Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 40 of 290
Found at i:13421335 original size:27 final size:27
Alignment explanation
Indices: 13421300--13421369 Score: 124
Period size: 26 Copynumber: 2.6 Consensus size: 27
13421290 TTAGTTTACC
*
13421300 AAATTACCAAAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
13421327 AAATTACCAAAATA-CCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
13421353 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
13421370 CTGTAGGGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 25 0.61
27 16 0.39
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGCA
Found at i:13421423 original size:54 final size:54
Alignment explanation
Indices: 13421354--13421548 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
13421344 CGATTAGCAA
* *
13421354 AATTACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* *
13421408 AATTACCGGAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* * * * * **
13421462 AATTATCGAAATACCCTTGTAGGGTAGAAATATTGAAATACCCCTGTATTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
* *
13421516 AATTACCGAGATA-CCCTAGTAGGGTAAAATTAC
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTAC
13421549 CATTTTGCCC
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.02
54 119 0.98
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAAGGTAG
Found at i:13421549 original size:27 final size:27
Alignment explanation
Indices: 13421354--13421549 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
13421344 CGATTAGCAA
*
13421354 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
13421381 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13421408 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
13421435 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13421462 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** **
13421489 AAATATTGAAATACCCCTGTATTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13421516 AATTACCGAGATA-CCCTAGTAGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
13421543 AATTACC
1 AATTACC
13421550 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.03
27 137 0.97
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13422318 original size:27 final size:26
Alignment explanation
Indices: 13422266--13422324 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
13422256 CCACATATAT
*
13422266 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
13422292 ATATCTGTATCTGGTGACTTTGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
13422319 ATATCT
1 ATATCT
13422325 AGTAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:13425506 original size:38 final size:38
Alignment explanation
Indices: 13425463--13425791 Score: 243
Period size: 38 Copynumber: 7.9 Consensus size: 38
13425453 TTTCAAATTA
13425463 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
*
13425501 ACATGT-TGAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTAT-AACCATGGCATATCCACTTAGCACCACG-T--T
*
13425542 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
*
13425586 ACATGT-TGAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTAT-AACCATGGCATATCCACTTAGCACCACG-T--T
*
13425627 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* * * *
13425671 ACGTGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
*
13425709 ACATGTATCAA-TATGAGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTAT-AACCATG-G----C-----ATATCCACTTAGCACCACGTT
* *
13425757 ACACGTATAA-CAGTGGTATATCCACTTAGCACCAC
1 ACATGTATAACCA-TGGCATATCCACTTAGCACCAC
13425792 TTTTTTTTTT
Statistics
Matches: 237, Mismatches: 20, Indels: 68
0.73 0.06 0.21
Matches are distributed among these distances:
37 2 0.01
38 115 0.49
39 5 0.02
40 5 0.02
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 2 0.01
47 58 0.24
48 32 0.14
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:13425562 original size:85 final size:85
Alignment explanation
Indices: 13425470--13425791 Score: 515
Period size: 85 Copynumber: 3.8 Consensus size: 85
13425460 TTAACATGTA
13425470 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
13425535 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
13425555 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
13425620 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
* * *
13425640 TAACCATGGCATATCCACTTAGCACCACGTTACGTGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
*
13425705 CGTTACATGTATCAATATGA-G
66 CGTTA-ATGAATCAATAT-ATG
* * * *
13425726 TAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT-AA-CAGTGGTATATCCACTTAGCAC
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGT-TGAACCA-TGGTATATCCACTTAGCAC
13425789 CAC
64 CAC
13425792 TTTTTTTTTT
Statistics
Matches: 223, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
85 153 0.69
86 68 0.30
87 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (85 bp):
TAACCATGGCATATCCACTTAGCACCACGTTACATGTTGAACCATGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:13425563 original size:47 final size:46
Alignment explanation
Indices: 13425509--13425757 Score: 262
Period size: 38 Copynumber: 5.7 Consensus size: 46
13425499 TTACATGTTG
13425509 AACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGT
1 AACCATGGTATATCCACTTAGCACCACGTTAATG-ATCAATATATGT
* *
13425556 AACCATGGCATATCCACTTAGCACCACG-T--T-A-C-ATGT-TG-
1 AACCATGGTATATCCACTTAGCACCACGTTAATGATCAATATATGT
13425594 AACCATGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGT
1 AACCATGGTATATCCACTTAGCACCACGTTAATG-ATCAATATATGT
* * *
13425641 AACCATGGCATATCCACTTAGCACCACG-T--T-A-C-GTGT-T-T
1 AACCATGGTATATCCACTTAGCACCACGTTAATGATCAATATATGT
*
13425679 AACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGA-GT
1 AACCATGGTATATCCACTTAGCACCACGTTA-ATG-ATCAATAT-ATGT
* *
13425727 AATCGTGGTATATCCACTTAGCACCACGTTA
1 AACCATGGTATATCCACTTAGCACCACGTTA
13425758 CACGTATAAC
Statistics
Matches: 170, Mismatches: 12, Indels: 39
0.77 0.05 0.18
Matches are distributed among these distances:
38 54 0.32
39 5 0.03
40 5 0.03
41 3 0.02
42 3 0.02
43 1 0.01
44 4 0.02
45 4 0.02
46 6 0.04
47 54 0.32
48 31 0.18
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (46 bp):
AACCATGGTATATCCACTTAGCACCACGTTAATGATCAATATATGT
Found at i:13429621 original size:30 final size:30
Alignment explanation
Indices: 13429575--13429635 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13429565 TTCCCGAGCC
13429575 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
* * * * *
13429605 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGAGCAAAAGTGTAAATATGCAAAAGTT
13429635 T
1 T
13429636 GAGTAAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGAGCAAAAGTGTAAATATGCAAAAGTT
Found at i:13440756 original size:13 final size:13
Alignment explanation
Indices: 13440738--13440779 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
13440728 CCTGCCAAAT
13440738 TGACATGACCGTG
1 TGACATGACCGTG
13440751 TGACATGACCGTG
1 TGACATGACCGTG
* *
13440764 TGACACGCCCGTG
1 TGACATGACCGTG
13440777 TGA
1 TGA
13440780 GGAAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.21
Consensus pattern (13 bp):
TGACATGACCGTG
Found at i:13442920 original size:55 final size:55
Alignment explanation
Indices: 13442836--13442979 Score: 155
Period size: 55 Copynumber: 2.6 Consensus size: 55
13442826 TGTATGAAGG
** ** **
13442836 CACACGCCCGTGTTAAATTGACAGGTTTGCCCATGGTTTCAAAACACAGGCGTGT
1 CACACGCCCGTGTTATTTTGGTAGGTTTGCCCACAGTTTCAAAACACAGGCGTGT
* ** *
13442891 CACACGCCCGTGTTATTTTGGTAGTTTTGCCCACAGTTTCAAGGCACCGGCGTGT
1 CACACGCCCGTGTTATTTTGGTAGGTTTGCCCACAGTTTCAAAACACAGGCGTGT
* * *
13442946 CGAC-CACCCGTGTTGTTTTGGTAGGTTCGCCCAC
1 C-ACACGCCCGTGTTATTTTGGTAGGTTTGCCCAC
13442980 GGCCATGTCG
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
55 72 0.97
56 2 0.03
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (55 bp):
CACACGCCCGTGTTATTTTGGTAGGTTTGCCCACAGTTTCAAAACACAGGCGTGT
Found at i:13447598 original size:40 final size:40
Alignment explanation
Indices: 13447450--13447661 Score: 216
Period size: 40 Copynumber: 5.3 Consensus size: 40
13447440 CATTTGAATG
* * *
13447450 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* * * * * *
13447490 TTATCTGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
13447530 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* *
13447570 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATT
* * ** *
13447610 ATA-CTCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
13447650 ATATCC-GGCTAA
1 ATATCCGGGCTAA
13447662 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 8 0.05
40 138 0.92
41 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:13451465 original size:27 final size:27
Alignment explanation
Indices: 13451435--13451538 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 27
13451425 AATCTCATGT
* *
13451435 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
13451462 CTGTAGGATAG-A--A-TGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
13451485 CTGTAGGGTAGAATTACTGAAATGCCT
1 CTGTAGGGTAGAATTACTGAAATACCC
*
13451512 TTGTAGGGTAGAATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
13451539 TCGATTAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
23 20 0.30
24 2 0.03
26 2 0.03
27 42 0.64
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:13451482 original size:23 final size:23
Alignment explanation
Indices: 13451452--13451498 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13451442 CTAGTATTAC
13451452 TGAAATACCCCTGTAGGATAGAA
1 TGAAATACCCCTGTAGGATAGAA
*
13451475 TGAAATACCCCTGTAGGGTAGAA
1 TGAAATACCCCTGTAGGATAGAA
13451498 T
1 T
13451499 TACTGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (23 bp):
TGAAATACCCCTGTAGGATAGAA
Found at i:13451553 original size:27 final size:26
Alignment explanation
Indices: 13451523--13451971 Score: 287
Period size: 27 Copynumber: 16.7 Consensus size: 26
13451513 TGTAGGGTAG
* *
13451523 AATTACTGAAATACCCTCGATTAGCAA
1 AATTACCGAAATACCCTCGATT-GTAA
* * *
13451550 AATTACCAAAATACCC-CTAATTTTTAA
1 AATTACCGAAATACCCTC-GA-TTGTAA
*
13451577 AATTACCGAAATACCCTCGATTAGCAA
1 AATTACCGAAATACCCTCGATT-GTAA
* * *
13451604 AATTACCAAAATACCCTTGATTTGTGA
1 AATTACCGAAATACCCTCGA-TTGTAA
* * *
13451631 AATTATCAAAATACCCTCAAATTGTAA
