 original size:42 final size:41
Alignment explanation
Indices: 59792167--59792281 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
59792157 TAAAATGTCC
* * *
59792167 TTAGCGGCACTTTTCCATAAAACGCCGCTAAATACCTCAGCA
1 TTAGCGGCGCTTTTACA-AAAACGCCGCTAAATACCTCAGAA
59792209 TTAGCGGCGCTTTTACAAAAACGCCGCTAAA-AGCC-CATAGAA
1 TTAGCGGCGCTTTTACAAAAACGCCGCTAAATA-CCTC--AGAA
59792251 TTAGCGGCGCTTATTA-AAAAACGCCGCTAAA
1 TTAGCGGCGCTT-TTACAAAAACGCCGCTAAA
59792282 GACCCGAAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
40 2 0.03
41 16 0.24
42 45 0.68
43 3 0.05
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTACAAAAACGCCGCTAAATACCTCAGAA
Found at i:59792361 original size:39 final size:38
Alignment explanation
Indices: 59792316--59792430 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 38
59792306 TTTGCTTTGG
* * *
59792316 CTTTTTTGCGGCGTTTTTATTAAAACCGCCGCTAATGGTT
1 CTTTTTAGCGGCG-TTTTATTAAAA-CGCCGCTAATGCTC
* *
59792356 CTTTTTAGCGGCGTGTTATTTAAAACGCCGTTAATGCTC
1 CTTTTTAGCGGCGTTTTA-TTAAAACGCCGCTAATGCTC
*
59792395 CTATTTTAGCGGCGTTTTCTTAAAAACGCCGCTAAT
1 CT-TTTTAGCGGCGTTTTATT-AAAACGCCGCTAAT
59792431 TCTCGATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 19 0.30
40 45 0.70
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (38 bp):
CTTTTTAGCGGCGTTTTATTAAAACGCCGCTAATGCTC
Found at i:59796326 original size:19 final size:19
Alignment explanation
Indices: 59796302--59796339 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59796292 GTAAAATTTT
*
59796302 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
59796321 TTATCATTTTAACTTTTAA
1 TTATCATTTTAACTTTTAA
59796340 CATTTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:59796604 original size:43 final size:43
Alignment explanation
Indices: 59796547--59796829 Score: 336
Period size: 43 Copynumber: 6.6 Consensus size: 43
59796537 AAAAATGCCA
* * *
59796547 CTAAAAGTCATGGTCTTTAGCAGCGTTTGTGGAAAAAGC-CCTG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCC-G
* * * * *
59796590 CTAAAGGTCGTGGTCTTTAGCGGTGTTTTTGGTAAAAGCGCCA
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* *
59796633 CTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* *
59796676 CTAAAGGTCATGGACTTTAGCGGCGTTTGT-GAGAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCG
* * * * *
59796719 CTAATGGTCTTGGTCTTTAGCGGCGTTTATGGGAAAGGCGTCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* *
59796762 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCAG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
* * *
59796805 TTGAGGGTCTTGGTCTTTAGCGGCG
1 CTAAAGGTCTTGGTCTTTAGCGGCG
59796830 CTGTCATTAG
Statistics
Matches: 205, Mismatches: 32, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
42 1 0.00
43 201 0.98
44 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCG
Found at i:59796777 original size:129 final size:129
Alignment explanation
Indices: 59796547--59796829 Score: 381
Period size: 129 Copynumber: 2.2 Consensus size: 129
59796537 AAAAATGCCA
* *
59796547 CTAAAAGTCATGGTCTTTAGCAGCGTTTGTGGAAAAAGCCCTGCTAAAGGTCGTGGTCTTTAGCG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCCCTGCTAAAGGTCGTGGTCTTTAGCG
* * * * *
59796612 GTGTTTTTGGTAAAAGCGCCACTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGGGAAAAGCGCCG
66 GCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCAG
* * *
59796676 CTAAAGGTCATGGACTTTAGCGGCGTTTGT-GAGAAAAGCGCC-GCTAATGGTCTTGGTCTTTAG
1 CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGA-AAAAGC-CCTGCTAAAGGTCGTGGTCTTTAG
* * *
59796739 CGGCGTTTATGGGAAAGGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCA
64 CGGCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCA
59796804 G
129 G
* * * *
59796805 TTGAGGGTCTTGGTCTTTAGCGGCG
1 CTAAAGGTCATGGTCTTTAGCGGCG
59796830 CTGTCATTAG
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
128 2 0.01
129 130 0.97
130 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (129 bp):
CTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGAAAAAGCCCTGCTAAAGGTCGTGGTCTTTAGCG
GCGTTTATGGGAAAAGCGCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCAG
Found at i:59797617 original size:22 final size:22
Alignment explanation
Indices: 59797587--59797651 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 22
59797577 ATTTATTTTT
*
59797587 AAATATTATTAGTATATATAAA
1 AAATTTTATTAGTATATATAAA
*
59797609 AAATTTTATTAGTATACA-AAA
1 AAATTTTATTAGTATATATAAA
*
59797630 ATATTTT-TT--TATAT-TAAA
1 AAATTTTATTAGTATATATAAA
59797648 AAAT
1 AAAT
59797652 AAATTTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 10 0.27
20 2 0.05
21 9 0.24
22 16 0.43
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
AAATTTTATTAGTATATATAAA
Found at i:59797658 original size:21 final size:22
Alignment explanation
Indices: 59797586--59797659 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
59797576 TATTTATTTT
* * *
59797586 TAAATATTATTAGTATATATAAA
1 TAAAT-TTTTTAGTATACAAAAA
59797609 -AAATTTTATTAGTATACAAAAA
1 TAAATTTT-TTAGTATACAAAAA
*
59797631 T-ATTTTTTTA-TATTA-AAAAA
1 TAAATTTTTTAGTA-TACAAAAA
59797651 TAAATTTTT
1 TAAATTTTT
59797660 AAACCAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
20 8 0.19
21 13 0.31
22 21 0.50
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (22 bp):
TAAATTTTTTAGTATACAAAAA
Found at i:59798149 original size:29 final size:29
Alignment explanation
Indices: 59798117--59798192 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
59798107 ATTTAAAATG
59798117 TTATTAAAACTAAT-AAAAAATCATAAAAA
1 TTATTAAAA-TAATAAAAAAATCATAAAAA
* * *
59798146 TTATTAAAATCATAAAAAAATTATAACAA
1 TTATTAAAATAATAAAAAAATCATAAAAA
* *
59798175 GTATTAAAAT-TTAAAAAA
1 TTATTAAAATAATAAAAAA
59798193 GAAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 10 0.24
29 31 0.76
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (29 bp):
TTATTAAAATAATAAAAAAATCATAAAAA
Found at i:59799948 original size:5 final size:6
Alignment explanation
Indices: 59799932--59799956 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59799922 ATAAAAATTT
59799932 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
59799957 TTATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:59800200 original size:9 final size:9
Alignment explanation
Indices: 59800188--59800264 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
59800178 TTTTACATGA
*
59800188 TTTATATTT
1 TTTATAATT
59800197 TTTATAATT
1 TTTATAATT
59800206 TTTATAACTT
1 TTTATAA-TT
*
59800216 TATATCAATT
1 TTTAT-AATT
*
59800226 TTAAT-A-T
1 TTTATAATT
*
59800233 TTAATAA-T
1 TTTATAATT
*
59800241 TTAATTAATT
1 TTTA-TAATT
*
59800251 TTTATGATT
1 TTTATAATT
59800260 TTTAT
1 TTTAT
59800265 GATTCTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.11
8 7 0.12
9 27 0.47
10 15 0.26
11 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:59800209 original size:18 final size:18
Alignment explanation
Indices: 59800119--59800234 Score: 51
Period size: 17 Copynumber: 6.4 Consensus size: 18
59800109 GAGGTAAAAA
*
59800119 TATATTTTTT-TAATTTC
1 TATATTTTTTATAATTTT
* *
59800136 TA-ATTTTTTCTAGTTTT
1 TATATTTTTTATAATTTT
*
59800153 CATA-TTTTTATAATTTAT
1 TATATTTTTTATAATTT-T
* ** * *
59800171 TAGAAAATTTTA-CATGATT
1 TA-TATTTTTTATAAT-TTT
59800190 TATATTTTTTATAATTTT
1 TATATTTTTTATAATTTT
* *
59800208 TATAACTTTATATCAATTTT
1 TAT-ATTTTTTAT-AATTTT
*
59800228 AATATTT
1 TATATTT
59800235 AATAATTTAA
Statistics
Matches: 71, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
16 7 0.10
17 18 0.25
18 14 0.20
19 18 0.25
20 14 0.20
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATTTTTTATAATTTT
Found at i:59800260 original size:26 final size:27
Alignment explanation
Indices: 59800195--59800260 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 27
59800185 TGATTTATAT
*
59800195 TTTTTATAATTTTTATAACTTTATATCAA
1 TTTTTAT-A-TTTAATAACTTTATATCAA
* *
59800224 TTTTAATATTTAATAA-TTTA-ATTAA
1 TTTTTATATTTAATAACTTTATATCAA
59800249 TTTTTATGATTT
1 TTTTTAT-ATTT
59800261 TTATGATTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 10 0.31
26 8 0.25
27 7 0.22
28 1 0.03
29 6 0.19
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTTATATTTAATAACTTTATATCAA
Found at i:59801119 original size:24 final size:24
Alignment explanation
Indices: 59801092--59801145 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
59801082 AAGTCAAAAC
*
59801092 TTTATTTTGAAGCATACCAGAAAT
1 TTTAATTTGAAGCATACCAGAAAT
59801116 TTTAATTTGAAGCATACCAGAAAT
1 TTTAATTTGAAGCATACCAGAAAT
59801140 TTTAAT
1 TTTAAT
59801146 GGCATGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (24 bp):
TTTAATTTGAAGCATACCAGAAAT
Found at i:59803066 original size:33 final size:33
Alignment explanation
Indices: 59802989--59803067 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
59802979 CCCTTTCCAG
* * *
59802989 ATCACCTTCACCATCATATTCTGCCCCTACATC
1 ATCACCTTCCCCATCATATTCTACCCCTACAAC
* * *
59803022 ATCACCCTCCCCATCA-ACTTCTATCCCTTCAAC
1 ATCACCTTCCCCATCATA-TTCTACCCCTACAAC
59803055 ATCACCTTCCCCA
1 ATCACCTTCCCCA
59803068 ACAGTCAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.24, C:0.47, G:0.01, T:0.28
Consensus pattern (33 bp):
ATCACCTTCCCCATCATATTCTACCCCTACAAC
Found at i:59804428 original size:12 final size:12
Alignment explanation
Indices: 59804389--59804428 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
59804379 CAATCCACAA
59804389 TCCACATTTCATTT
1 TCCA-ATTTCA-TT
*
59804403 TCCATTTTCATT
1 TCCAATTTCATT
59804415 TCCAATTTCATT
1 TCCAATTTCATT
59804427 TC
1 TC
