Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 160 of 207
Found at i:49311444 original size:22 final size:22
Alignment explanation
Indices: 49311419--49311466 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
49311409 GAAGGTTAGA
49311419 TTCTTTGAGGAGATCATACGCT
1 TTCTTTGAGGAGATCATACGCT
*
49311441 TTCTTTGAGGAGATCATATGCT
1 TTCTTTGAGGAGATCATACGCT
49311463 TTCT
1 TTCT
49311467 CGAGTTCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (22 bp):
TTCTTTGAGGAGATCATACGCT
Found at i:49314146 original size:28 final size:28
Alignment explanation
Indices: 49314080--49314136 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
49314070 TCAATACACG
49314080 AAAGAGTGCAACTTTCCTTTCTGAACTT
1 AAAGAGTGCAACTTTCCTTTCTGAACTT
49314108 AAAGAGTGCAACTTTCCTTTCTGAACTT
1 AAAGAGTGCAACTTTCCTTTCTGAACTT
49314136 A
1 A
49314137 GTCGAGGCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (28 bp):
AAAGAGTGCAACTTTCCTTTCTGAACTT
Found at i:49317486 original size:29 final size:29
Alignment explanation
Indices: 49317454--49317515 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
49317444 ATTACAAATT
49317454 TTAATAATTCACATTAATTTTATACTAAC
1 TTAATAATTCACATTAATTTTATACTAAC
*
49317483 TTAATAATTCACATTAATTTTATTCTAAC
1 TTAATAATTCACATTAATTTTATACTAAC
49317512 TTAA
1 TTAA
49317516 GGAACTAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAATAATTCACATTAATTTTATACTAAC
Found at i:49319150 original size:68 final size:68
Alignment explanation
Indices: 49319046--49319217 Score: 215
Period size: 68 Copynumber: 2.5 Consensus size: 68
49319036 CTTTATTTCA
* * *
49319046 TGCCATAGTCGAGTTATGGTCTTACATAATATAACCCCATGTTTATGGTCCTGGC-GAACTCTA-
1 TGCCATAGTCGAGCTATGTTCTTACACAATA-AACCCCATGTTTATGGTCCTGGCAG-ACTCTAT
49319109 TTTGT
64 TTTGT
*
49319114 TGCCATAGTCGAGCTATGTTCTTACACAATACAACCCCATGTTTATGGTCTTGGCAGACTCTATT
1 TGCCATAGTCGAGCTATGTTCTTACACAATA-AACCCCATGTTTATGGTCCTGGCAGACTCTATT
*
49319179 TTTT
65 TTGT
** *
49319183 TATCATAGTTGAGCTATGGTT-TTACACAATAAACC
1 TGCCATAGTCGAGCTAT-GTTCTTACACAATAAACC
49319218 TTTTTCGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
68 60 0.65
69 29 0.32
70 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.37
Consensus pattern (68 bp):
TGCCATAGTCGAGCTATGTTCTTACACAATAAACCCCATGTTTATGGTCCTGGCAGACTCTATTT
TGT
Found at i:49321316 original size:76 final size:76
Alignment explanation
Indices: 49321190--49321335 Score: 274
Period size: 76 Copynumber: 1.9 Consensus size: 76
49321180 GTAAAATTTA
49321190 AAAATTTTGAAAACAGGGGTCACACGGCCGTGTGACATAACTCAAGCCATGTGGGTATTTGAAGT
1 AAAATTTTGAAAACAGGGGTCACACGGCCGTGTGACATAACTCAAGCCATGTGGGTATTTGAAGT
49321255 TTAGTCGCACG
66 TTAGTCGCACG
* *
49321266 AAAATTTTGAAAACAGGGGTCACACGGCCGTGTGACATAACTCACGCCATGTGGTTATTTGAAGT
1 AAAATTTTGAAAACAGGGGTCACACGGCCGTGTGACATAACTCAAGCCATGTGGGTATTTGAAGT
49321331 TTAGT
66 TTAGT
49321336 TACATGGCCG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (76 bp):
AAAATTTTGAAAACAGGGGTCACACGGCCGTGTGACATAACTCAAGCCATGTGGGTATTTGAAGT
TTAGTCGCACG
Found at i:49322461 original size:18 final size:17
Alignment explanation
Indices: 49322438--49322472 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49322428 ATTTAGGCTT
49322438 TATATATCATCCATTACA
1 TATATAT-ATCCATTACA
*
49322456 TATATATATTCATTACA
1 TATATATATCCATTACA
49322473 CATTTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (17 bp):
TATATATATCCATTACA
Found at i:49322784 original size:41 final size:41
Alignment explanation
Indices: 49322717--49322845 Score: 188
Period size: 41 Copynumber: 3.1 Consensus size: 41
49322707 ACTACCTAAA
*
49322717 ACAATACACGGGCACGAAGCCTGCTAGGCTCAAGGCTTGAT
1 ACAATACACCGGCACGAAGCCTGCTAGGCTCAAGGCTTGAT
* *
49322758 ACAACACACCGGCACGAAGCCTGCTAGGCTTAAGGCTTGAT
1 ACAATACACCGGCACGAAGCCTGCTAGGCTCAAGGCTTGAT
* * *
49322799 ACAATACACTGGCACAAAGCCTACTAGGCTCAAGG-TCTGAT