1 AATTACCGAAATACCCTC-GATTGTAA
* *
13451658 AATTACTGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTCGA-TTGTAA
* * *
13451685 AATTA-CTAGAATACCCTCGACCTATAA
1 AATTACCGA-AATACCCTCGA-TTGTAA
* *
13451712 AATTACCGAAATACCCTCAACCTGTAA
1 AATTACCGAAATACCCTCGA-TTGTAA
* * * **
13451739 AACTACCAAAATACCATCGACCAGTAA
1 AATTACCGAAATACCCTCGA-TTGTAA
* *
13451766 AATTATCGAAATACCCTCGCCTTGTAA
1 AATTACCGAAATACCCTCG-ATTGTAA
** *
13451793 AATTATAGAAATTCCCTCGACTTGTAA
1 AATTACCGAAATACCCTCGA-TTGTAA
**
13451820 AATTATTGAAATACCCTCGACTTG-AA
1 AATTACCGAAATACCCTCGA-TTGTAA
**
13451846 AACTTACCGAAATACTATCGATTTGTAA
1 AA-TTACCGAAATACCCTCGA-TTGTAA
* ** *
13451874 AGTTACCGAAATACCCTTAATTTGAAA
1 AATTACCGAAATACCCTCGA-TTGTAA
** *
13451901 AATTACCGAAATACCCTTAATTTGGAA
1 AATTACCGAAATACCCTCGA-TTGTAA
**
13451928 AATTATAGAAATACCC-CTGATT-TACAA
1 AATTACCGAAATACCCTC-GATTGT--AA
*
13451955 AATTACAGAAATACCCT
1 AATTACCGAAATACCCT
13451972 TGACTTTCAA
Statistics
Matches: 341, Mismatches: 64, Indels: 33
0.78 0.15 0.08
Matches are distributed among these distances:
26 12 0.04
27 318 0.93
28 11 0.03
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
AATTACCGAAATACCCTCGATTGTAA
Found at i:13451950 original size:81 final size:81
Alignment explanation
Indices: 13451530--13451971 Score: 356
Period size: 81 Copynumber: 5.5 Consensus size: 81
13451520 TAGAATTACT
* * * *
13451530 GAAATACCCTCGATTAGCAAAATTACCAAAATACCC-CTAATTTTTAAAATTACCGAAATACCCT
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-AATTTGTAAAATTACCGAAATACCCT
* *
13451594 CGA-TTAGCAAAATTACCA
65 CGACTT-GGAAAATTA-TA
* * * * * *
13451612 -AAATACCCTTGATTTGTGAAATTATCAAAATACCCTCAAATTGTAAAATTACTGAAATACCCTC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC
* *
13451676 AACTTGTAAAATTACTA
66 GACTTGGAAAATTA-TA
** * ** * * *
13451693 G-AATACCCTCGACCTATAAAATTACCGAAATACCCTCAACCTGTAAAACTACCAAAATACCATC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC
** * *
13451757 GACCAGTAAAATTATC
66 GACTTGGAAAATTATA
** ** * * * **
13451773 GAAATACCCTCGCCTTGTAAAATTATAGAAATTCCCTCGACTTGTAAAATTATTGAAATACCCTC
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC
**
13451838 GACTT-GAAAACTTACC
66 GACTTGGAAAA-TTATA
** * * * *
13451854 GAAATACTATCGATTTGTAAAGTTACCGAAATACCCTTAATTTGAAAAATTACCGAAATACCCTT
1 GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC
* *
13451919 AATTTGGAAAATTATA
66 GACTTGGAAAATTATA
** *
13451935 GAAATACCC-CTGATTTACAAAATTACAGAAATACCCT
1 GAAATACCCTC-GATTTGTAAAATTACCGAAATACCCT
13451972 TGACTTTCAA
Statistics
Matches: 283, Mismatches: 70, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
80 7 0.02
81 268 0.95
82 8 0.03
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC
GACTTGGAAAATTATA
Found at i:13452012 original size:55 final size:55
Alignment explanation
Indices: 13451893--13452028 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
13451883 AATACCCTTA
* ** *
13451893 ATTTGAAAAATTACCGAAATACCCTT-AATTTGGAAAATTATAGAAATACCCCTG
1 ATTTGAAAAATTACAGAAATACCCTTGAATTTCAAAAATTATAGAAATACCACTG
* *
13451947 ATTT-ACAAAATTACAGAAATACCCTTGACTTTCAAAAATTATAGAAATACCATTG
1 ATTTGA-AAAATTACAGAAATACCCTTGAATTTCAAAAATTATAGAAATACCACTG
* * *
13452002 GTTTGTAAAATTA-ACGAAACACCCTTG
1 ATTTGAAAAATTACA-GAAATACCCTTG
13452029 GTTCGTAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
53 1 0.01
54 24 0.35
55 44 0.64
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (55 bp):
ATTTGAAAAATTACAGAAATACCCTTGAATTTCAAAAATTATAGAAATACCACTG
Found at i:13452031 original size:27 final size:27
Alignment explanation
Indices: 13451530--13452028 Score: 168
Period size: 27 Copynumber: 18.4 Consensus size: 27
13451520 TAGAATTACT
* * * *
13451530 GAAATACCCTCGATTAGCAAAATTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* * * ** *
13451557 AAAATACCCCTAATTTTTAAAATTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* * * *
13451584 GAAATACCCTCGATTAGCAAAATTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* ** *
13451611 AAAATACCCTTGATTTGTGAAATTATC
1 GAAATACCCTTGATTTGAAAAATTAAC
* ** * *
13451638 AAAATACCCTCAAATTGTAAAATT-AC
1 GAAATACCCTTGATTTGAAAAATTAAC
** * *
13451664 TGAAATACCCTCAACTTGTAAAATT-AC
1 -GAAATACCCTTGATTTGAAAAATTAAC
* * ** *
13451691 TAGAATACCCTCGACCT-ATAAAATTACC
1 GA-AATACCCTTGATTTGA-AAAATTAAC
** ** * * *
13451719 GAAATACCCTCAACCTGTAAAACTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* * * *** * *
13451746 AAAATACCATCGACCAGTAAAATTATC
1 GAAATACCCTTGATTTGAAAAATTAAC
* ** *
13451773 GAAATACCCTCGCCTTGTAAAATTATA-
1 GAAATACCCTTGATTTGAAAAATTA-AC
* * * * **
13451800 GAAATTCCCTCGACTTGTAAAATTATT
1 GAAATACCCTTGATTTGAAAAATTAAC
* * * *
13451827 GAAATACCCTCGACTTGAAAACTTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
** * * * *
13451854 GAAATACTATCGATTTGTAAAGTTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* *
13451881 GAAATACCCTTAATTTGAAAAATTACC
1 GAAATACCCTTGATTTGAAAAATTAAC
* *
13451908 GAAATACCCTTAATTTGGAAAATTATA-
1 GAAATACCCTTGATTTGAAAAATTA-AC
*
13451935 GAAATACCCCTGATTT-ACAAAATT-AC
1 GAAATACCCTTGATTTGA-AAAATTAAC
*
13451961 AGAAATACCCTTGACTTTCAAAAATTATA-
1 -GAAATACCCTTGA-TTTGAAAAATTA-AC
* * *
13451990 GAAATACCATTGGTTTGTAAAATTAAC
1 GAAATACCCTTGATTTGAAAAATTAAC
*
13452017 GAAACACCCTTG
1 GAAATACCCTTG
13452029 GTTCGTAGAT
Statistics
Matches: 377, Mismatches: 79, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
27 349 0.93
28 22 0.06
29 1 0.00
30 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
GAAATACCCTTGATTTGAAAAATTAAC
Found at i:13452342 original size:41 final size:41
Alignment explanation
Indices: 13452292--13452369 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
13452282 CGGAGGAAGA
*
13452292 AATTGAGGATCGCATGGTTCCTTGACGATCGTGGATCCACC
1 AATTAAGGATCGCATGGTTCCTTGACGATCGTGGATCCACC
* *
13452333 AATTAAGGATTGCATGGTTGCTTGACGATCGTGGATC
1 AATTAAGGATCGCATGGTTCCTTGACGATCGTGGATC
13452370 AACTGGTGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (41 bp):
AATTAAGGATCGCATGGTTCCTTGACGATCGTGGATCCACC
Found at i:13452569 original size:22 final size:22
Alignment explanation
Indices: 13452515--13452580 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
13452505 AGTCAATTAT
*
13452515 CCTGATTATGGCTTTGTGCCAA
1 CCTGATTATGGCTCTGTGCCAA
**
13452537 CCT-ACACATGGCTCTGTGCCAA
1 CCTGA-TTATGGCTCTGTGCCAA
*
13452559 CCTGATTATGGCTGTGTGCCAA
1 CCTGATTATGGCTCTGTGCCAA
13452581 ACGTATTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (22 bp):
CCTGATTATGGCTCTGTGCCAA
Found at i:13453309 original size:27 final size:26
Alignment explanation
Indices: 13453279--13453343 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
13453269 TAGGGTAAAA
13453279 TGAAATATCCCTGAAAGGTAGAATTAC
1 TGAAATA-CCCTGAAAGGTAGAATTAC
* * *
13453306 TGAAATGCCCTTGTAGGGTAGAATTAC
1 TGAAATACCC-TGAAAGGTAGAATTAC
13453333 TGAAATACCCT
1 TGAAATACCCT
13453344 CGATTAGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (26 bp):
TGAAATACCCTGAAAGGTAGAATTAC
Found at i:13453412 original size:81 final size:79
Alignment explanation
Indices: 13453327--13453722 Score: 286
Period size: 81 Copynumber: 4.9 Consensus size: 79
13453317 TGTAGGGTAG
* *
13453327 AATTACTGAAATACCCTCGA-TTAGCAAAATTACCAAAATATCCTTGATTTGTGAAATTATCGAA
1 AATTACTGAAATACCCTCGACTT-GTAAAATTACCAAAATA-CCTTGATTTGTAAAATTATCGAA
13453391 ATACCCTCAACTAGTAA
64 ATACCCTCAACT-GTAA
* * ***
13453408 AATTACTGAAATACCCTCGACTTGTAAAACTACCAAAATACCATCGACCAGTAAAATTATCGAAA
1 AATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACC-TTGATTTGTAAAATTATCGAAA
**
13453473 TACCCTCGTCCTGTAA
65 TACCCTC-AACTGTAA
* * * * *
13453489 AATTA-TCGAAATTCCCTCGACTTGTAAAATTATCGAAATACCCTTGACTTT-TAAAATTACCAA
1 AATTACT-GAAATACCCTCGACTTGTAAAATTACCAAAATA-CCTTGA-TTTGTAAAATTATCGA
* **
13453552 AATACTCTCGATTTGTAA
63 AATACCCTC-AACTGTAA
* ** * * * * * *
13453570 AGTTACCT-AAATACCCTTAATTTGGAAAATTTCCAAAATACACTTAATTTGGAAAATTATAGAA
1 AATTA-CTGAAATACCCTCGACTTGTAAAATTACCAAAATAC-CTTGATTTGTAAAATTATCGAA
*
13453634 ATACCC-CTAA-TTTACAA
64 ATACCCTC-AACTGT--AA
* * * *
13453651 AATTA-TAGAAATACCCTTGACTTTTAAAAATTA-CAGAAATACCATTGGTTTGTAAAATTACCG
1 AATTACT-GAAATACCCTCGACTTGT-AAAATTACCA-AAATACC-TTGATTTGTAAAATTATCG
*
13453714 AAACACCCT
62 AAATACCCT
13453723 TGGTTCGTAG
Statistics
Matches: 244, Mismatches: 53, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
79 3 0.01
80 9 0.04
81 192 0.79
82 39 0.16
83 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (79 bp):
AATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCTTGATTTGTAAAATTATCGAAAT
ACCCTCAACTGTAA
Found at i:13453420 original size:54 final size:54
Alignment explanation
Indices: 13453334--13453722 Score: 232
Period size: 54 Copynumber: 7.2 Consensus size: 54
13453324 TAGAATTACT
* * * * * * *
13453334 GAAATACCCTCGATTAGCAAAATTACCAAAATATCCTTGATTTGTGAAATTATC
1 GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATC
* * * *
13453388 GAAATACCCTCAACTAGTAAAATTA-CTGAAATACCCTCGACTTGTAAAACTACC
1 GAAATACCCTCGACTAGTAAAATTATC-GAAATACCCTCGATTTGTAAAATTATC
* * * *
13453442 AAAATACCATCGACCAGTAAAATTATCGAAATACCCTCG-TCCTGTAAAATTATC
1 GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTCGAT-TTGTAAAATTATC
* * * *
13453496 GAAATTCCCTCGACTTGTAAAATTATCGAAATACCCTTGACTTT-TAAAATTACC
1 GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTCGA-TTTGTAAAATTATC
* * * * * * * ** *
13453550 AAAATACTCTCGATTTGTAAAGTTACCTAAATACCCTTAATTTGGAAAATT-TCC
1 GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTCGATTTGTAAAATTAT-C
* * ** * * * * * ** *
13453604 AAAATACACTTAATTTGGAAAATTATAGAAATACCC-CTAATTTACAAAATTATA
1 GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTC-GATTTGTAAAATTATC
* ** * * * *
13453658 GAAATACCCTTGACTTTTAAAAATTA-CAGAAATACCATTGGTTTGTAAAATTACC
1 GAAATACCCTCGACTAGT-AAAATTATC-GAAATACCCTCGATTTGTAAAATTATC
*
13453713 GAAACACCCT
1 GAAATACCCT
13453723 TGGTTCGTAG
Statistics
Matches: 259, Mismatches: 64, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
53 4 0.02
54 217 0.84
55 37 0.14
56 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
GAAATACCCTCGACTAGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATC
Found at i:13453592 original size:27 final size:27
Alignment explanation
Indices: 13453352--13453723 Score: 153
Period size: 27 Copynumber: 13.7 Consensus size: 27