59804429 TTATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.62
13 5 0.21
14 4 0.17
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TCCAATTTCATT
Found at i:59808485 original size:12 final size:12
Alignment explanation
Indices: 59808468--59808492 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59808458 ATTTAGGTGA
59808468 AAAAATATTTTT
1 AAAAATATTTTT
59808480 AAAAATATTTTT
1 AAAAATATTTTT
59808492 A
1 A
59808493 TTAGGGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:59812076 original size:19 final size:19
Alignment explanation
Indices: 59812052--59812088 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59812042 CAACATATCA
59812052 TAATAAAACAAAATTTTAG
1 TAATAAAACAAAATTTTAG
* *
59812071 TAATAATACATAATTTTA
1 TAATAAAACAAAATTTTA
59812089 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:59812265 original size:12 final size:12
Alignment explanation
Indices: 59812248--59812278 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
59812238 AAAATATAAA
*
59812248 AATAATAGGAAT
1 AATAATAGCAAT
59812260 AATAATAGCAAT
1 AATAATAGCAAT
59812272 AATAATA
1 AATAATA
59812279 TAAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.03, G:0.10, T:0.26
Consensus pattern (12 bp):
AATAATAGCAAT
Found at i:59814315 original size:114 final size:114
Alignment explanation
Indices: 59814143--59814574 Score: 573
Period size: 114 Copynumber: 3.8 Consensus size: 114
59814133 AATCAGCAAT
* ** *
59814143 GCTTTTCTAAAAATGTTGCAAAAATG-TAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
* * * * *
59814207 ACTAGCGACCCTTATTCAAAAACGCCGATATATGTCAAGAATTAGCGGC
66 ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
** * * * *
59814256 ATTTTTCTAAAAATGCCGCAAAAATATTAATCAAAATGCAACGTTCTATCCTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
* *** * *
59814321 ATTAGTGGCGCTTACAGAAAAATGCCGCTATAGGTCGAGAATTAGCGGC
66 ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
* * *
59814370 GCTTTTCTAAAAACACCACAAAAATGTTAATCAAAACGCATCGTTCT-GCCTTGAGCTTTAGTGG
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCC-TGAGCTTTAGTGG
*
59814434 CATTAGCGGCGCTTATTCAAAAACGCCTCTATATGTCGAGAATTAGCGGC
65 CATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
* *
59814484 GCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGC
1 GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
*
59814549 ATTAGCGGCGCTT-TCCGAAAAACGCC
66 ATTAGCGGCGCTTATTC-AAAAACGCC
59814575 ACAAAATGTT
Statistics
Matches: 274, Mismatches: 41, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
113 25 0.09
114 248 0.91
115 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (114 bp):
GCTTTTCTAAAAACGCCGCAAAAATGTTAATCAAAACGCATCGTTCTATCCTGAGCTTTAGTGGC
ATTAGCGGCGCTTATTCAAAAACGCCGCTATATGTCGAGAATTAGCGGC
Found at i:59814507 original size:228 final size:227
Alignment explanation
Indices: 59814161--59814570 Score: 640
Period size: 228 Copynumber: 1.8 Consensus size: 227
59814151 AAAAATGTTG
*
59814161 CAAAAATGTAATCAAAACGCATCGTTCTATCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
1 CAAAAATGTAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
* *
59814226 AAACGCCGATATATGTCAAGAATTAGCGGCATTTTTCTAAAAATGCCGCAAAAATATTAATCAAA
66 AAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAAA
* *
59814291 ATGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGTGGCGCTTACAGAAAAATGCCGCTATAGGT
131 ACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAATGCCGCTATAGGT
59814356 CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
196 CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
* * * *
59814388 CAAAAATGTTAATCAAAACGCATCGTTCTGCCTTGAGCTTTAGTGGCATTAGCGGCGCTTATTCA
1 CAAAAATG-TAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCA
** * * * *
59814453 AAAACGCCTCTATATGTCGAGAATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAA
65 AAAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAA
* * * *
59814518 AACGCATCGTTCTATCTTGAGCTTTAGTGGCATTAGCGGCGCTTTCCGAAAAA
130 AACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAA
59814571 CGCCACAAAA
Statistics
Matches: 163, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
227 8 0.05
228 155 0.95
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (227 bp):
CAAAAATGTAATCAAAACGCATCGTTCTACCTTGAGCTTTAGTGGCACTAGCGACCCTTATTCAA
AAACGCCGATATATGTCAAGAATTAGCGGCACTTTTCTAAAAACGCCGCAAAAATATTAATCAAA
ACGCAACGTTCTATCCTGAGCTTTAGTGGCATTAGCGGCGCTTACAGAAAAATGCCGCTATAGGT
CGAGAATTAGCGGCGCTTTTCTAAAAACACCA
Found at i:59814599 original size:74 final size:73
Alignment explanation
Indices: 59814475--59814620 Score: 179
Period size: 74 Copynumber: 2.0 Consensus size: 73
59814465 TATGTCGAGA
* * * *
59814475 ATTAGCGGCGCTTTTCTAAAAACGCTGCAAAAATGTTAATCAAAACGCATCGTTCTAT-CTTGAG
1 ATTAGCGGCGCTTTCCGAAAAACGC-GCAAAAATGTTAAGCAAAACGCATCGTT-TATACTGGAG
59814539 CTTTAGTGGC
64 CTTTAGTGGC
* * *
59814549 ATTAGCGGCGCTTTCCGAAAAACGC-CACAAAATGTTGAGCAAAATGGCATCGTTTATAGTGGAG
1 ATTAGCGGCGCTTTCCGAAAAACGCGCA-AAAATGTTAAGCAAAA-CGCATCGTTTATACTGGAG
59814613 CTTTAGTG
64 CTTTAGTG
59814621 ACGTTTTAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
72 2 0.03
73 17 0.27
74 43 0.69
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (73 bp):
ATTAGCGGCGCTTTCCGAAAAACGCGCAAAAATGTTAAGCAAAACGCATCGTTTATACTGGAGCT
TTAGTGGC
Found at i:59815388 original size:21 final size:21
Alignment explanation
Indices: 59815362--59815403 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59815352 CTTGTAAAAT
59815362 ATTAACACAATTATTGATTTA
1 ATTAACACAATTATTGATTTA
* * *
59815383 ATTAACATAATTTTTTATTTA
1 ATTAACACAATTATTGATTTA
59815404 TATATTGCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAACACAATTATTGATTTA
Found at i:59815453 original size:21 final size:20
Alignment explanation
Indices: 59815427--59815475 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
59815417 TAAATATTTA
59815427 TATTTATTCAATATAAATGTG
1 TATTTATTCAATA-AAATGTG
***
59815448 TATTTATTTTTTAAAATGTG
1 TATTTATTCAATAAAATGTG
59815468 TATTTATT
1 TATTTATT
59815476 TTTTAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (20 bp):
TATTTATTCAATAAAATGTG
Found at i:59815477 original size:19 final size:20
Alignment explanation
Indices: 59815441--59815490 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
59815431 TATTCAATAT
59815441 AAATGTGTATTTATTTTTTA
1 AAATGTGTATTTATTTTTTA
59815461 AAATGTGTATTTATTTTTTA
1 AAATGTGTATTTATTTTTTA
59815481 AAA-GTGTATT
1 AAATGTGTATT
59815491 ATTCTCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
AAATGTGTATTTATTTTTTA
Found at i:59816200 original size:18 final size:19
Alignment explanation
Indices: 59816161--59816211 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
59816151 CCATTTCCAA
59816161 ATTTCCCCAAATCCCTAAC
1 ATTTCCCCAAATCCCTAAC
**
59816180 ATTTCCCCAAA-CCCTTTC
1 ATTTCCCCAAATCCCTAAC
59816198 ATTTTCCCCAAATC
1 A-TTTCCCCAAATC
59816212 AAAATCGAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 21 0.75
20 1 0.04
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.31
Consensus pattern (19 bp):
ATTTCCCCAAATCCCTAAC
Found at i:59817181 original size:5 final size:5
Alignment explanation
Indices: 59817171--59817196 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59817161 TGAGCATTCG
59817171 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
59817197 AATTTTCGAG
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:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:59822642 original size:43 final size:43
Alignment explanation
Indices: 59822579--59822995 Score: 385
Period size: 43 Copynumber: 9.7 Consensus size: 43
59822569 TTGCCCAAAT
* * * * *
59822579 TAGCGGCATTTGTA-AAAAAAGTGCCGCTAAAGACTACGAATTA
1 TAGCGGCGTTT-TATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * ** * *
59822622 TAGCAGCGTTTTATAAAAAAGCACTACTAAAGGCCATGGCTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * *
59822665 TAGCGGCATTTTATAAAACAA-CACCGCTAAAGGCAATGACTTA
1 TAGCGGCGTTTTATAAAA-AAGCGCCGCTAAAGACCATGACTTA
* * * *
59822708 TAGCGGCATTTTATAAAAAAGCGTCGCTAAAGGCCATGATTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
*
59822751 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCAAGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * *
59822794 TAGCGGCGTTTTATAAAAAAGTGTCGCTAAAGACCACGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
** * *
59822837 TAGCAACGTTTTATAAAAAAGCGCCGCTAAAGGCCACGACTTA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
* * * * * *
59822880 TACCGGC-TTTTTTATAATAGCACCGCTAAAGACCACGACCTT-
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
** * * *
59822922 TAGCGGCGTTTGCTATAATAGCGCCGCTAATGACCATGACCTT-
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGA-CTTA
* * * *
59822965 TAGCGGCGTCTTCTATAAAAGCGCCGTTAAA
1 TAGCGGCGTTTTATAAAAAAGCGCCGCTAAA
59822996 ATTCAGGATC
Statistics
Matches: 316, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.11
43 278 0.88
44 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTATAAAAAAGCGCCGCTAAAGACCATGACTTA
Found at i:59823009 original size:43 final size:43
Alignment explanation
Indices: 59822892--59823018 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 43
59822882 CCGGCTTTTT
* * *
59822892 TATAATAGCACCGCTAA-AGACCACGACCTTTAGCGGCGTTTGC
1 TATAAAAGCGCCGCTAATA-ACCAGGACCTTTAGCGGCGTTTGC
* * *
59822935 TATAATAGCGCCGCTAATGACCATGACCTTTAGCGGCGTCTT-C
1 TATAAAAGCGCCGCTAATAACCAGGACCTTTAGCGGCGT-TTGC
* * *
59822978 TATAAAAGCGCCGTTAA-AATTCAGGATCTTTAGCGGCGTTT
1 TATAAAAGCGCCGCTAATAA-CCAGGACCTTTAGCGGCGTTT
59823019 TTTTCATATA
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.04
43 67 0.93
44 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
TATAAAAGCGCCGCTAATAACCAGGACCTTTAGCGGCGTTTGC
Found at i:59823706 original size:48 final size:47
Alignment explanation
Indices: 59823585--59823706 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 47
59823575 GGGTGTCACA
* * *
59823585 CGACCAATGGTTTATCCACAACATATTTTAGTCAACAATCATCTACT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
* * * * ** *
59823632 CGACTAGTGGTTTATCTATAATGTATTCTAGTTGACAGATCATCTGCT
1 CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACA-ATCATCTACT
59823680 CGACCAGTGGTTTATCCACAACGTATT
1 CGACCAGTGGTTTATCCACAACGTATT
59823707 AGTAACTTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 28 0.47
48 32 0.53
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (47 bp):
CGACCAGTGGTTTATCCACAACGTATTCTAGTCAACAATCATCTACT
Found at i:59836447 original size:23 final size:24
Alignment explanation
Indices: 59836421--59836465 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
59836411 ATATCCCCAC
* *
59836421 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTATAGAGGCTGGATGGAG
*
59836444 ATGGTGTATAGAGGCTGGATGG
1 ATGGAGTATAGAGGCTGGATGG
59836466 GTAGAGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTATAGAGGCTGGATGGAG
Found at i:59836929 original size:18 final size:18
Alignment explanation
Indices: 59836881--59836932 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
59836871 GTAATAAAAA
*
59836881 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAAATGAAT
* * *
59836899 AACG-ATTGTAAATGAAT
1 AATGTTTTGAAAATGAAT
59836916 AATGTTTTGAAAATGAA
1 AATGTTTTGAAAATGAA
59836933 CTGCACGATT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (18 bp):
AATGTTTTGAAAATGAAT
Found at i:59839283 original size:46 final size:46
Alignment explanation
Indices: 59839233--59839408 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59839223 TGGTTGAGCA
59839233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59839279 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59839324 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59839372 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59839409 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59839389 original size:93 final size:93
Alignment explanation
Indices: 59839230--59839401 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59839220 GGATGGTTGA
* *
59839230 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59839295 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59839323 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59839388 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59839402 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59846848 original size:46 final size:46
Alignment explanation
Indices: 59846798--59846973 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59846788 TGGTTGAGCA
*
59846798 TCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59846844 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59846889 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59846937 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59846974 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59846954 original size:93 final size:93
Alignment explanation
Indices: 59846795--59846966 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59846785 GGATGGTTGA
* * *
59846795 GCATCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59846860 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59846888 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59846953 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59846967 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59848981 original size:38 final size:38
Alignment explanation
Indices: 59848930--59849005 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
59848920 GCAGCAGAAC
59848930 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
1 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
59848968 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
1 GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
59849006 AACAGGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.34, T:0.18
Consensus pattern (38 bp):
GGTACAAAAGGTGGATGAAAGAGAGGAACATGATTGAT
Found at i:59849549 original size:69 final size:69
Alignment explanation
Indices: 59849438--59849575 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
59849428 AATAAAGTAT
*
59849438 ATCCTACCCGTGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
1 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
59849503 CACA
66 CACA
* * *
59849507 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAATATGGATTCAAG
1 ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
59849572 CACA
66 CACA
59849576 CATAACTAAC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (69 bp):
ATCCTACCCATGGACAGCCAAGTATAGGGATAAAAACAATAAAAATCCAAGAAAAGGGATTCAAA
CACA
Found at i:59861607 original size:21 final size:22
Alignment explanation
Indices: 59861561--59861608 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
59861551 GTGGCTAAAT
59861561 CACAC-ACCTATGTGGCTGAGA
1 CACACGACCTATGTGGCTGAGA
* * *
59861582 AACACGACC-ATGTGTCTGAGG
1 CACACGACCTATGTGGCTGAGA
59861603 CACACG
1 CACACG
59861609 CTCATGCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (22 bp):
CACACGACCTATGTGGCTGAGA
Found at i:59863148 original size:50 final size:49
Alignment explanation
Indices: 59863019--59863159 Score: 151
Period size: 47 Copynumber: 2.9 Consensus size: 49
59863009 TATGTGGCGA
* * **
59863019 TTTATCTACAAATCAGTGGTAGCTTGTCCACAAAGTGTTTCAATGGTAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
* * * * *
59863068 TATATTTGCATAT--GTGGTAATTTGTCCACAAAGTGTTATCAGTGACAG
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTT-TCAATGACAG
*
59863116 TTTATCTGCAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCA
1 TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAA--GTGTTTCA
59863160 GATGGACAAG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
47 22 0.30
48 17 0.23
49 9 0.12
50 17 0.23
51 3 0.04
52 5 0.07
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (49 bp):
TTTATCTGCAAATCAGTGGTAGTTTGTCCACAAAGTGTTTCAATGACAG
Found at i:59875478 original size:132 final size:132
Alignment explanation
Indices: 59875318--59875655 Score: 590
Period size: 132 Copynumber: 2.6 Consensus size: 132
59875308 ACAGTTTCAA
* *
59875318 GGAGATAGGAA-TACTGGCTTCAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
59875382 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
59875447 CAG
130 CAG
*
59875450 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACTATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
59875515 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
59875580 AG
131 AG
*
59875582 GAAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAAT-CAGCCATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCA-CCATCT
**
59875646 TCAATCTGCT
65 TTGATCTGCT
59875656 TCGCTGTTTA
Statistics
Matches: 197, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 5 0.03
132 192 0.97
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
AG
Found at i:59875588 original size:44 final size:44
Alignment explanation
Indices: 59875378--59875588 Score: 133
Period size: 44 Copynumber: 4.8 Consensus size: 44
59875368 AAAATCCACC
* * * **
59875378 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * *
59875422 ATCTTTAATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * * ** * * **
59875463 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACT-
1 AT--CTTTAATCTACTCCACTGCTGCC-CAGGGAGATAAGAT-CTGTA
* * * **
59875510 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * *
59875554 ATCTTTAATCTATTCCACTGTTGCCCAGGAAGATA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATA
59875589 GAATTACTGG
Statistics
Matches: 118, Mismatches: 41, Indels: 16
0.67 0.23 0.09
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 22 0.19
44 73 0.62
45 17 0.14
47 1 0.01
48 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
Found at i:59875739 original size:44 final size:44
Alignment explanation
Indices: 59875671--59875774 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
59875661 GTTTATGTAG
* * *
59875671 GAAGGCAAGATCTTCTATATTTGATCTACTTGACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* *
59875715 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
59875759 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
59875775 TTTTCAATCG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
Found at i:59876220 original size:89 final size:88
Alignment explanation
Indices: 59875990--59876522 Score: 608
Period size: 89 Copynumber: 6.0 Consensus size: 88
59875980 GACCTACTAT
* * * *
59875990 CTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
*
59876055 GTATGGGGAGACAAGATCTGTTT
66 GTATGGGGAGACAAGATCTGTTA
* *
59876078 CTTTGATCTACTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACTA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
*
59876142 GTATGGGGAGACAAGGTCTGTTGA
66 GTATGGGGAGACAAGATCTGTT-A
*
59876166 CTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACC
*
59876230 AGTATGGGGAGACAAGATTTGTTGA
65 AGTATGGGGAGACAAGATCTGTT-A
* * * * * *
59876255 CTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTT-GATCTACTCCACCAC
* * *
59876319 CAGTATGGGAAGGCGAGATCTGTATA
64 CAGTATGGGGAGACAAGATCTGT-TA