13453342 CTCGATTAGC
* *
13453352 AAAATTACCAAAATATCCTTGATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * * * * *
13453379 GAAATTATCGAAATACCCTCAACTAGT
1 AAAATTACCAAAATACCCTTAATTTGT
** ** *
13453406 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * ** ***
13453433 AAAACTACCAAAATACCATCGACCAGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * ** *
13453460 AAAATTATCGAAATACCC-TCGTCCTGT
1 AAAATTACCAAAATACCCTTAAT-TTGT
* * * ** *
13453487 AAAATTATCGAAATTCCCTCGACTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
13453514 AAAATTATCGAAATACCCTTGACTTT-T
1 AAAATTACCAAAATACCCTT-AATTTGT
* **
13453541 AAAATTACCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
13453568 AAAGTTACCTAAATACCCTTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
13453595 AAAATTTCCAAAATACACTTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * **
13453622 AAAATTA-TAGAAATACCCCTAATTTAC
1 AAAATTACCA-AAATACCCTTAATTTGT
* *
13453649 AAAATTA-TAGAAATACCCTTGACTTT-T
1 AAAATTACCA-AAATACCCTT-AATTTGT
* **
13453676 AAAAATTA-CAGAAATACCATTGGTTTGT
1 -AAAATTACCA-AAATACCCTTAATTTGT
* *
13453704 AAAATTACCGAAACACCCTT
1 AAAATTACCAAAATACCCTT
13453724 GGTTCGTAGA
Statistics
Matches: 265, Mismatches: 71, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
26 4 0.02
27 235 0.89
28 26 0.10
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:13453725 original size:27 final size:27
Alignment explanation
Indices: 13453677--13453751 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
13453667 TTGACTTTTA
* * * *
13453677 AAAATTACAGAAATACCATTGGTTTGT
1 AAAATTACCGAAACACCCTTGGTTCGT
13453704 AAAATTACCGAAACACCCTTGGTTCGT
1 AAAATTACCGAAACACCCTTGGTTCGT
* *
13453731 AGATTTACC-AATACACCCTTG
1 AAAATTACCGAA-ACACCCTTG
13453752 TAGGGTGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (27 bp):
AAAATTACCGAAACACCCTTGGTTCGT
Found at i:13454265 original size:22 final size:22
Alignment explanation
Indices: 13454211--13454276 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
13454201 AGTCAATTAT
*
13454211 CCTGATTATGGCTTTGTGCCAA
1 CCTGATTATGGCTCTGTGCCAA
**
13454233 CCT-ACACATGGCTCTGTGCCAA
1 CCTGA-TTATGGCTCTGTGCCAA
* *
13454255 CCTGATTATGGTTGTGTGCCAA
1 CCTGATTATGGCTCTGTGCCAA
13454277 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (22 bp):
CCTGATTATGGCTCTGTGCCAA
Found at i:13456971 original size:9 final size:10
Alignment explanation
Indices: 13456937--13456971 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
13456927 CAGGTTGCTT
13456937 TGGGCCATGA
1 TGGGCCATGA
*
13456947 TGGGCCAGGA
1 TGGGCCATGA
13456957 TGGGCCATG-
1 TGGGCCATGA
13456966 TGGGCC
1 TGGGCC
13456972 CAATGGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (10 bp):
TGGGCCATGA
Found at i:13457140 original size:27 final size:27
Alignment explanation
Indices: 13457110--13457449 Score: 307
Period size: 27 Copynumber: 12.6 Consensus size: 27
13457100 TGTAGGGTAG
* *
13457110 AATTACTGAAATGCCC-CTGATTTGTAA
1 AATTACTGAAATACCCTC-GACTTGTAA
* * *
13457137 AATTATTGAAATACTCCTAG-TTTGTAA
1 AATTACTGAAATAC-CCTCGACTTGTAA
*
13457164 AATTACCGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTCGACTTGTAA
13457191 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACTGAAATACCCTCGACTTGTAA
* *
13457218 AATAACCGAAATACCCT-GAACTTGTAA
1 AATTACTGAAATACCCTCG-ACTTGTAA
* * * *
13457245 AATTACTAAAATACCCTCAACCTATAA
1 AATTACTGAAATACCCTCGACTTGTAA
*
13457272 AATTA-TCGAAATACCCTCGACCTGTAA
1 AATTACT-GAAATACCCTCGACTTGTAA
* *
13457299 AATTA-TCGAAATACCCTTGACCTGTAA
1 AATTACT-GAAATACCCTCGACTTGTAA
13457326 AATTA-TCGAAATACCCTCGACTTGTAA
1 AATTACT-GAAATACCCTCGACTTGTAA
* * *
13457353 AATTATTGAAATACCCTCGATTTGTAT
1 AATTACTGAAATACCCTCGACTTGTAA
* ** * *
13457380 AGTTACCAAAATACCC-CTGATTTGGAA
1 AATTACTGAAATACCCTC-GACTTGTAA
* * * *
13457407 AATTACCGAAATACCATCGATTTGGAA
1 AATTACTGAAATACCCTCGACTTGTAA
**
13457434 AATTACAAAAATACCC
1 AATTACTGAAATACCC
13457450 CTAATTTACA
Statistics
Matches: 268, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.03
27 256 0.96
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTCGACTTGTAA
Found at i:13457197 original size:81 final size:81
Alignment explanation
Indices: 13457110--13457449 Score: 348
Period size: 81 Copynumber: 4.2 Consensus size: 81
13457100 TGTAGGGTAG
* * ** *
13457110 AATTACTGAAATGCCC-CTGATTTGTAAAATTATTGAAATACTCCTAG-TTTGTAAAATTACCGA
1 AATTACTGAAATACCCTC-GACTTGTAAAATTACCGAAATAC-CCTAGACTTGTAAAATTACCGA
13457173 AATACCCTCGACTTGTAA
64 AATACCCTCGACTTGTAA
* **
13457191 AATTACTGAAATACCCTCGACTTGTAAAATAACCGAAATACCCT-GAACTTGTAAAATTACTAAA
1 AATTACTGAAATACCCTCGACTTGTAAAATTACCGAAATACCCTAG-ACTTGTAAAATTACCGAA
* * *
13457255 ATACCCTCAACCTATAA
65 ATACCCTCGACTTGTAA
* * * * *
13457272 AATTA-TCGAAATACCCTCGACCTGTAAAATTATCGAAATACCCTTGACCTGTAAAATTATCGAA
1 AATTACT-GAAATACCCTCGACTTGTAAAATTACCGAAATACCCTAGACTTGTAAAATTACCGAA
13457336 ATACCCTCGACTTGTAA
65 ATACCCTCGACTTGTAA
* * * * * * *
13457353 AATTATTGAAATACCCTCGATTTGTATAGTTACCAAAATACCCCT-GATTTGGAAAATTACCGAA
1 AATTACTGAAATACCCTCGACTTGTAAAATTACCGAAATA-CCCTAGACTTGTAAAATTACCGAA
* * *
13457417 ATACCATCGATTTGGAA
65 ATACCCTCGACTTGTAA
**
13457434 AATTACAAAAATACCC
1 AATTACTGAAATACCC
13457450 CTAATTTACA
Statistics
Matches: 215, Mismatches: 37, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 4 0.02
81 203 0.94
82 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGACTTGTAAAATTACCGAAATACCCTAGACTTGTAAAATTACCGAAA
TACCCTCGACTTGTAA
Found at i:13457526 original size:27 final size:27
Alignment explanation
Indices: 13457157--13457539 Score: 158
Period size: 27 Copynumber: 14.1 Consensus size: 27
13457147 ATACTCCTAG
* * *
13457157 TTTGTAAAATTACCGAAATACCCTCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * ** *
13457184 CTTGTAAAATTACTGAAATACCCTCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * * *
13457211 CTTGTAAAATAACCGAAATACCC-TGAA
1 TTTGCAAAATTACCAAAATACCCTTG-A
* * * **
13457238 CTTGTAAAATTACTAAAATACCCTCAA
1 TTTGCAAAATTACCAAAATACCCTTGA
** ** * * *
13457265 CCTATAAAATTATCGAAATACCCTCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
** * * *
13457292 CCTGTAAAATTATCGAAATACCCTTGA
1 TTTGCAAAATTACCAAAATACCCTTGA
** * * * *
13457319 CCTGTAAAATTATCGAAATACCCTCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * *** *
13457346 CTTGTAAAATTATTGAAATACCCTCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * * *
13457373 TTTGTATAGTTACCAAAATACCCCTGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * * *
13457400 TTTGGAAAATTACCGAAATACCATCGA
1 TTTGCAAAATTACCAAAATACCCTTGA
* * * *
13457427 TTTGGAAAATTACAAAAATACCCCTAA
1 TTTGCAAAATTACCAAAATACCCTTGA
* *
13457454 TTTACAAAATTACAAAAATACCCTTGA
1 TTTGCAAAATTACCAAAATACCCTTGA
*** * *
13457481 CTTT-CAAAAATTATTGAAATACCATTGG
1 -TTTGC-AAAATTACCAAAATACCCTTGA
* * *
13457509 TTTGCAAAATTACCGAAACACCCTTGG
1 TTTGCAAAATTACCAAAATACCCTTGA
13457536 TTTG
1 TTTG
13457540 TAGATTTACC
Statistics
Matches: 296, Mismatches: 55, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.00
27 274 0.93
28 21 0.07
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
TTTGCAAAATTACCAAAATACCCTTGA
Found at i:13457886 original size:41 final size:40
Alignment explanation
Indices: 13457803--13457916 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 40
13457793 GAAGAAATTG
* * * *
13457803 AGGATCGCATGGTTCCTTGACGA-C--AGATCCACTAATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCAC-GATTA
13457841 AGGATCGCATGGTTGCTTGACGACCGTGGATCCATCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCA-CGATTA
* *
13457882 AGGATCACATGGTTGCTTGAGGACCGTGGATCCAC
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
13457917 CGATGGCTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 22 0.33
39 1 0.02
40 1 0.02
41 41 0.62
42 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACGATTA
Found at i:13458112 original size:22 final size:22
Alignment explanation
Indices: 13458060--13458124 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
13458050 GCCAATTATT
* *
13458060 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
13458082 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
13458104 TTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
13458125 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:13463425 original size:27 final size:26
Alignment explanation
Indices: 13463394--13463571 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
13463384 TAAATTGTAC
13463394 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
13463421 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
13463447 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
13463475 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
13463503 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
13463530 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
13463557 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13463572 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:13463510 original size:82 final size:81
Alignment explanation
Indices: 13463395--13463550 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
13463385 AAATTGTACA
* *
13463395 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13463459 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
13463476 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13463541 TGCGAGTTGA
65 TGCGAATTGA
13463551 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13463562 original size:82 final size:81
Alignment explanation
Indices: 13463391--13463571 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
13463381 GATTAAATTG
* *
13463391 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13463456 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
13463472 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13463536 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13463554 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13463572 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13471488 original size:27 final size:27
Alignment explanation
Indices: 13471457--13471634 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
13471447 TAAATTGTAC
13471457 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