* * * * * *
59876345 -TTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCAC
* * *
59876408 CAGTATGGGAAGGCGAGATCTGTTA
64 CAGTATGGGGAGACAAGATCTGTTA
* * * *
59876433 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCC
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTTGATCTACTCCACC
* * *
59876498 ACCAGTATGGGAAGGCGAGATCTGT
62 ACCAGTATGGGGAGACAAGATCTGT
59876523 ATATTCGATC
Statistics
Matches: 400, Mismatches: 31, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
87 62 0.16
88 38 0.09
89 180 0.45
90 73 0.18
91 1 0.00
92 45 0.11
93 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (88 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCA
GTATGGGGAGACAAGATCTGTTA
Found at i:59876260 original size:45 final size:44
Alignment explanation
Indices: 59876018--59876266 Score: 220
Period size: 45 Copynumber: 5.6 Consensus size: 44
59876008 CAGTACATGA
* * *
59876018 AGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTG-TTTCTTTGATCTACTCCACCACCAGTATGGGG
* *** *
59876063 AGACAAGATCTGTTTCTTTGATCTACTTCACGCA--A-TACATGA
1 AGACAAGATCTGTTTCTTTGATCTACTCCAC-CACCAGTATGGGG
*
59876105 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACTAGTATGGGG
1 AGACAAGATCTG-TTTCTTTGATCTACTCCACCACCAGTATGGGG
* * * * *** *
59876150 AGACAAGGTCTGTTGACTTTGATCTACTTCA-CGCC-GATACATGA
1 AGACAAGATCTGTT-TCTTTGATCTACTCCACCACCAG-TATGGGG
*
59876194 AGGCAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTG-TTTCTTTGATCTACTCCACCACCAGTATGGGG
* *
59876239 AGACAAGATTTGTTGACTTTGATCTACT
1 AGACAAGATCTGTT-TCTTTGATCTACT
59876267 TCACGCTGAT
Statistics
Matches: 159, Mismatches: 34, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
42 17 0.11
43 20 0.13
44 50 0.31
45 71 0.45
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
AGACAAGATCTGTTTCTTTGATCTACTCCACCACCAGTATGGGG
Found at i:59876465 original size:179 final size:175
Alignment explanation
Indices: 59875994--59876538 Score: 693
Period size: 179 Copynumber: 3.1 Consensus size: 175
59875984 TACTATCTTT
* *
59875994 GATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 GATCTACTTCACG-CAGTACATGAAGACAAGATCTG-TTTCTTCGATCTACTCCACCACCAGTAT
*
59876059 GGGGAGACAAGATCTGTT-TCTTTGATCTACTTCACGCAATACATGAAGACAAGATCTGCTTTCT
64 GGGGAGACAAGATCTGTTATCTTTGATCTACTTCACGCAGTACATGAAGACAAGATCTGCTTTCT
* * * * * * * * *
59876123 TT-GATCTACTCCACCACTAGTATGGGGAGACAAGGTCTGT-TGACTTT
129 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTAT-A-TTC
* * *
59876170 GATCTACTTCACGCCGATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTAT
1 GATCTACTTCACGCAG-TACATGAAGACAAGATCTG-TTTCTTCGATCTACTCCACCACCAGTAT
* * * *
59876235 GGGGAGACAAGATTTGTTGA-CTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTTT
64 GGGGAGACAAGATCTGTT-ATCTTTGATCTACTTCACGCAG-TACATGAAGACAAGATCTGCTTT
59876299 CTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
127 CTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
* * *
59876348 GATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCACCAGTA
1 GATCTACTTCACGC-AGTACATGAAGACAAGATCTGT-TT-CTTCGATCTACTCCACCACCAGTA
* * *
59876413 TGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
63 TGGGGAGACAAGATCTGTTATCTTTGATCTACTTCACG-CAGTACATGAAGACAAGATCTGC--T
*
59876478 TTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
125 TTCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
*
59876529 GATCCACTTC
1 GATCTACTTC
59876539 GCTACCAATA
Statistics
Matches: 321, Mismatches: 35, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
175 2 0.01
176 73 0.23
177 19 0.06
178 62 0.19
179 102 0.32
180 3 0.01
181 60 0.19
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (175 bp):
GATCTACTTCACGCAGTACATGAAGACAAGATCTGTTTCTTCGATCTACTCCACCACCAGTATGG
GGAGACAAGATCTGTTATCTTTGATCTACTTCACGCAGTACATGAAGACAAGATCTGCTTTCTTT
CGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATATTC
Found at i:59877909 original size:46 final size:46
Alignment explanation
Indices: 59877857--59877946 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
59877847 AGCCTCTCCA
* * * *
59877857 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
*
59877903 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
59877947 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (46 bp):
TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
Found at i:59877956 original size:46 final size:46
Alignment explanation
Indices: 59877860--59877956 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
59877850 CTCTCCATTT
* * * * * ***
59877860 TTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
59877906 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
59877952 TTTTT
1 TTTTT
59877957 TAAGCAGAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.43
Consensus pattern (46 bp):
TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:59884591 original size:132 final size:132
Alignment explanation
Indices: 59884431--59884768 Score: 590
Period size: 132 Copynumber: 2.6 Consensus size: 132
59884421 ACAGTTTCAA
* *
59884431 GGAGATAGGAA-TACTGGCTTCAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
59884495 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
59884560 CAG
130 CAG
*
59884563 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACTATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
59884628 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
59884693 AG
131 AG
*
59884695 GAAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAAT-CAGCCATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCA-CCATCT
**
59884759 TCAATCTGCT
65 TTGATCTGCT
59884769 TCGCTGTTTA
Statistics
Matches: 197, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
131 5 0.03
132 192 0.97
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
AG
Found at i:59884701 original size:44 final size:44
Alignment explanation
Indices: 59884491--59884701 Score: 133
Period size: 44 Copynumber: 4.8 Consensus size: 44
59884481 AAAATCCACC
* * * **
59884491 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * *
59884535 ATCTTTAATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * * ** * * **
59884576 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACT-
1 AT--CTTTAATCTACTCCACTGCTGCC-CAGGGAGATAAGAT-CTGTA
* * * **
59884623 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
* * *
59884667 ATCTTTAATCTATTCCACTGTTGCCCAGGAAGATA
1 ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATA
59884702 GAATTACTGG
Statistics
Matches: 118, Mismatches: 41, Indels: 16
0.67 0.23 0.09
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 22 0.19
44 73 0.62
45 17 0.14
47 1 0.01
48 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTTTAATCTACTCCACTGCTGCCCAGGGAGATAAGATCTGTA
Found at i:59884852 original size:44 final size:44
Alignment explanation
Indices: 59884784--59884887 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
59884774 GTTTATGTAG
* * *
59884784 GAAGGCAAGATCTTCTATATTTGATCTACTTGACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* *
59884828 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
59884872 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
59884888 TTTTCAATCG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
Found at i:59885158 original size:44 final size:44
Alignment explanation
Indices: 59885102--59885604 Score: 333
Period size: 44 Copynumber: 11.3 Consensus size: 44
59885092 GGACCTACTA
*
59885102 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* * * * *** *
59885146 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGTTT
* *
59885190 TCTTTGATCTACTTCACG-CAATACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
* * * *
59885233 TCTTTGATCTACTCCAC-CACTAGT--ATGGGAGACAAGGTCTGTTG
1 TCTTTGATCTACTTCACGC-C-AGTACAT-GAAGACAAGATCTGTTT
* * *
59885277 ACTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGTTT
* * * * *
59885321 TCTTTGATCTACTCCACCACCAGT--ATGGGAGACAAGATTTGTTG
1 TCTTTGATCTACTTCA-CGCCAGTACAT-GAAGACAAGATCTGTTT
* * * **
59885365 ACTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTT
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGTTT
* * * *** * * *
59885409 TCTTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTG-TA
1 TCTTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTT
* * *
59885454 TATTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTGTATT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT-TT
* * * * * *** * * *
59885499 CCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTA
1 TCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGTTT
59885544 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTT
* *
59885589 TCCTTCGATCTGCTTC
1 T-CTTTGATCTACTTC
59885605 GCCACCAGTA
Statistics
Matches: 336, Mismatches: 99, Indels: 46
0.70 0.21 0.10
Matches are distributed among these distances:
42 20 0.06
43 44 0.13
44 153 0.46
45 72 0.21
46 45 0.13
47 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTT
Found at i:59885202 original size:88 final size:89
Alignment explanation
Indices: 59885102--59885632 Score: 619
Period size: 88 Copynumber: 6.0 Consensus size: 89
59885092 GGACCTACTA
* * *
59885102 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTCTTCGACCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
*
59885167 AGTATGGGGAGACAAGATCTGTT-
66 AGTATGGGAAGACAAGATCTGTTG
* * *
59885190 TCTTTGATCTACTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
*
59885254 AGTATGGG-AGACAAGGTCTGTTG
66 AGTATGGGAAGACAAGATCTGTTG
* * *