13471484 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13471510 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
13471538 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
13471566 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
13471593 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
13471620 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13471635 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:13471571 original size:82 final size:81
Alignment explanation
Indices: 13471458--13471613 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
13471448 AAATTGTACA
* *
13471458 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
13471522 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13471539 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
13471604 TGCGAGTTGA
65 TGCGAATTGA
13471614 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13471625 original size:82 final size:81
Alignment explanation
Indices: 13471454--13471634 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
13471444 GATTAAATTG
* *
13471454 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13471519 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13471535 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13471599 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13471617 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13471635 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13485321 original size:22 final size:22
Alignment explanation
Indices: 13485290--13485335 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
13485280 ATGAAAAGAA
13485290 TTATTCGACACAAGACCTAGAG
1 TTATTCGACACAAGACCTAGAG
*
13485312 TTATTTGACACAAGACCTAGAG
1 TTATTCGACACAAGACCTAGAG
13485334 TT
1 TT
13485336 GGCAGCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (22 bp):
TTATTCGACACAAGACCTAGAG
Found at i:13496194 original size:46 final size:48
Alignment explanation
Indices: 13496122--13496224 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
13496112 GACAGGACAG
* * *
13496122 GACAGTAATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
* *
13496168 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
*
13496216 GACAAGAAT
1 GACAGGAAT
13496225 AATTCCTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 25 0.51
47 1 0.02
48 23 0.47
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGA
Found at i:13500577 original size:50 final size:46
Alignment explanation
Indices: 13500474--13500585 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 46
13500464 GACAGAAATG
* *
13500474 AGCCATGTAAGTCCATATCAGATATATGGATTTGGGGACAAGAATG
1 AGCCATGTAAGTCCATATCAGATATATGGATTTGGAGACAAGAATA
* * *
13500520 AGCCATGTAAGCCCATATTAGATATATGTATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATCAGATATATGGAT----TTGGAGACAAGAATA
**
13500570 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
13500586 GTCGAAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 28 0.52
50 26 0.48
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCAGATATATGGATTTGGAGACAAGAATA
Found at i:13505016 original size:24 final size:25
Alignment explanation
Indices: 13504965--13505090 Score: 114
Period size: 25 Copynumber: 5.1 Consensus size: 25
13504955 CACGCGATCA
* * *
13504965 AGCTTATCGATTCTCAGCTCATATG
1 AGCTTACCGATTCTCAGCTCGTAAG
13504990 AGCTTACCGATT-TCAGCTCGTAAG
1 AGCTTACCGATTCTCAGCTCGTAAG
* * * *
13505014 AGCATACTGATTCTAAGCTCTTATA-
1 AGCTTACCGATTCTCAGCTCGTA-AG
* * *
13505039 AGCTTACCTATTGT-AGCTCGTGAG
1 AGCTTACCGATTCTCAGCTCGTAAG
* *
13505063 AGCTTACTGATTCTCAGCTCGTATG
1 AGCTTACCGATTCTCAGCTCGTAAG
13505088 AGC
1 AGC
13505091 ATACATGTAC
Statistics
Matches: 79, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
23 1 0.01
24 37 0.47
25 40 0.51
26 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCTTACCGATTCTCAGCTCGTAAG
Found at i:13505045 original size:49 final size:49
Alignment explanation
Indices: 13504973--13505082 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
13504963 CAAGCTTATC
*
13504973 GATTCTCAGCTCATATGAGCTTACCGATT-TCAGCTCGTAAGAGCATACT
1 GATTCTCAGCTCATATAAGCTTACCGATTGT-AGCTCGTAAGAGCATACT
* * * * *
13505022 GATTCTAAGCTCTTATAAGCTTACCTATTGTAGCTCGTGAGAGCTTACT
1 GATTCTCAGCTCATATAAGCTTACCGATTGTAGCTCGTAAGAGCATACT
13505071 GATTCTCAGCTC
1 GATTCTCAGCTC
13505083 GTATGAGCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 52 0.98
50 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (49 bp):
GATTCTCAGCTCATATAAGCTTACCGATTGTAGCTCGTAAGAGCATACT
Found at i:13505485 original size:30 final size:29
Alignment explanation
Indices: 13505447--13505548 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 29
13505437 GACTAAATGG
13505447 TAAGTTAAATTCTATGTTATACGAACTAC
1 TAAGTTAAATTCTATGTTATACGAACTAC
** * * *
13505476 TAAGCTTAAA--CATAAATTGTGACTAAATGA-
1 TAAG-TTAAATTC-TATGTTAT-ACGAACT-AC
*
13505506 TAAGTTAAATTCTATGTTATATGAACTAC
1 TAAGTTAAATTCTATGTTATACGAACTAC
13505535 TAAGCTTAAATTCT
1 TAAG-TTAAATTCT
13505549 TACTCGATGT
Statistics
Matches: 54, Mismatches: 11, Indels: 15
0.68 0.14 0.19
Matches are distributed among these distances:
28 2 0.04
29 22 0.41
30 28 0.52
31 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (29 bp):
TAAGTTAAATTCTATGTTATACGAACTAC
Found at i:13505499 original size:59 final size:59
Alignment explanation
Indices: 13505426--13505544 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
13505416 ATGTTTACTT
*
13505426 ACATAAATTATGACTAAATGGTAAGTTAAATTCTATGTTATACGAACTACTAAGCTTAA
1 ACATAAATTATGACTAAATGATAAGTTAAATTCTATGTTATACGAACTACTAAGCTTAA
* *
13505485 ACATAAATTGTGACTAAATGATAAGTTAAATTCTATGTTATATGAACTACTAAGCTTAA
1 ACATAAATTATGACTAAATGATAAGTTAAATTCTATGTTATACGAACTACTAAGCTTAA
13505544 A
1 A
13505545 TTCTTACTCG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (59 bp):
ACATAAATTATGACTAAATGATAAGTTAAATTCTATGTTATACGAACTACTAAGCTTAA
Found at i:13506388 original size:12 final size:12
Alignment explanation
Indices: 13506371--13506397 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13506361 TTAGGCTGTT
13506371 ACACGGCCTAGC
1 ACACGGCCTAGC
13506383 ACACGGCCTAGC
1 ACACGGCCTAGC
13506395 ACA
1 ACA
13506398 TAGGCATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.41, G:0.22, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:13511859 original size:40 final size:40
Alignment explanation
Indices: 13511780--13511997 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
13511770 AAGCCAGGTA
* * * *
13511780 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
13511819 CCTTCGGGACATAGCCCAGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13511859 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
13511899 CCTTCAGGG-CTTAACCCGGATATAGTAACCCGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
13511939 CTTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
13511979 CCTTCGGGACATAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13511998 TTATCATCCG
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.10
40 135 0.88
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13519962 original size:40 final size:40
Alignment explanation
Indices: 13519918--13520020 Score: 170
Period size: 40 Copynumber: 2.6 Consensus size: 40
13519908 TACTCACTTG
* *
13519918 AATGCCTTCGGGACATAGCCCGGATGTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* *
13519958 AATGCCTTCGGGGCTTAACCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
13519998 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
13520021 TTATCATCCG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:13526450 original size:24 final size:20
Alignment explanation
Indices: 13526401--13526439 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13526391 GATCTAAAAT
13526401 AATAATTTCATTCAATTAAC
1 AATAATTTCATTCAATTAAC
13526421 AATAATTTCATTCAATTAA
1 AATAATTTCATTCAATTAA
13526440 ATAATTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (20 bp):
AATAATTTCATTCAATTAAC
Found at i:13528548 original size:33 final size:33
Alignment explanation
Indices: 13528504--13528567 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
13528494 CGAAAGGCTA
* * *
13528504 TCTTAGGTGCATCATCACCCTTAATCTTTACTG
1 TCTTAGATGCATCATCACCATCAATCTTTACTG
13528537 TCTTAGATGCATCATCACCATCAATCTTTAC
1 TCTTAGATGCATCATCACCATCAATCTTTAC
13528568 CTGATAGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.28, G:0.09, T:0.38
Consensus pattern (33 bp):
TCTTAGATGCATCATCACCATCAATCTTTACTG
Found at i:13530154 original size:32 final size:32
Alignment explanation
Indices: 13530111--13530184 Score: 139
Period size: 32 Copynumber: 2.3 Consensus size: 32
13530101 TTATTTTGGT
*
13530111 CTCCTCTCCTCTCTTTGCCGTCCTTCTCCTTA
1 CTCCTCCCCTCTCTTTGCCGTCCTTCTCCTTA
13530143 CTCCTCCCCTCTCTTTGCCGTCCTTCTCCTTA
1 CTCCTCCCCTCTCTTTGCCGTCCTTCTCCTTA
13530175 CTCCTCCCCT
1 CTCCTCCCCT
13530185 TTTTCTCTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.03, C:0.51, G:0.05, T:0.41
Consensus pattern (32 bp):
CTCCTCCCCTCTCTTTGCCGTCCTTCTCCTTA
Found at i:13533237 original size:22 final size:22
Alignment explanation
Indices: 13533212--13533272 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
13533202 GCAAAAACGT
*
13533212 TTGGCACACAGCTATAACTAGG
1 TTGGCACACAGCCATAACTAGG
* **
13533234 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATAACTAGG
* *
13533256 TTGGCGCAAAGCCATAA
1 TTGGCACACAGCCATAA
13533273 TCAGAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
TTGGCACACAGCCATAACTAGG
Found at i:13533448 original size:216 final size:216
Alignment explanation
Indices: 13533147--13534052 Score: 1794
Period size: 216 Copynumber: 4.2 Consensus size: 216
13533137 AAAACCTTAA
* *
13533147 GTAAATGTGATCGACACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
1 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
13533212 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
66 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
13533277 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
131 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
13533342 ATAGTCAGCACACAGCCTCAG
196 ATAGTCAGCACACAGCCTCAG
13533363 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
1 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