59885277 ACTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTTTCTTTGATCTACTCCACCAC
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCAC
*
59885341 CAGTATGGG-AGACAAGATTTGTTG
65 CAGTATGGGAAGACAAGATCTGTTG
* * * * * * *
59885365 ACTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCA
1 TCTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTC-TTCGATCTACTCCACCA
* * *
59885429 CCAGTATGGGAAGGCGAGATCTG-TA
64 CCAGTATGGGAAGACAAGATCTGTTG
* * * * * *
59885454 TATTCGATCTACTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCA
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TT-CTTCGATCTACTCCACCA
* * *
59885518 CCAGTATGGGAAGGCGAGATCTGTTA
64 CCAGTATGGGAAGACAAGATCTGTTG
* * *
59885544 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTCCTTCGATCTGCTTCGCCA
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-TTT-CTTCGATCTACTCCACCA
* *
59885609 CCAGTATGGGAAGGCGAGATCTGT
64 CCAGTATGGGAAGACAAGATCTGT
59885633 ATATTCGATC
Statistics
Matches: 397, Mismatches: 34, Indels: 21
0.88 0.08 0.05
Matches are distributed among these distances:
86 13 0.03
87 66 0.17
88 123 0.31
89 98 0.25
90 51 0.13
91 45 0.11
92 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACC
AGTATGGGAAGACAAGATCTGTTG
Found at i:59885642 original size:44 final size:44
Alignment explanation
Indices: 59885412--59885665 Score: 206
Period size: 44 Copynumber: 5.7 Consensus size: 44
59885402 TCTACTTTCT
* * *
59885412 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
* * * * * * *
59885456 TTCGATCTACTTC-ACGCTAGTACATGAAGACAAGATCTGTATTCC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTA-T-C
* *
59885501 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTG-TATC
* * * * * * * *
59885546 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTTCC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTG--TAT-C
* * *
59885592 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
* * *
59885636 TTCGATCCACTTCGCTACCAATATAGGAAG
1 TTCGATCTACTTCGCCACCAGTATAGGAAG
59885666 ACAAGACCTG
Statistics
Matches: 158, Mismatches: 45, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
43 20 0.13
44 57 0.36
45 29 0.18
46 31 0.20
47 21 0.13
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
Found at i:59887012 original size:46 final size:46
Alignment explanation
Indices: 59886960--59887049 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
59886950 AGCCTCTCCA
* * * *
59886960 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
*
59887006 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
59887050 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.12, C:0.26, G:0.18, T:0.44
Consensus pattern (46 bp):
TTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTC
Found at i:59887059 original size:46 final size:46
Alignment explanation
Indices: 59886963--59887059 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
59886953 CTCTCCATTT
* * * * * ***
59886963 TTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
59887009 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
59887055 TTTTT
1 TTTTT
59887060 TAAGCAGAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.43
Consensus pattern (46 bp):
TTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:59897601 original size:10 final size:10
Alignment explanation
Indices: 59897581--59897611 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
59897571 ATACTGTGGC
59897581 ATATGCCAACT
1 ATAT-CCAACT
59897592 ATATCCAACT
1 ATATCCAACT
59897602 ATATCCAACT
1 ATATCCAACT
59897612 TTACCCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (10 bp):
ATATCCAACT
Found at i:59901759 original size:50 final size:50
Alignment explanation
Indices: 59901698--59902251 Score: 325
Period size: 50 Copynumber: 11.1 Consensus size: 50
59901688 TATAATGTCG
* *
59901698 GGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* * * * * ** * * *
59901748 GGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* * * *
59901798 GGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCACTGCACCGCCT
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* * ** * ** * *
59901848 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCA
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* *
59901898 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCACTGCCT
1 GGGAAGCAAGATTCACC-ATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* * ** * ** * * *
59901948 GAGAAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* * * * *
59901998 GGGAAGCAATATTCACCGTTG--GCTTTAATCTGCTT-TACTGCACTGGCT
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTG-TTCCACTGCACTGCCA
* ** ** * ** * *
59902046 GAGAGAGTGAGATTCGTCGTTGT-GACTTTAATCCT-TTTAACTGCAATGTC-
1 GGGA-AGCAAGATTCACCATTGTAG-CTTTAAT-CTGTTCCACTGCACTGCCA
* * *
59902096 GGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CACTGCATTGCCA
1 GGG-AAGCAAGATTCACCATTGTAGCTTTAATCTG-TTCCACTGCACTGCCA
* * * * *** * * * ** * * *
59902147 GGGAAGTAACACTCGCTGCTGTGGCTTTAGTCTTTTTAACTGCAATGTCG
1 GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
* *
59902197 GGGAAGCAAGATTCACCGA-TGTGGCTCTAATCTGTTCCACTGCACTGCCA
1 GGGAAGCAAGATTCACC-ATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
59902247 GGGAA
1 GGGAA
59902252 AATAAGATCT
Statistics
Matches: 381, Mismatches: 108, Indels: 30
0.73 0.21 0.06
Matches are distributed among these distances:
48 22 0.06
49 18 0.05
50 316 0.83
51 23 0.06
52 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (50 bp):
GGGAAGCAAGATTCACCATTGTAGCTTTAATCTGTTCCACTGCACTGCCA
Found at i:59901806 original size:100 final size:100
Alignment explanation
Indices: 59901673--59902251 Score: 749
Period size: 100 Copynumber: 5.8 Consensus size: 100
59901663 AACTCGTAAT
** ** * *
59901673 TTTAATCTACTTAACTATAATGTCGGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCAC
* *
59901738 TGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGC
66 TGCACTGCCAGGGAAGTAAGATTCGCTGTTGTGGC
*
59901773 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCAATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCAC
* * *
59901838 TGCACCGCCTGGGAAGTAAGATTCGCTGTTGTAGC
66 TGCACTGCCAGGGAAGTAAGATTCGCTGTTGTGGC
*
59901873 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCCA
* * * *
59901937 CTGCACTGCCTGAGAAGTAAGATTCACTGTTGTAGC
65 CTGCACTGCCAGGGAAGTAAGATTCGCTGTTGTGGC
* * *
59901973 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAATATTCACC-GT-TGGCTTTAATCTGCTT-TA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTG-TTCCA
* * * * *
59902035 CTGCACTGGCTGAGAGAGTGAGATTCG-TCGTTGTGAC
65 CTGCACTGCCAGGGA-AGTAAGATTCGCT-GTTGTGGC
* * *
59902072 TTTAATCCTTTTAACTGCAATGTCGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTG-TTCCA
* * * *
59902136 CTGCATTGCCAGGGAAGTAACACTCGCTGCTGTGGC
65 CTGCACTGCCAGGGAAGTAAGATTCGCTGTTGTGGC
* *
59902172 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTCTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTTCCA
59902236 CTGCACTGCCAGGGAA
65 CTGCACTGCCAGGGAA
59902252 AATAAGATCT
Statistics
Matches: 427, Mismatches: 42, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
98 29 0.07
99 59 0.14
100 309 0.72
101 30 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCATTGTGGCTTTAATCTGTTCCAC
TGCACTGCCAGGGAAGTAAGATTCGCTGTTGTGGC
Found at i:59902323 original size:46 final size:46
Alignment explanation
Indices: 59902253--59902493 Score: 365
Period size: 46 Copynumber: 5.2 Consensus size: 46
59902243 GCCAGGGAAA
* *
59902253 ATAAGATCTGTAATTATTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59902299 ATAAAATCTGAAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59902345 ATAAGATCTAAAATTCTTCGGTCTATTCCACTGTAATCTTAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59902391 ATAAAATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
** * *
59902437 ATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATTTTAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
*
59902483 ATAAGACCTGA
1 ATAAGATCTGA
59902494 TGCGATCTAC
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 176 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (46 bp):
ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
Found at i:59902628 original size:88 final size:86
Alignment explanation
Indices: 59902498--59902795 Score: 320
Period size: 88 Copynumber: 3.4 Consensus size: 86
59902488 ACCTGATGCG
* *
59902498 ATCTACTCTACTCTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATACGCTCCACTGTAATCTC
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGAT-CTTTATTTTAAT-CGCTCCACTGTAATCTC
59902562 AGGGAGATAGAATTACTAGCTTCA
63 AGGGAGATAGAATTACTAGCTTCA
* ** **
59902586 ATCTGCTCTGCTGTAATCTCAGAGAGATAAGATCTGAAATTTTAAGGTCTATTCCACTGTAATCT
1 ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCT-TTATTTTAA--TC-GCTCCACTGTAATCT
* * * *
59902651 CAAGGAGATA-AGA--CCT-GATGCA
62 CAGGGAGATAGA-ATTACTAGCTTCA
*
59902673 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATCTC
1 ATCTACTCTGCTGTAATC-TCAGAGAGATAAGA-TCTTTATTTTAAT-CGCTCCACTGTAATCTC
*
59902737 AGGGAGATAGGATTACTAGCTTCA
63 AGGGAGATAGAATTACTAGCTTCA
* *
59902761 ATCTACTCCGCTGTAATCTCAGGGAGATAAGATCT
1 ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCT
59902796 GGAACTCTTC
Statistics
Matches: 171, Mismatches: 25, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
85 24 0.14
86 2 0.01
87 46 0.27
88 71 0.42
89 4 0.02
90 24 0.14
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (86 bp):
ATCTACTCTGCTGTAATCTCAGAGAGATAAGATCTTTATTTTAATCGCTCCACTGTAATCTCAGG
GAGATAGAATTACTAGCTTCA
Found at i:59902639 original size:175 final size:175
Alignment explanation
Indices: 59902412--59902796 Score: 619
Period size: 175 Copynumber: 2.2 Consensus size: 175
59902402 AATTTTTCGG
* * * * *
59902412 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCACTCTATTCCACTGTAATTTT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAACTCTATTCCACTGTAATCTC
* *
59902477 AGGGAGATAAGACCTGATGCGATCTACTCTACTCTAACTTCAGAGAGATAAGATCCTTTATTTTA
66 AAGGAGATAAGACCTGATGCAATCTACTCTACTCTAACTTCAGAGAGATAAGATCCTTTATTTTA
59902542 ATACGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAA
131 ATACGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAA
* * * *
59902587 TCTGCTCTGCTGTAATCTCAGAGAGATAAGATCTGAAATT-TTAAGGTCTATTCCACTGTAATCT
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAA-CTCTATTCCACTGTAATCT
* *
59902651 CAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTATTTT
65 CAAGGAGATAAGACCTGATGCAATCTACTCTACTCTAACTTCAGAGAGATAAGATCCTTTATTTT
* *
59902716 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
130 AATACGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAA
59902762 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTG
59902797 GAACTCTTCA
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
174 3 0.02
175 188 0.98
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (175 bp):
TCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTAACTCTATTCCACTGTAATCTC
AAGGAGATAAGACCTGATGCAATCTACTCTACTCTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATACGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAA
Found at i:59902702 original size:87 final size:85
Alignment explanation
Indices: 59902274--59902796 Score: 320
Period size: 92 Copynumber: 5.9 Consensus size: 85
59902264 AATTATTCGG
* * * ** * * *
59902274 TCTATTCCACTGTAATCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTATTCCACTGTAATCCC
1 TCTATTCCACTGTAATCTCAGGGAGATAAGACCTG--A---TGCAATCTACTCTACTGTAATCTC
* * **
59902339 AGGGAGATAAGATCTAAAATTCTTCGG
61 AGAGAGATAAGATCTGAAATT-TT-AA
* * * * ** * *
59902366 TCTATTCCACTGTAATCTTAGGGAGATAAAATCTGAAATTTTTCGGTCTATTCCACTGTAATCTC
1 TCTATTCCACTGTAATCTCAGGGAGATAAGACCTG--A---TGCAATCTACTCTACTGTAATCTC
* *
59902431 AGGGAGATAAGATCTGAAATTCTTCAC
61 AGAGAGATAAGATCTGAAATT-TT-AA
* * * *
59902458 TCTATTCCACTGTAATTTTAGGGAGATAAGACCTGATGCGATCTACTCTACTCTAA-CTTCAGAG
1 TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAATC-TCAGAG
**
59902522 AGATAAGATCCT-TTATTTTAA
65 AGATAAGAT-CTGAAATTTTAA
** * * * * *
59902543 TAC-GCTCCACTGTAATCTCAGGGAGAT-AGAATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
1 T-CTATTCCACTGTAATCTCAGGGAGATAAG-A--CCT-GATGCAATCTACTCTACTGTAATCTC
59902606 AGAGAGATAAGATCTGAAATTTTAA
61 AGAGAGATAAGATCTGAAATTTTAA
*
59902631 GGTCTATTCCACTGTAATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAA-CTTCAG
1 --TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAATC-TCAG
**
59902695 AGAGATAAGATTCT-TTATTTTAA
63 AGAGATAAGA-TCTGAAATTTTAA
*** * * * * **
59902718 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
1 TCTATTCCACTGTAATCTCAGGGAGATAAGA--CCT-GATGCAATCTACTCTACTGTAATCTCAG
*
59902783 GGAGATAAGATCTG
63 AGAGATAAGATCTG
59902797 GAACTCTTCA
Statistics
Matches: 359, Mismatches: 52, Indels: 44
0.79 0.11 0.10
Matches are distributed among these distances:
84 2 0.01
85 49 0.14
86 5 0.01
87 80 0.22
88 76 0.21
89 3 0.01
90 24 0.07
91 2 0.01
92 118 0.33
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (85 bp):
TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTAATCTCAGAGA
GATAAGATCTGAAATTTTAA
Found at i:59902744 original size:44 final size:44
Alignment explanation
Indices: 59902274--59902793 Score: 189
Period size: 46 Copynumber: 11.7 Consensus size: 44
59902264 AATTATTCGG
* * ** **
59902274 TCTATTCCACTGTAATCTCAGGGAGATAA-AATCTGAAATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCT-TTA-T-TTCAA
* * ** **
59902320 TCTATTCCACTGTAATCCCAGGGAGATAAGA-TCTAAAATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCT-TTA-T-TTCAA
* * * **
59902366 TCTATTCCACTGTAATCTTAGGGAGATAA-AATCTGAAATT-TTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCT----TTATTTCAA
* ** *
59902412 TCTATTCCACTGTAATCTCAGGGAGATAAGA-TCTGAAATTCTTCAC
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCT-TTA-T-TTCAA
* * * * * * *
59902458 TCTATTCCACTGTAATTTTAGGGAGATAAGA--CCTGA-TGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTCAA
* * * * *
59902499 TCTACTCTACTCTAA-CTTCAGAGAGATAAGATCCTTTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATTTCAA
* *
59902543 TAC-GCTCCACTGTAATCTCAGGGAGAT-AGAATTAC--TAGCTTCAA
1 T-CTACTCCACTGTAATCTCAGGGAGATAAG-ATT-CTTTA-TTTCAA
* ** * ** *
59902587 TCTGCTCTGCTGTAATCTCAGAGAGATAAGA-TCTGAAATTTTAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTCT-TTATTTCAA
* * * * *
59902631 GGTCTATTCCACTGTAATCTCAAGGAGATAAGA--CCTGA-TGCAA
1 --TCTACTCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTCAA
* * *
59902674 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATTCTTTATTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGATTCTTTATTTCAA
** * *
59902718 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC--TAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATT-CTTTA-TTTCAA
*
59902762 TCTACTCCGCTGTAATCTCAGGGAGATAAGAT
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT
59902794 CTGGAACTCT
Statistics
Matches: 368, Mismatches: 74, Indels: 66
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.00
41 51 0.14
42 1 0.00
43 17 0.05
44 117 0.32
45 12 0.03
46 165 0.45
47 3 0.01
49 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATTCTTTATTTCAA
Found at i:59905196 original size:23 final size:23
Alignment explanation
Indices: 59905138--59905198 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
59905128 TATAGAAATG
59905138 TATAATAAAATAAAATAATAATATC
1 TATAATAAAAT-AAA-AATAATATC
*
59905163 TA-AA-AACATAAAAA-AATATC
1 TATAATAAAATAAAAATAATATC
59905183 TTATAATAAAATAAAA
1 -TATAATAAAATAAAA
59905199 GGATCTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 6 0.19
21 4 0.13
22 5 0.16
23 12 0.39
24 2 0.06
25 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (23 bp):
TATAATAAAATAAAAATAATATC
Found at i:59905198 original size:20 final size:20
Alignment explanation
Indices: 59905146--59905213 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
59905136 TGTATAATAA
* *
59905146 AATAAAATAATAATATCTAAA
1 AATAAAATAA-AATATCTTAT
*
59905167 AACATAAA-AAAATATCTTAT
1 AATA-AAATAAAATATCTTAT
*
59905187 AATAAAATAAAAGGATCTATAT
1 AATAAAATAAAA-TATCT-TAT
59905209 AATAA
1 AATAA
59905214 GATTAAGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 3 0.08
20 15 0.39
21 9 0.24
22 11 0.29
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (20 bp):
AATAAAATAAAATATCTTAT
Found at i:59905288 original size:16 final size:16
Alignment explanation
Indices: 59905225--59905292 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
59905215 ATTAAGAGAA
*
59905225 AAAAATAATAA-AATAA
1 AAAAATAATAACAA-AT
* *
59905241 AAAAAGTAAAAGACTAAT
1 AAAAA-TAATA-ACAAAT
* *
59905259 AATAATAATGACAAAT
1 AAAAATAATAACAAAT
59905275 AAAAATAATAAC-AAT
1 AAAAATAATAACAAAT
59905290 AAA
1 AAA
59905293 TCAATTAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
15 6 0.15
16 20 0.50
17 7 0.17
18 6 0.15
19 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAATAATAACAAAT
Found at i:59906672 original size:50 final size:50
Alignment explanation
Indices: 59906616--59907176 Score: 403
Period size: 50 Copynumber: 11.2 Consensus size: 50
59906606 AACTCGCAAT
* ** * *
59906616 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCACCATTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
** * * * * **
59906666 TTTAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * *
59906716 TTTAACCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACTGATGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
** **** * * * *
59906766 TTTAATCTGTTCCACTGCACCACCTGGGAAGCAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * *
59906816 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACC-TATGTGGA
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGT-TGTGGC
* ** * * * * * * * * *
59906866 TTTAATCTATTCCACTGTACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * *
59906916 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * ** ** *
59906966 TTTAATCTGCTCT-ACTG-AACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
1 TTTAATCTG-TTTAACTGCAA-TGTCGGGGA-AGCAAGATTCACCGTTGTGGC
59907017 TTTAATCCT-TTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGC
1 TTTAAT-CTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * * * * ** * * * * *
59907066 TTTAATCTGCTTCACCGCATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
* * *
59907116 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGC
1 TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
59907166 TTTAATCTGTT
1 TTTAATCTGTT
59907177 CCACTGCACT
Statistics
Matches: 374, Mismatches: 127, Indels: 20
0.72 0.24 0.04
Matches are distributed among these distances:
48 2 0.01
49 35 0.09
50 302 0.81
51 31 0.08
52 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
TTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGTTGTGGC
Found at i:59906795 original size:100 final size:100
Alignment explanation
Indices: 59906616--59907188 Score: 693
Period size: 100 Copynumber: 5.7 Consensus size: 100
59906606 AACTCGCAAT