13533428 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
66 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
13533493 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
131 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
13533558 ATAGTCAGCACACAGCCTCAG
196 ATAGTCAGCACACAGCCTCAG
13533579 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
1 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
13533644 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
66 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
13533709 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
131 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
13533774 ATAGTCAGCACACAGCCTCAG
196 ATAGTCAGCACACAGCCTCAG
13533795 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
1 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
13533860 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
66 TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
13533925 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
131 AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
13533990 ATAGTCAGCACACAGCCTCAG
196 ATAGTCAGCACACAGCCTCAG
13534011 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGG
1 GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGG
13534053 GCTTAAAAGC
Statistics
Matches: 688, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 688 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (216 bp):
GTAAATATGATCGGCACAGAGTCGTCAATAATCATATATTGGCACACAGCCTTAGGCAAAAACGT
TTGGCACACAGCTATAACTAGGTTGGCACAGAGCCATATGTAGGTTGGCGCAAAGCCATAATCAG
AATAATTGGCTTTAAGCCATCGGTAGCTGTATCATGTTAGGCACAGAGCCATCAGCAATGGCAAT
ATAGTCAGCACACAGCCTCAG
Found at i:13533453 original size:22 final size:22
Alignment explanation
Indices: 13533428--13533488 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
13533418 GCAAAAACGT
*
13533428 TTGGCACACAGCTATAACTAGG
1 TTGGCACACAGCCATAACTAGG
* **
13533450 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATAACTAGG
* *
13533472 TTGGCGCAAAGCCATAA
1 TTGGCACACAGCCATAA
13533489 TCAGAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
TTGGCACACAGCCATAACTAGG
Found at i:13533669 original size:22 final size:22
Alignment explanation
Indices: 13533644--13533704 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
13533634 GCAAAAACGT
*
13533644 TTGGCACACAGCTATAACTAGG
1 TTGGCACACAGCCATAACTAGG
* **
13533666 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATAACTAGG
* *
13533688 TTGGCGCAAAGCCATAA
1 TTGGCACACAGCCATAA
13533705 TCAGAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
TTGGCACACAGCCATAACTAGG
Found at i:13533885 original size:22 final size:22
Alignment explanation
Indices: 13533860--13533920 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
13533850 GCAAAAACGT
*
13533860 TTGGCACACAGCTATAACTAGG
1 TTGGCACACAGCCATAACTAGG
* **
13533882 TTGGCACAGAGCCATATGTAGG
1 TTGGCACACAGCCATAACTAGG
* *
13533904 TTGGCGCAAAGCCATAA
1 TTGGCACACAGCCATAA
13533921 TCAGAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
TTGGCACACAGCCATAACTAGG
Found at i:13534128 original size:41 final size:41
Alignment explanation
Indices: 13534069--13534147 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
13534059 AAGCCACCGA
13534069 TGGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCAG
1 TGGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCAG
* * *
13534110 TGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
1 TGGATCCACGGTCATCAAGCAACCATGCAATCCTCAAT
13534148 TTCTTCCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
TGGATCCACGGTCATCAAGCAACCATGCAATCCTCAATCAG
Found at i:13534471 original size:55 final size:52
Alignment explanation
Indices: 13534412--13534708 Score: 227
Period size: 54 Copynumber: 5.5 Consensus size: 52
13534402 ATCTACAAAC
* **
13534412 CAAGGGTATTTCGATAATTTTACAAACCAATTGTATTTTTGTAGATTTTGAAAGT
1 CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTGTA-ATTTT-AAA-T
* ** *
13534467 CAAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTTTGTAATTATCTAAAT
1 CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTGTAATT-T-TAAAT
* * * * *
13534521 CAAGTGTATTTCGATAATTTTCCAAATTAAGGGTATTTTGGTAATTTTCCTAAT
1 CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTGTAATTTT--AAAT
* * * * * * *
13534575 CAAGGGTATTTCGGTAATTTTCCTAATCGAGGGT-GTTTCGATAATTTTATAGGT
1 CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTG-TAATTTTA-A-AT
* * ** * * *
13534629 CGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTGTAATTTT--AAAT
* *
13534683 CAGGGGTATTTTGATAATTTTACAAA
1 CAAGGGTATTTCGATAATTTTACAAA
13534709 CTGAAGTCCT
Statistics
Matches: 191, Mismatches: 41, Indels: 21
0.75 0.16 0.08
Matches are distributed among these distances:
52 1 0.01
53 6 0.03
54 137 0.72
55 45 0.24
56 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (52 bp):
CAAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTTGTAATTTTAAAT
Found at i:13534709 original size:27 final size:27
Alignment explanation
Indices: 13534405--13534708 Score: 195
Period size: 27 Copynumber: 11.2 Consensus size: 27
13534395 TTGGTAAATC
* *
13534405 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* **
13534432 TACAAACCAATTGTATTTTTG-TAGATTT
1 TACAAATCAAGGGTA-TTTTGATA-ATTT
*
13534460 TGA-AAGTCAAGGGTATTTCT-ATAATTT
1 T-ACAAATCAAGGGTATTT-TGATAATTT
** * *
13534487 TGTAAATCAGGGGTATTTTTG-TAATTA
1 TACAAATCAAGGGTA-TTTTGATAATTT
* *
13534514 T-CTAAATCAAGTGTATTTCGATAATTT
1 TAC-AAATCAAGGGTATTTTGATAATTT
* * *
13534541 TCCAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * * *
13534568 TCCTAATCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* * * * *
13534595 TCCTAATCGAGGGTGTTTCGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* ** * **
13534622 TATAGGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
** * *
13534649 TACAGGTCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
* *
13534676 TACAAACCAGGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTTGATAATTT
13534703 TACAAA
1 TACAAA
13534709 CTGAAGTCCT
Statistics
Matches: 223, Mismatches: 43, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.02
27 194 0.87
28 24 0.11
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTTGATAATTT
Found at i:13535888 original size:44 final size:44
Alignment explanation
Indices: 13535825--13535908 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
13535815 AAGAAATGTT
* *
13535825 ATTTATGTTCCAAACGTGAGGCGTTTTTCAAAAGTTAAACATCC
1 ATTTATGTTCCAAACGTGAGGCATTTTTCAAAAGCTAAACATCC
*
13535869 ATTTATGTTCCAAACGTGAGTCATTTTTCAAAAGCTAAAC
1 ATTTATGTTCCAAACGTGAGGCATTTTTCAAAAGCTAAAC
13535909 GTCGTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (44 bp):
ATTTATGTTCCAAACGTGAGGCATTTTTCAAAAGCTAAACATCC
Found at i:13536926 original size:27 final size:27
Alignment explanation
Indices: 13536891--13536947 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
13536881 CTTCAATAAG
* *
13536891 TTTCGATAATTTTATAGGTCGAGGGTA
1 TTTCAATAATTTTACAGGTCGAGGGTA
13536918 TTTCAATAATTTTACAGGTCGAGGGTA
1 TTTCAATAATTTTACAGGTCGAGGGTA
13536945 TTT
1 TTT
13536948 TGGTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (27 bp):
TTTCAATAATTTTACAGGTCGAGGGTA
Found at i:13536954 original size:27 final size:26
Alignment explanation
Indices: 13536909--13537039 Score: 136
Period size: 27 Copynumber: 4.9 Consensus size: 26
13536899 ATTTTATAGG
*** *
13536909 TCGAGGGTATTTCAATAATTTTACAGG
1 TCGAGGGTATTTTGGTAATTTTACA-A
13536936 TCGAGGGTATTTTGGTAATTTTACAA
1 TCGAGGGTATTTTGGTAATTTTACAA
* *
13536962 ACCAGGGGTATTTTGGTAATTTTACAA
1 TCGA-GGGTATTTTGGTAATTTTACAA
* * * *
13536989 ACTAGGGGTATTTTGGTAGTTTTGCTAA
1 TCGA-GGGTATTTTGGTAATTTTAC-AA
13537017 TCGAGGGTATTTTGGTAATTTTA
1 TCGAGGGTATTTTGGTAATTTTA
13537040 TAAACCAAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 83 0.93
28 4 0.04
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.41
Consensus pattern (26 bp):
TCGAGGGTATTTTGGTAATTTTACAA
Found at i:13537052 original size:27 final size:27
Alignment explanation
Indices: 13536939--13537081 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
13536929 TTACAGGTCG
*
13536939 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
13536966 GGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * * * *
13536993 GGGGTATTTTGGTAGTTTTGCT-AATCG
1 AGGGTATTTTGGTAATTTT-ATAAACCA
13537020 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *** *
13537047 AAGGTA-TTCAATAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
13537073 AGGGTATTT
1 AGGGTATTT
13537082 CAGTAATTCT
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 22 0.23
27 72 0.77
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:13537069 original size:26 final size:27
Alignment explanation
Indices: 13537032--13537089 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
13537022 GGTATTTTGG
13537032 TAATTTTATAAACCAAAGGTA-TTCAA
1 TAATTTTATAAACCAAAGGTATTTCAA
* * *
13537058 TAATTTTGTAAACCAAGGGTATTTCAG
1 TAATTTTATAAACCAAAGGTATTTCAA
13537085 TAATT
1 TAATT
13537090 CTACCCTACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (27 bp):
TAATTTTATAAACCAAAGGTATTTCAA
Found at i:13537101 original size:27 final size:27
Alignment explanation
Indices: 13537071--13537126 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
13537061 TTTTGTAAAC
* *
13537071 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
*
13537098 CAAGGGCATTTCAGTAATACTAGCCTA
1 CAAGGGCATTTCAGTAATACTACCCTA
13537125 CA
1 CA
13537127 TATATGAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (27 bp):
CAAGGGCATTTCAGTAATACTACCCTA
Found at i:13540168 original size:27 final size:27
Alignment explanation
Indices: 13540134--13540189 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
13540124 ACAATCATAC
13540134 ATCACATAGGGGCATAACAATCATTTT
1 ATCACATAGGGGCATAACAATCATTTT
*
13540161 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAATCATTTT
13540188 AT
1 AT
13540190 TAATTATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAATCATTTT
Found at i:13547002 original size:28 final size:28
Alignment explanation
Indices: 13546962--13547044 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
13546952 GTCACCAAAT
*
13546962 ACAGATATTTTGTGGCAGTGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