** ** *
59906616 TTTAATCTGCTTAACTGTGATGTCGGGGAAGCAAGATTCACC-ATTGTAGCTTTAATCTGTTCCA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCA
* *
59906680 CTGCACTGCCAGGGAAGTAAGATTTGCCGTTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * *
59906716 TTTAACCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
** * * *
59906781 TGCACCACCTGGGAAGCAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * * *
59906816 TTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCTATGTGGATTTAATCTATTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * * *
59906881 TGTACTGCCTGAGAAGTAAGATTCGCTGTTGTAGC
66 TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
* * * * * *
59906916 TTTAATCTTTTTAACTCCAATATCGGGGAAGCAATATTCACCGTTGTGGCTTTAATCTGCTCTAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
* * * * * *
59906981 TGAACTGGCTGAGAGAGTGAGATTCGTCGTTGTGAC
66 TGCACTGCCTGGGA-AGTAAGATTCGCCGTTGTGGC
* *
59907017 TTTAATCCTTTTAACTGCAATGTC-GGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTT-CA
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCA
* * ** * * *
59907080 CCGCATTGCCAAGGAAGTAACACTCGCCGCTGTGGC
65 CTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
*
59907116 TTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
1 TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
59907181 TGCACTGC
66 TGCACTGC
59907189 AGCGAAAATA
Statistics
Matches: 400, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
99 39 0.10
100 322 0.81
101 39 0.10
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (100 bp):
TTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCAC
TGCACTGCCTGGGAAGTAAGATTCGCCGTTGTGGC
Found at i:59907511 original size:44 final size:44
Alignment explanation
Indices: 59907449--59907687 Score: 147
Period size: 44 Copynumber: 5.5 Consensus size: 44
59907439 CGATCTACTT
*
59907449 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* * * * *
59907493 ACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
* ** *
59907537 GCTGTAATCTCAGGGAGATAAGAT-CTGAAATTTT--TCGGTCTATTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATTTTAATCCG-C---TCC
* * ** ** *
59907583 ACTGTAATCTCAAGGAGATAAGA-CC-TGA-TGCAATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
* *
59907624 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCT
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
*
59907668 ACTATAATCTCAGGGAGATA
1 ACTGTAATCTCAGGGAGATA
59907688 GGATTACTAG
Statistics
Matches: 147, Mismatches: 32, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
40 1 0.01
41 21 0.14
42 6 0.04
43 6 0.04
44 82 0.56
45 6 0.04
46 25 0.17
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATCCTTTATTTTAATCCGCTCC
Found at i:59907565 original size:174 final size:175
Alignment explanation
Indices: 59907350--59907748 Score: 656
Period size: 175 Copynumber: 2.3 Consensus size: 175
59907340 TTTGAAATTT
* * *
59907350 TTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTA
1 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTA
* * * *
59907415 ATTTCAGGGAGATCAGACCTGATGCGATCTACT-TACTGTAACTTCAGAGAGATAAGATCCTTTA
66 ATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
*
59907479 TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGC
131 TTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGC
* * *
59907524 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTATTCCACTGTA
1 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTA
59907589 ATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
66 ATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
*
59907654 TTTTAATCCGCTCTACTATAATCTCAGGGAGATAGGATTACTAGC
131 TTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGC
* * *
59907699 TTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTGGAACTCTTCA
1 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCA
59907749 CTGATCTATT
Statistics
Matches: 206, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
174 88 0.43
175 118 0.57
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (175 bp):
TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCAGTCTATTCCACTGTA
ATCTCAAGGAGATAAGACCTGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
TTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGC
Found at i:59907605 original size:46 final size:46
Alignment explanation
Indices: 59907196--59907610 Score: 399
Period size: 46 Copynumber: 9.2 Consensus size: 46
59907186 TGCAGCGAAA
* *
59907196 ATAAGATCTGTAATTCTTCGGTCTATTCCACTATAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59907242 ATAAAATCTAAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
59907288 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * *
59907334 ATAAAATTTGAAATTTTTCAGTCTATTCCACTGTAATCTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59907380 ATAAGATCTGAAATTCTTCAGTCTATTCCACTGTAATTTCAGGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * * *
59907426 ATCAGACCTG--A---TGCGATCTACTT--ACTGTAA-CTTCAGAGAG
1 ATAAGATCTGAAATTCTTCGGTCTA-TTCCACTGTAATC-TCAGGGAG
** ** ***
59907466 ATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAATCTCAGGGAG
1 ATAAGAT-CTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* * * ** ** *
59907510 ATAGGAT-T--ACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 ATAAGATCTGAAAT-TCTTCGGTCTATTCCACTGTAATCTCAGGGAG
* *
59907554 ATAAGATCTGAAATTTTTCGGTCTATTCCACTGTAATCTCAAGGAG
1 ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
*
59907600 ATAAGACCTGA
1 ATAAGATCTGA
59907611 TGCAATCTAC
Statistics
Matches: 307, Mismatches: 46, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
40 19 0.06
41 9 0.03
42 5 0.02
43 5 0.02
44 53 0.17
45 2 0.01
46 212 0.69
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (46 bp):
ATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAG
Found at i:59907721 original size:44 final size:44
Alignment explanation
Indices: 59907217--59907735 Score: 181
Period size: 46 Copynumber: 11.7 Consensus size: 44
59907207 AATTCTTCGG
* * * ** * **
59907217 TCTATTCCACTATAATCTCAGGGAGATAAAATCTAAAATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GCTTCAA
* * * **
59907263 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAA
* * * ** *
59907309 TCTATTCCACTGTAATCTCAGGGAGATAAAATTTGA-AATTTTTCAG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGA-TT-ACTA-GCTTCAA
* * * *
59907355 TCTATTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCAG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAA
* * * * * * *
59907401 TCTATTCCACTGTAATTTCAGGGAGATCAGA--CCT-GATGCGA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
* * * * *
59907442 TCTACT-TACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAA
** *
59907485 TCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
* * * ** **
59907529 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTCGG
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAA
* * * * *
59907575 TCTATTCCACTGTAATCTCAAGGAGATAAGA--CCT-GATGCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
* * * * *
59907616 TCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAA
1 TCTACTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAA
** * * *
59907660 TCCGCTCTACTATAATCTCAGGGAGATAGGATTACTAGCTTCAA
1 TCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
* *
59907704 TCTACTCCGCTGTAATCTCAGAGAGATAAGAT
1 TCTACTCCACTGTAATCTCAGGGAGATAAGAT
59907736 CTGGAACTCT
Statistics
Matches: 370, Mismatches: 76, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
40 20 0.05
41 34 0.09
42 2 0.01
43 11 0.03
44 111 0.30
45 5 0.01
46 185 0.50
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
TCTACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAA
Found at i:59909014 original size:21 final size:22
Alignment explanation
Indices: 59908972--59909014 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
59908962 TTAGCCTCTC
*
59908972 CATTTTTACGTTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
59908994 CATTTTT-CATTTTCATTTTTT
1 CATTTTTACATTTTCATTTTTT
59909015 TGACTCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (22 bp):
CATTTTTACATTTTCATTTTTT
Found at i:59914978 original size:21 final size:21
Alignment explanation
Indices: 59914925--59914993 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
59914915 TGTATAATAA
* * *
59914925 AATAAAATAATAATATCTAAA
1 AATAAAATAAAAATATCTTAT
*
59914946 AACATAAA-AAAAATATCTTAT
1 AATA-AAATAAAAATATCTTAT
**
59914967 AATAAAATAAAAGGATCTATAT
1 AATAAAATAAAAATATCT-TAT
59914989 AATAA
1 AATAA
59914994 GATTAGGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 3 0.08
21 24 0.63
22 11 0.29
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (21 bp):
AATAAAATAAAAATATCTTAT
Found at i:59915075 original size:19 final size:17
Alignment explanation
Indices: 59915005--59915073 Score: 54
Period size: 19 Copynumber: 3.9 Consensus size: 17
59914995 ATTAGGAGAA
59915005 AAAAATAATAAAATAA-
1 AAAAATAATAAAATAAT
*
59915021 AAAAATAA-AAGACTAAT
1 AAAAATAATAA-AATAAT
*
59915038 AATAATAATAATGACA-AAT
1 AAAAATAATAA--A-ATAAT
59915057 AAAAATAATAACAATAA
1 AAAAATAATAA-AATAA
59915074 ATCAATTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
15 2 0.05
16 12 0.29
17 8 0.19
18 5 0.12
19 15 0.36
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.20
Consensus pattern (17 bp):
AAAAATAATAAAATAAT
Found at i:59921782 original size:44 final size:44
Alignment explanation
Indices: 59921716--59922052 Score: 254
Period size: 44 Copynumber: 7.7 Consensus size: 44