*
13546990 ACAGATAATTTGTGGCAGGGCCACCAGA
1 ACAGATAATTTGTGGCAGTGCCACCAGA
13547018 ACAGATAATTTGTGGCA-TAGCCACCAG
1 ACAGATAATTTGTGGCAGT-GCCACCAG
13547045 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGATAATTTGTGGCAGTGCCACCAGA
Found at i:13547197 original size:28 final size:28
Alignment explanation
Indices: 13547150--13547214 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
13547140 AAATTAACCC
*
13547150 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
13547178 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
13547206 TAGGGGTAT
1 TAGGGGTAT
13547215 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:13549749 original size:25 final size:25
Alignment explanation
Indices: 13549721--13549803 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 25
13549711 GTATGTAAAA
13549721 GGGAAGCTCTTTTGAGCCATATAAC
1 GGGAAGCTCTTTTGAGCCATATAAC
* * ***
13549746 GGGAAGCT-TATTAAGTTGTATAAC
1 GGGAAGCTCTTTTGAGCCATATAAC
** *
13549770 GGGAAGCTCTTGCGAGCCAT-TTAC
1 GGGAAGCTCTTTTGAGCCATATAAC
13549794 TGGGAAGCTC
1 -GGGAAGCTC
13549804 AAAAGAGCCA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
24 22 0.51
25 21 0.49
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (25 bp):
GGGAAGCTCTTTTGAGCCATATAAC
Found at i:13555386 original size:40 final size:40
Alignment explanation
Indices: 13555330--13555445 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
13555320 GAATACACGT
* * *
13555330 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
13555370 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
13555410 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
13555446 TTAGTAACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:13555470 original size:40 final size:40
Alignment explanation
Indices: 13555346--13555563 Score: 173
Period size: 40 Copynumber: 5.5 Consensus size: 40
13555336 CATGATTGCT
* *
13555346 CTTCGGGACCTAGCCCGGATATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTC-GCACCAATGC
* * * * **
13555385 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
*
13555425 TCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
* *
13555466 CTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACCAATGC
* * * * *
13555505 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACCAATGC
13555545 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
13555564 CATCATTCGA
Statistics
Matches: 145, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
38 2 0.01
39 32 0.22
40 91 0.63
41 20 0.14
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
Found at i:13555470 original size:80 final size:79
Alignment explanation
Indices: 13555329--13555483 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 79
13555319 TGAATACACG
* *
13555329 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGG-A
13555394 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
* * *
13555409 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTCG
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACCAATGCTCTTCG
*
13555471 GGCTTAGCCCGGA
63 GACTTAGCCCGGA
13555484 ATTAGTATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
79 11 0.17
80 39 0.59
81 9 0.14
82 3 0.05
83 4 0.06
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (79 bp):
TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGAC
TTAGCCCGGATACA
Found at i:13555909 original size:29 final size:29
Alignment explanation
Indices: 13555870--13555948 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
13555860 CTTAATAATC
*
13555870 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
13555900 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
13555929 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13555949 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:13578169 original size:42 final size:42
Alignment explanation
Indices: 13578117--13578214 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
13578107 CATGGCCAGA
* *
13578117 CACACGGGCGTGTAAGGCCATTTCGAGGGTTACACGGCCTGG
1 CACAAGGGCGTGTAAGGCCATTTCAAGGGTTACACGGCCTGG
* * *
13578159 CGCACA-GGCGTGTGAGGCCATTTCAAGGGTTACATGGCCTGG
1 CACA-AGGGCGTGTAAGGCCATTTCAAGGGTTACACGGCCTGG
13578201 CACAAGGGCGTGTA
1 CACAAGGGCGTGTA
13578215 TCTTGACCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.19
Consensus pattern (42 bp):
CACAAGGGCGTGTAAGGCCATTTCAAGGGTTACACGGCCTGG
Found at i:13581966 original size:24 final size:25
Alignment explanation
Indices: 13581920--13581966 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
13581910 TTTTTACTTT
*
13581920 TTTTCCCTATTTCTTCTTCCTATTC
1 TTTTCCATATTTCTTCTTCCTATTC
*
13581945 TTTTCCATA-TTCTTCTTTCTAT
1 TTTTCCATATTTCTTCTTCCTAT
13581967 AATATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.11, C:0.28, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTCCATATTTCTTCTTCCTATTC
Found at i:13583618 original size:16 final size:19
Alignment explanation
Indices: 13583597--13583633 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
13583587 CAACGGGTCT
13583597 GGTCAT-AC-AAGTTA-AC
1 GGTCATGACGAAGTTACAC
13583613 GGTCATGACGAAGTTACAC
1 GGTCATGACGAAGTTACAC
13583632 GG
1 GG
13583634 CGCTGTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 6 0.33
19 4 0.22
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (19 bp):
GGTCATGACGAAGTTACAC
Found at i:13590028 original size:12 final size:12
Alignment explanation
Indices: 13590007--13590037 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13589997 TTAGATCACA
*
13590007 TGTCCTAACCCT
1 TGTCCGAACCCT
13590019 TGTCCGAACCCT
1 TGTCCGAACCCT
13590031 TGTCCGA
1 TGTCCGA
13590038 CCCAGTGTAA
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:0.16, C:0.39, G:0.16, T:0.29
Consensus pattern (12 bp):
TGTCCGAACCCT
Found at i:13593985 original size:27 final size:27
Alignment explanation
Indices: 13593939--13594038 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
13593929 CATCACGCAG
* * *
13593939 GGGCAAAACAGCCATCTTACCATATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
13593966 GGGCAAAATAGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
*
13593993 GGGCAAAACAATCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCACATAA
* *
13594020 GGGAAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
13594039 TCGATTAGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCACATAA
Found at i:13609041 original size:20 final size:18
Alignment explanation
Indices: 13608990--13609042 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 18
13608980 ATCTAGAAGA
13608990 TAATATTAAATTAA-ATT
1 TAATATTAAATTAATATT
13609007 TAATATTAAGA-TAATCACTT
1 TAATATTAA-ATTAAT-A-TT
13609027 TAATATTAAATTAATA
1 TAATATTAAATTAATA
13609043 AAATATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.39
18 1 0.03
19 3 0.10
20 15 0.48
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TAATATTAAATTAATATT
Found at i:13613853 original size:23 final size:24
Alignment explanation
Indices: 13613815--13613859 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13613805 TTTTCTCTTC
*
13613815 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
13613839 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
13613860 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:13614471 original size:30 final size:30
Alignment explanation
Indices: 13614437--13614495 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13614427 TCATTGGCTC
13614437 AAACTTTGGA-AAAATTACACTTTTGCCCCT
1 AAACTTT-GACAAAATTACACTTTTGCCCCT
* * *
13614467 AAACTTTTACATATTTACACTTTTGCCCC
1 AAACTTTGACAAAATTACACTTTTGCCCC
13614496 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACTTTGACAAAATTACACTTTTGCCCCT
Found at i:13629072 original size:48 final size:48
Alignment explanation
Indices: 13629001--13629125 Score: 225
Period size: 48 Copynumber: 2.6 Consensus size: 48
13628991 NNNNNNNNNN
13629001 GCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCG
*
13629049 GCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCG
1 GCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCG
13629097 GCTTTACCACATATACATATC-CTATACAT
1 GCTTTACCACATATACATATCTC-ATACAT
13629126 CAATTTCAGC
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 1 0.01
48 74 0.99
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
GCTTTACCACATATACATATCTCATACATATTTCACAGTAGCCATTCG
Found at i:13630195 original size:41 final size:41
Alignment explanation
Indices: 13630073--13630231 Score: 133
Period size: 40 Copynumber: 3.9 Consensus size: 41
13630063 TTTTATCAAA
* * * *
13630073 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
*** * * * *
13630113 TCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
*
13630154 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATA-TCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGA-ACTCA-T
* * **
13630196 TCACTGGCATTATAGCCTACTAGGCCCGAAGCCCGA
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAGCCCGA
13630232 TAATATTATT
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
40 31 0.33
41 30 0.32
42 12 0.13
43 20 0.22
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAGCCCGAACTCAT
Found at i:13630227 original size:43 final size:42
Alignment explanation
Indices: 13630153--13630233 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
13630143 TCTGAACTCA
* * **
13630153 TTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTTAGCCTACTAGGCCCGAAGCCCGATATCAT
*
13630195 TTCACTGGCATTATAGCCTACTAGGCCCGAAGCCCGATA
1 TTCACCGGCATT-TAGCCTACTAGGCCCGAAGCCCGATA
13630234 ATATTATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 11 0.33
43 22 0.67
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (42 bp):
TTCACCGGCATTTAGCCTACTAGGCCCGAAGCCCGATATCAT
Found at i:13630431 original size:28 final size:28
Alignment explanation
Indices: 13630400--13630471 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
13630390 TTGATATTTT
*
13630400 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
13630428 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
13630456 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
13630472 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:13630952 original size:19 final size:19
Alignment explanation
Indices: 13630925--13630973 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
13630915 CCATATAATT
*
13630925 TCCATAATTCACAATTTAA
1 TCCAAAATTCACAATTTAA
* * *
13630944 TCCAAAATTAACATTTTTA
1 TCCAAAATTCACAATTTAA
13630963 -CCAAAATTCAC
1 TCCAAAATTCAC
13630974 TTTACAAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (19 bp):
TCCAAAATTCACAATTTAA
Found at i:13631628 original size:21 final size:21
Alignment explanation
Indices: 13631603--13631647 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
13631593 CGATACCTCA
*
13631603 TAAGGTCATACCACTTGACCT
1 TAAGGTCATACCACTTGAACT
13631624 TAAGGTCATACCACTTGAACT
1 TAAGGTCATACCACTTGAACT
13631645 TAA
1 TAA
13631648 TAAATCACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (21 bp):
TAAGGTCATACCACTTGAACT
Found at i:13646845 original size:42 final size:41
Alignment explanation
Indices: 13646765--13646914 Score: 119
Period size: 41 Copynumber: 3.6 Consensus size: 41
13646755 AAGCTTGGTC
*
13646765 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCACTGCTAATAACCGAACTTAGTT
* * *
13646806 TCGAAGGGCTTTTTAGATCCACTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCACTGCTAATAACCGAACTTAGTT
* * * * * * * *
13646848 CCGAAAGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCACT-G-CTAATAACCGAACTTAGTT
13646889 TCGAAGGGCTTTTGAGCCGA-TGCTAA
1 TCGAAGGGCTTTTGAGCC-ACTGCTAA
13646915 GAGTCGGACT
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
39 4 0.05
40 7 0.08
41 35 0.42
42 28 0.33
43 10 0.12
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCACTGCTAATAACCGAACTTAGTT
Found at i:13652006 original size:23 final size:22
Alignment explanation
Indices: 13651976--13652055 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 22
13651966 GAGCTGATGG
*
13651976 ACAGTAAGCTAGATTGAGCTGAA
1 ACAGTAAGCTAGA-CGAGCTGAA
*
13651999 ACAGTAAGCTCTGACGAGCTGAA
1 ACAGTAAGCT-AGACGAGCTGAA
13652022 ACAGTAAGCTCTA-ACGAGCTGAAA
1 ACAGTAAG--CTAGACGAGCTG-AA
13652046 ACAGTAAGCT
1 ACAGTAAGCT
13652056 TTTATAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
22 2 0.04
23 34 0.68
24 12 0.24
25 2 0.04
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (22 bp):
ACAGTAAGCTAGACGAGCTGAA
Found at i:13652052 original size:24 final size:24
Alignment explanation
Indices: 13651991--13652114 Score: 137
Period size: 23 Copynumber: 5.3 Consensus size: 24
13651981 AAGCTAGATT
*
13651991 GAGCTG-AAACAGTAAGCTCTGAC
1 GAGCTGAAAACAGTAAGCTCTAAC
13652014 GAGCTG-AAACAGTAAGCTCTAAC
1 GAGCTGAAAACAGTAAGCTCTAAC
* * *
13652037 GAGCTGAAAACAGTAAGCTTTTAT
1 GAGCTGAAAACAGTAAGCTCTAAC
* * * *
13652061 AAGCT-AAAATAGTAAACTCCAAC
1 GAGCTGAAAACAGTAAGCTCTAAC
* *
13652084 AAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACAGTAAGCTCTAAC
13652108 GAGCTGA
1 GAGCTGA
13652115 TATATCGGTA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
23 45 0.54
24 38 0.46
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTAAC
Found at i:13652075 original size:47 final size:47
Alignment explanation
Indices: 13651991--13652104 Score: 140
Period size: 47 Copynumber: 2.4 Consensus size: 47
13651981 AAGCTAGATT
* * * *
13651991 GAGCTG-AAACAGTAAGCTCTGACGAGCTGAAACAGTAAGCTCTAAC
1 GAGCTGAAAACAGTAAGCTCTGACAAGCTAAAACAGTAAACTCCAAC
* * * *
13652037 GAGCTGAAAACAGTAAGCTTTTATAAGCTAAAATAGTAAACTCCAAC
1 GAGCTGAAAACAGTAAGCTCTGACAAGCTAAAACAGTAAACTCCAAC
*
13652084 AAGCTGAAAACAGTAAGCTCT
1 GAGCTGAAAACAGTAAGCTCT
13652105 TACGAGCTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 6 0.11
47 51 0.89
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (47 bp):
GAGCTGAAAACAGTAAGCTCTGACAAGCTAAAACAGTAAACTCCAAC
Found at i:13660699 original size:19 final size:19
Alignment explanation
Indices: 13660664--13660713 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
13660654 TACAAAATAA
*
13660664 TCAAAATAATTTTTAAAAAT
1 TCAAAAT-ATTTATAAAAAT
13660684 TCAAAATATTTATAAAAAT
1 TCAAAATATTTATAAAAAT
*
13660703 TCCAAAT-TTTA
1 TCAAAATATTTA
13660714 ATTATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 4 0.14
19 17 0.61
20 7 0.25
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (19 bp):
TCAAAATATTTATAAAAAT
Found at i:13669654 original size:73 final size:73
Alignment explanation
Indices: 13669535--13669866 Score: 628
Period size: 73 Copynumber: 4.5 Consensus size: 73
13669525 ACAACTTGAC
* *
13669535 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCATTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
13669600 CACTAACA
66 CACTAACA
13669608 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
13669673 CACTAACA
66 CACTAACA
13669681 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
13669746 CACTAACA
66 CACTAACA
13669754 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
13669819 CACTAACA
66 CACTAACA
**
13669827 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCA
13669867 AATAATAATA
Statistics
Matches: 255, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 255 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:13671851 original size:20 final size:20
Alignment explanation
Indices: 13671823--13671865 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13671813 CAAATGTTAC
*
13671823 AATAATTTATATAATTGAAT
1 AATAATTTATAAAATTGAAT
* *
13671843 AATATTTTATAAAATTGTAT
1 AATAATTTATAAAATTGAAT
13671863 AAT
1 AAT
13671866 TATATAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AATAATTTATAAAATTGAAT
Found at i:13676057 original size:21 final size:21
Alignment explanation
Indices: 13676031--13676071 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13676021 AAAATACTTC
13676031 AAAAACTAGAGCTAACAATTG
1 AAAAACTAGAGCTAACAATTG
*
13676052 AAAAACTAGAGCTAATAATT
1 AAAAACTAGAGCTAACAATT
13676072 TCCGCCTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AAAAACTAGAGCTAACAATTG
Found at i:13686942 original size:35 final size:35
Alignment explanation
Indices: 13686903--13686973 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
13686893 CTGCACCAAC
*
13686903 TTACATCCAGTTACCAACCAATCCAAGCATTGAAT
1 TTACATCCAATTACCAACCAATCCAAGCATTGAAT
13686938 TTACATCCAATTACCAACCAATCCAAGCATTGAAT
1 TTACATCCAATTACCAACCAATCCAAGCATTGAAT
13686973 T
1 T
13686974 CAAGCAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.27
Consensus pattern (35 bp):
TTACATCCAATTACCAACCAATCCAAGCATTGAAT
Found at i:13688409 original size:7 final size:7
Alignment explanation
Indices: 13688397--13688423 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13688387 AAGTAACATT
13688397 TTTATCA
1 TTTATCA
13688404 TTTATCA
1 TTTATCA
13688411 TTTATCA
1 TTTATCA
13688418 TTTATC
1 TTTATC
13688424 GGGCCTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:13693553 original size:16 final size:16
Alignment explanation
Indices: 13693529--13693563 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13693519 TTATTATATA
*
13693529 ATAATGGCTTAATTGG
1 ATAAGGGCTTAATTGG
*
13693545 ATAAGGGCTTATTTGG
1 ATAAGGGCTTAATTGG
13693561 ATA
1 ATA
13693564 TAAGTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (16 bp):
ATAAGGGCTTAATTGG
Found at i:13695570 original size:24 final size:25
Alignment explanation
Indices: 13695526--13695581 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
13695516 ATTATTTTAG
13695526 ATTAAAAAGTAAATTAGTTTTT-CT
1 ATTAAAAAGTAAATTAGTTTTTACT
* *
13695550 ATTAAAAATTTAATCTA-TTTTTACT
1 ATTAAAAAGTAAAT-TAGTTTTTACT
*
13695575 GTTAAAA
1 ATTAAAA
13695582 CTAGCTCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (25 bp):
ATTAAAAAGTAAATTAGTTTTTACT
Found at i:13695571 original size:25 final size:24
Alignment explanation
Indices: 13695513--13695581 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
13695503 AAAAAATGAA
*
13695513 TAAATTA-TTTTA-GATTAAAAAG
1 TAAATTAGTTTTACTATTAAAAAG
* *
13695535 TAAATTAGTTTTTCTATTAAAAAT
1 TAAATTAGTTTTACTATTAAAAAG
* * *
13695559 TTAATCTATTTTTACTGTTAAAA
1 TAAAT-TAGTTTTACTATTAAAA
13695582 CTAGCTCATG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
24 12 0.32
25 14 0.38
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (24 bp):
TAAATTAGTTTTACTATTAAAAAG
Found at i:13701464 original size:24 final size:22
Alignment explanation
Indices: 13701429--13701473 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
13701419 AAAAAATTGA
13701429 AATAAAATGAAGGAAATTCAAAAG
1 AATAAAATGAA-GAAA-TCAAAAG
13701453 AATAACAA-GAAGAAATCAAAA
1 AATAA-AATGAAGAAATCAAAA
13701474 CAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 4 0.20
24 8 0.40
25 2 0.10
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (22 bp):
AATAAAATGAAGAAATCAAAAG
Found at i:13704498 original size:18 final size:18
Alignment explanation
Indices: 13704477--13704511 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13704467 ATTTATTCTT
13704477 TGTTTTCAATTTTTTTAC
1 TGTTTTCAATTTTTTTAC
* *
13704495 TGTTTTTATTTTTTTTA
1 TGTTTTCAATTTTTTTA
13704512 TTTCTAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TGTTTTCAATTTTTTTAC
Found at i:13713188 original size:47 final size:44
Alignment explanation
Indices: 13713115--13713383 Score: 148
Period size: 47 Copynumber: 5.7 Consensus size: 44
13713105 AGCCGCATCA
* * *
13713115 TGATAGCCCGTGTAAGACCACGTCTGGGACACAGCATCGGTGTAGAGG
1 TGAT-GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGT-TAGAGG
* *
13713163 TGAATGCCAGTGTAAGACATGTCTGGGACATGAATCGGCTTCGATGG
1 TG-ATGCCAGTGTAAGACATGTCTGGGACATGCATCGG-TTAGA-GG
* * * *
13713210 TGTTAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGTT
1 TGAT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGTTAGAG-G
* * * *
13713255 TCG-TGCTAGTGTAAGACATGTCTGGGACATTCATCAGCAGGTATACACG
1 T-GATGCCAGTGTAAGACATGTCTGGGACATGCAT---C-GGT-TAGAGG
* * * * *
13713304 AGA-GCTAGAGTAAGACTATGTCTGGGACATGGCATCGGCCTCGATGG
1 TGATGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-TTAGA-GG
* *
13713351 AGATAGCCAGCGTAAGACCATGTCTGGGACATG
1 TGAT-GCCAGTGTAAGA-CATGTCTGGGACATG
13713384 ACAGTGGCAA
Statistics
Matches: 175, Mismatches: 26, Indels: 40
0.73 0.11 0.17
Matches are distributed among these distances:
44 28 0.16
45 3 0.02
46 16 0.09
47 54 0.31
48 29 0.17
49 40 0.23
50 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (44 bp):
TGATGCCAGTGTAAGACATGTCTGGGACATGCATCGGTTAGAGG
Found at i:13713281 original size:44 final size:47