59921706 TTCCTATACC
** *
59921716 CCTAAAGTTTTAGTGG-GTTAGATTGAAGCTACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAG-TAGATTGAAGCAACAAATCTTATCTT
* * *
59921760 CCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTATCTT
* * * * *
59921804 CTTGAAGTTGCAGTAGAGTAGATTG-AGACAACAAATCTTATATC
1 CCTAAAGTTGCAGTGGAGTAGATTGAAG-CAACAAATCTTATCTT
* * * * * * * *
59921848 CCTAAAATTGTAGTAGAGCAGACTGAAACAATAAATCTTAT-AT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTATCTT
* * * * *
59921891 CTCTAAAATTGCAGTGGAGCAGACTGATA-CAACGAATCTTAACTT
1 C-CTAAAGTTGCAGTGGAGTAGATTGA-AGCAACAAATCTTATCTT
* * * *
59921936 CCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCTTCTCTT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTATCTT
* * * * * * *
59921980 CCTGAAGTTGCAGTGGAGCAAATTGAAGCGATAAATCCTATACCT
1 CCTAAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTAT-CTT
*
59922025 -CTAAAGTTGCAGTGG-GTTAGAATGAAGC
1 CCTAAAGTTGCAGTGGAG-TAGATTGAAGC
59922053 TACTTGAAAA
Statistics
Matches: 237, Mismatches: 47, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
43 4 0.02
44 227 0.96
45 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (44 bp):
CCTAAAGTTGCAGTGGAGTAGATTGAAGCAACAAATCTTATCTT
Found at i:59921844 original size:88 final size:88
Alignment explanation
Indices: 59921746--59921999 Score: 285
Period size: 88 Copynumber: 2.9 Consensus size: 88
59921736 GATTGAAGCT
*
59921746 ACAAATCTTATCTTCCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTTATCTTCTTGAAG
1 ACAAATCTTATCTTCCTAAAGTTGTAGTGGAGTAGATTGAAACAACAAATCTTATCTTCTTGAAG
* *
59921811 TTGCAGTAGAGTAGATTGAGACA
66 TTGCAGTAGAGCAGACTGAGACA
* * * * * * * * *
59921834 ACAAATCTTATATCCCTAAAATTGTAGTAGAGCAGACTGAAACAATAAATCTTAT-ATCTCTAAA
1 ACAAATCTTATCTTCCTAAAGTTGTAGTGGAGTAGATTGAAACAACAAATCTTATCTTCT-TGAA
* * *
59921898 ATTGCAGTGGAGCAGACTGATACA
65 GTTGCAGTAGAGCAGACTGAGACA
* * * * * * *
59921922 ACGAATCTTAACTTCCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCTTCTCTTCCTGAAG
1 ACAAATCTTATCTTCCTAAAGTTGTAGTGGAGTAGATTGAAACAACAAATCTTATCTTCTTGAAG
*
59921987 TTGCAGTGGAGCA
66 TTGCAGTAGAGCA
59922000 AATTGAAGCG
Statistics
Matches: 132, Mismatches: 32, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
87 3 0.02
88 127 0.96
89 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (88 bp):
ACAAATCTTATCTTCCTAAAGTTGTAGTGGAGTAGATTGAAACAACAAATCTTATCTTCTTGAAG
TTGCAGTAGAGCAGACTGAGACA
Found at i:59921955 original size:132 final size:132
Alignment explanation
Indices: 59921787--59922039 Score: 326
Period size: 132 Copynumber: 1.9 Consensus size: 132
59921777 ATAGATTGAA
* * *
59921787 ACAACAAATCTTATCTTCTTGAAGTTGCAGTAGAGTAGATTGAGACAACAAATCTTATATCCCTA
1 ACAACAAATCTTAACTTCCTGAAGTTGCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTA
* * * *
59921852 AAATTGTAGTAGAGCAGACTGAAACAATAAATCTTATATCTCTAAAATTGCAGTGGAGCAGACTG
66 AAATTGCAGTAGAGCAAACTGAAACAATAAATCCTATACCTCTAAAATTGCAGTGGAGCAGACTG
59921917 AT
131 AT
* * * * * * *
59921919 ACAACGAATCTTAACTTCCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCTTCTCTTCCTG
1 ACAACAAATCTTAACTTCCTGAAGTTGCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTA
* * * * * *
59921984 AAGTTGCAGTGGAGCAAATTGAAGCGATAAATCCTATACCTCTAAAGTTGCAGTGG
66 AAATTGCAGTAGAGCAAACTGAAACAATAAATCCTATACCTCTAAAATTGCAGTGG
59922040 GTTAGAATGA
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
132 101 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (132 bp):
ACAACAAATCTTAACTTCCTGAAGTTGCAGTAGAGTAGATTGAAACAACAAATCTTATATCCCTA
AAATTGCAGTAGAGCAAACTGAAACAATAAATCCTATACCTCTAAAATTGCAGTGGAGCAGACTG
AT
Found at i:59922032 original size:88 final size:88
Alignment explanation
Indices: 59921735--59922039 Score: 280
Period size: 88 Copynumber: 3.5 Consensus size: 88
59921725 TTAGTGGGTT
* * * *
59921735 AGATTGAAGCTACAAATCTTAT-CTTCCTAAAGTTGTAGTGGAATAGATTGAAACAACAAATCTT
1 AGATTGAAGCAACAAATCTTATACCT-CTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTT
* * *
59921799 ATCTTCTTGAAGTTGCAGTAGAGT
65 ATCTTCCTGAAGTTGCAGTGGAGC
* * * * * *
59921823 AGATTG-AGACAACAAATCTTATATCC-CTAAAATTGTAGTAGAGCAGACTGAAACAATAAATCT
1 AGATTGAAG-CAACAAATCTTATA-CCTCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCT
* * *
59921886 TAT-ATCTCTAAAATTGCAGTGGAGC
64 TATCTTC-CTGAAGTTGCAGTGGAGC
* * * * *
59921911 AGACTGATA-CAACGAATCTTA-ACTTCCTGAAGTTGCAGTGGAGTAGATTGAAACAACGAATCT
1 AGATTGA-AGCAACAAATCTTATACCT-CTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCT
*
59921974 TCTCTTCCTGAAGTTGCAGTGGAGC
64 TATCTTCCTGAAGTTGCAGTGGAGC
* * * *
59921999 AAATTGAAGCGATAAATCCTATACCTCTAAAGTTGCAGTGG
1 AGATTGAAGCAACAAATCTTATACCTCTAAAGTTGCAGTGG
59922040 GTTAGAATGA
Statistics
Matches: 169, Mismatches: 37, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
86 1 0.01
87 6 0.04
88 155 0.92
89 5 0.03
90 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (88 bp):
AGATTGAAGCAACAAATCTTATACCTCTAAAGTTGCAGTGGAGTAGATTGAAACAACAAATCTTA
TCTTCCTGAAGTTGCAGTGGAGC
Found at i:59923023 original size:31 final size:30
Alignment explanation
Indices: 59922982--59923045 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
59922972 ATTTCACAAT
*
59922982 AAAAAAAAAGGAGAAAAGGTTTTTTTTAAA
1 AAAAAAAAAGGAGAAAAGATTTTTTTTAAA
* * *
59923012 AAAAAACAAAGGGGAAATGATTTTTTTTGAA
1 AAAAAA-AAAGGAGAAAAGATTTTTTTTAAA
59923043 AAA
1 AAA
59923046 TTATTAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.55, C:0.02, G:0.17, T:0.27
Consensus pattern (30 bp):
AAAAAAAAAGGAGAAAAGATTTTTTTTAAA
Found at i:59923495 original size:4 final size:4
Alignment explanation
Indices: 59923486--59923515 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
59923476 AATTGTTCTT
*
59923486 TTTA TTTA TTTA TTTA TTTA CTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
59923516 ATTCCTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:59925554 original size:20 final size:20
Alignment explanation
Indices: 59925529--59925568 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59925519 CGTAAAATGA
*
59925529 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
59925549 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
59925569 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:59925558 original size:34 final size:35
Alignment explanation
Indices: 59925514--59925580 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
59925504 CAGTAAAATA
*
59925514 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
59925548 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
59925581 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:59925584 original size:14 final size:15
Alignment explanation
Indices: 59925508--59925584 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
59925498 GATTGCCAGT
* *
59925508 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
59925522 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
59925536 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
59925556 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
59925571 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
59925585 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:59937707 original size:21 final size:21
Alignment explanation
Indices: 59937664--59937707 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59937654 CTGGAGTTTA
*
59937664 TAATTAATATTTAATAATATT
1 TAATTAATATTTAACAATATT
*
59937685 TAATTAAT-TTGTAACAATGTT
1 TAATTAATATT-TAACAATATT
59937706 TA
1 TA
59937708 CTTTCTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTAATATTTAACAATATT
Found at i:59941534 original size:28 final size:28
Alignment explanation
Indices: 59941501--59941561 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
59941491 AATCCTATAA
59941501 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
59941529 AAGTTGAATTTCTAGTCTGCACATGATT
1 AAGTTGAATTTCTAGTCTGCACATGATT
59941557 AAGTT
1 AAGTT
59941562 TGTTGATCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (28 bp):
AAGTTGAATTTCTAGTCTGCACATGATT
Found at i:59943456 original size:6 final size:6
Alignment explanation
Indices: 59943445--59943470 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59943435 CTCGGCTCTG
59943445 GGTACT GGTACT GGTACT GGTACT GG
1 GGTACT GGTACT GGTACT GGTACT GG
59943471 ATACCCACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (6 bp):
GGTACT
Found at i:59944438 original size:22 final size:20
Alignment explanation
Indices: 59944412--59944451 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
59944402 ATTAAAAATA
59944412 AAATAAGAGTTATACAATATCC
1 AAATAAGAG-TA-ACAATATCC
*
59944434 AAATAATAGTAACAATAT
1 AAATAAGAGTAACAATAT
59944452 AGTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (20 bp):
AAATAAGAGTAACAATATCC
Found at i:59944511 original size:22 final size:23
Alignment explanation
Indices: 59944467--59944511 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
59944457 TAATATAATA
* *
59944467 ACAAAATGACCAATAAAACAGTG
1 ACAAAATGAACAACAAAACAGTG
*
59944490 ACAAAAT-AACAACAAAATAGTG
1 ACAAAATGAACAACAAAACAGTG
59944512 GAAATAGCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (23 bp):
ACAAAATGAACAACAAAACAGTG
Found at i:59946755 original size:20 final size:19
Alignment explanation
Indices: 59946718--59946756 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
59946708 AATTTTAAAA
* *
59946718 TATTTTTAAAGTACTTTTT
1 TATTTTTAAAATAATTTTT
59946737 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
59946757 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Done.