Alignment explanation
Indices: 13713168--13713383 Score: 147
Period size: 49 Copynumber: 4.6 Consensus size: 47
13713158 AGAGGTGAAT
* **
13713168 GCCAGTGTAAGACATGTCTGGGACATGAATCGGCTTCGATGGTGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATGGTGTTA
* *
13713215 GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAG-T-TTCG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATGGT-GTTA
* * * * *** **
13713259 GCTAGTGTAAGACATGTCTGGGACATTCATCAGC-AGGTATACACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAG-AT-GGTGTTA
* * * * *
13713307 GCTAGAGTAAGACTATGTCTGGGACATGGCATCGGCCT-CGATGGAGATA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGG-CTAAGATGGTGTTA
*
13713356 GCCAGCGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
13713384 ACAGTGGCAA
Statistics
Matches: 134, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 30 0.22
45 3 0.02
46 3 0.02
47 34 0.25
48 13 0.10
49 39 0.29
50 8 0.06
51 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATGGTGTTA
Found at i:13716373 original size:40 final size:40
Alignment explanation
Indices: 13716317--13716404 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
13716307 CGACAGATTT
13716317 GCACAAAAGGCAAAAAATGGCTCGACAAACACTACCAGAA
1 GCACAAAAGGCAAAAAATGGCTCGACAAACACTACCAGAA
*
13716357 GCACAAAAGGCGAAAAATGGCTCGACAAACACTACCAGAA
1 GCACAAAAGGCAAAAAATGGCTCGACAAACACTACCAGAA
*
13716397 GAACAAAA
1 GCACAAAA
13716405 TCGAGAAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.51, C:0.24, G:0.18, T:0.07
Consensus pattern (40 bp):
GCACAAAAGGCAAAAAATGGCTCGACAAACACTACCAGAA
Found at i:13724158 original size:17 final size:19
Alignment explanation
Indices: 13724132--13724175 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
13724122 CTTATTTTTA
*
13724132 AATAAATTAATA-GCAT-T
1 AATAATTTAATATGCATAT
13724149 AATAATTTAATATGCATAT
1 AATAATTTAATATGCATAT
13724168 ATATAATT
1 A-ATAATT
13724176 ATTAATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 4 0.17
19 2 0.09
20 6 0.26
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
AATAATTTAATATGCATAT
Found at i:13731485 original size:26 final size:26
Alignment explanation
Indices: 13731454--13731561 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
13731444 TGAAATGCCC
*
13731454 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
13731480 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
13731506 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
13731532 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13731558 ATCA
1 ATCA
13731562 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13744256 original size:42 final size:43
Alignment explanation
Indices: 13744156--13744271 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
13744146 AGCTCATACA
* * *
13744156 ATGCCAACGCCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
* *
13744199 ATGCC-ACTGTCCCAGATAG-GGTCTTACACGAAATCAAGTA-CG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGAAATCAAATATCG
13744241 ATGCCAACGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
13744272 TAATACATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.46
43 32 0.51
44 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:13750928 original size:54 final size:54
Alignment explanation
Indices: 13750746--13750906 Score: 252
Period size: 54 Copynumber: 3.0 Consensus size: 54
13750736 GTAAGCGAAT
* * * *
13750746 ACCATATAGTGTAAGGCTTAGCCATTTGCTAT-GAATTTATATGGGGAAAGGAAG
1 ACCATATAGTGTAAGGCCTAGCCGTTTGCTATGGCA-TTATATGGGGAAATGAAG
* *
13750800 ACCATATAGTGTAAGGCCTAGTCGTTTGCTATGGCATCATATGGGGAAATGAAG
1 ACCATATAGTGTAAGGCCTAGCCGTTTGCTATGGCATTATATGGGGAAATGAAG
13750854 ACCATATAGTGTAAGGCCTAGCCGTTTGCTATGGCATTATATGGGGAAATGAA
1 ACCATATAGTGTAAGGCCTAGCCGTTTGCTATGGCATTATATGGGGAAATGAA
13750907 TAATACATAG
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 96 0.98
55 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (54 bp):
ACCATATAGTGTAAGGCCTAGCCGTTTGCTATGGCATTATATGGGGAAATGAAG
Found at i:13753894 original size:12 final size:13
Alignment explanation
Indices: 13753864--13753893 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13753854 TATAAGGGCT
*
13753864 TTTTTATTTAATA
1 TTTTTATATAATA
13753877 TTTTTATATAATA
1 TTTTTATATAATA
13753890 TTTT
1 TTTT
13753894 AAATAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTATATAATA
Found at i:13757339 original size:14 final size:15
Alignment explanation
Indices: 13757322--13757350 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13757312 GAATATGGTA
13757322 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
13757336 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
13757351 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:13757775 original size:12 final size:12
Alignment explanation
Indices: 13757758--13757782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13757748 CATTCATAAT
13757758 ATAAAATAAAAA
1 ATAAAATAAAAA
13757770 ATAAAATAAAAA
1 ATAAAATAAAAA
13757782 A
1 A
13757783 ATTAAAAGTA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:13758847 original size:37 final size:37
Alignment explanation
Indices: 13758783--13758858 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
13758773 TTACAAGCCA
13758783 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
13758820 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
13758857 AA
1 AA
13758859 CATCGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:13772086 original size:51 final size:51
Alignment explanation
Indices: 13772031--13772136 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
13772021 CTACCTTACA
* * *
13772031 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
* ** *
13772082 ACATGTATCACACCCATTTTGAACTCGGACCACTCAACGAGCTCGGGTGCT
1 ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
13772133 ACAT
1 ACAT
13772137 ATATCATGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
Found at i:13772160 original size:42 final size:43
Alignment explanation
Indices: 13772101--13772214 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
13772091 ACACCCATTT
*
13772101 TGAACTCGGACCACTCAACGAGCTCGGGTGCT-ACATATATCA
1 TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
* * * *
13772143 TGAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCA
1 TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
** * * *
13772186 CAAACTCAGACCTCTCAATGAGCTCGGAT
1 TGAACTCGGACCACTCAACGAGCTCGGAT
13772215 TTCTTAGTTC
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
Found at i:13775566 original size:40 final size:41
Alignment explanation
Indices: 13775518--13775616 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 41
13775508 TGGATTGGCT
*
13775518 CTTATGAGCTTCTGTCTAG-CATGTTTCGATTAGATTAACC
1 CTTATGAGCTTCTGTCTAGACATGTATCGATTAGATTAACC
* * * * * * *
13775558 CTTGTGAGCTTCTATCT-GACGTGTATCGGTTGGATTAGCT
1 CTTATGAGCTTCTGTCTAGACATGTATCGATTAGATTAACC
13775598 CTTATGAGCTTCTGTCTAG
1 CTTATGAGCTTCTGTCTAG
13775617 TGTGTTCGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.02
40 45 0.96
41 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.40
Consensus pattern (41 bp):
CTTATGAGCTTCTGTCTAGACATGTATCGATTAGATTAACC
Found at i:13778494 original size:34 final size:34
Alignment explanation
Indices: 13778456--13778523 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
13778446 ATGTGTACAA
*
13778456 CTTAAAGATTACATTGTGGATACCATCTGAAAAG
1 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
13778490 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
1 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
13778524 GCCAATTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (34 bp):
CTTAAAGATTACATTGTGGATACCATCTAAAAAG
Found at i:13782307 original size:25 final size:25
Alignment explanation
Indices: 13782279--13782375 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
13782269 TCCTCTCTCA
* *
13782279 AGCCATATAACAGGAAGGTCAGAAG
1 AGCCATATAACAGGAAGCTCATAAG
* *
13782304 AGCC-TAT--CAGGAAGCTTATCAG
1 AGCCATATAACAGGAAGCTCATAAG
* * *
13782326 GGCTATATAACAGAAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATAAG
* * *
13782351 AGCCATA-ATCAGGAAGTTCACAAG
1 AGCCATATAACAGGAAGCTCATAAG
13782375 A
1 A
13782376 ACTTTTAATC
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
22 13 0.24
23 3 0.06
24 17 0.31
25 21 0.39
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATAAG
Found at i:13782384 original size:25 final size:25
Alignment explanation
Indices: 13782356--13782441 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
13782346 ATAAGAGCCA
13782356 TAATCAGGAAGTTCACAAGAACTTT
1 TAATCAGGAAGTTCACAAGAACTTT
*
13782381 TAATCAGGAAGTTCACAAAGAACTCT
1 TAATCAGGAAGTTCAC-AAGAACTTT
* * * *
13782407 TAATCAGGAAGCTCATGAAGAGCCTT
1 TAATCAGGAAGTTCA-CAAGAACTTT
13782433 TAATCAGGA
1 TAATCAGGA
13782442 GCTCCGGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 16 0.30
26 37 0.70
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (25 bp):
TAATCAGGAAGTTCACAAGAACTTT
Found at i:13782427 original size:26 final size:24
Alignment explanation
Indices: 13782340--13782445 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
13782330 ATATAACAGA
* *
13782340 AAGCTCATAAGAGCCATAATCAGG
1 AAGCTCATAAGAACCTTAATCAGG
* * *
13782364 AAGTTCACAAGAACTTTTAATCAGG
1 AAGCTCATAAGAAC-CTTAATCAGG
* *
13782389 AAGTTCACAAAGAACTCTTAATCAGG
1 AAGCTCA-TAAGAAC-CTTAATCAGG
*
13782415 AAGCTCATGAAGAGCCTTTAATCAGG
1 AAGCTCAT-AAGAACC-TTAATCAGG
13782441 -AGCTC
1 AAGCTC
13782446 CGGATAGTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
24 11 0.16
25 21 0.31
26 36 0.53
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (24 bp):
AAGCTCATAAGAACCTTAATCAGG
Found at i:13783103 original size:30 final size:31
Alignment explanation
Indices: 13783035--13783103 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
13783025 TACCTTTTTG
* **
13783035 CCCCTAAACTTTTAATTGATGACGATAATTTTG
1 CCCCTAAACTTTTAATTAATGAC-A-AATTTCA
13783068 CCCCTAAACTTTTAATTAATGAC-AATTTCA
1 CCCCTAAACTTTTAATTAATGACAAATTTCA
*
13783098 TCCCTA
1 CCCCTA
13783104 GGCTCGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 10 0.31
33 22 0.69
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (31 bp):
CCCCTAAACTTTTAATTAATGACAAATTTCA
Done.