1 ACAATACACCGGCACGAAGCCTGCTAGGCTCAAGGCT-TGAT
49322840 ACAATA
1 ACAATA
49322846 GACTAGCAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 78 0.99
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (41 bp):
ACAATACACCGGCACGAAGCCTGCTAGGCTCAAGGCTTGAT
Found at i:49322860 original size:41 final size:41
Alignment explanation
Indices: 49322717--49322872 Score: 172
Period size: 41 Copynumber: 3.8 Consensus size: 41
49322707 ACTACCTAAA
* * *
49322717 ACAATACACGGGCACGAAGCCTGCTAGGCTCAAGGCTTGAT
1 ACAATACACTGGCAAGAAGCCTACTAGGCTCAAGGCTTGAT
* * * * *
49322758 ACAACACACCGGCACGAAGCCTGCTAGGCTTAAGGCTTGAT
1 ACAATACACTGGCAAGAAGCCTACTAGGCTCAAGGCTTGAT
49322799 ACAATACACTGGCACA-AAGCCTACTAGGCTCAAGG-TCTGAT
1 ACAATACACTGGCA-AGAAGCCTACTAGGCTCAAGGCT-TGAT
* * * *
49322840 ACAATAGACTAGCAAGAAGCCTAGTACGCTCAA
1 ACAATACACTGGCAAGAAGCCTACTAGGCTCAA
49322873 AGCCTGTTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 98 0.98
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.17
Consensus pattern (41 bp):
ACAATACACTGGCAAGAAGCCTACTAGGCTCAAGGCTTGAT
Found at i:49325464 original size:5 final size:5
Alignment explanation
Indices: 49325414--49325457 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
49325404 CGACATAAGA
* **
49325414 AAAAT AAAAG AAGCT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
49325458 AATAAAACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:49326665 original size:21 final size:21
Alignment explanation
Indices: 49326641--49326680 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49326631 GCCTAAGATG
*
49326641 TGAATTGGATTGAATTGAATA
1 TGAATTGGATTAAATTGAATA
*
49326662 TGAATTGTATTAAATTGAA
1 TGAATTGGATTAAATTGAA
49326681 CTAAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAATA
Found at i:49336477 original size:26 final size:26
Alignment explanation
Indices: 49336442--49336493 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49336432 ATGTGAAAAG
*
49336442 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
49336468 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
49336494 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:49336644 original size:105 final size:105
Alignment explanation
Indices: 49336363--49336734 Score: 642
Period size: 104 Copynumber: 3.6 Consensus size: 105
49336353 TTGTATATAA
** *
49336363 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
49336428 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
49336467 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
49336532 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
49336572 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
49336636 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
49336676 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
49336735 ATAACGGTTA
Statistics
Matches: 257, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
104 181 0.70
105 75 0.29
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:49338980 original size:9 final size:8
Alignment explanation
Indices: 49338965--49338995 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
49338955 AAATGGATAA
49338965 ATAAAAAT
1 ATAAAAAT
49338973 AGTAAAAAT
1 A-TAAAAAT
49338982 ATAAAAAT
1 ATAAAAAT
49338990 ATAAAA
1 ATAAAA
49338996 TAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
ATAAAAAT
Found at i:49340463 original size:44 final size:42
Alignment explanation
Indices: 49340415--49340522 Score: 121
Period size: 41 Copynumber: 2.5 Consensus size: 42
49340405 AGTCTACTCC
*
49340415 ACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAA-CTTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTT-TAA-TATAATC-TGCTCT
* * * *
49340459 ACTGCAACTTAAGGGAGATAAG-GTTTGATATGATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGACTTTAATATAATCTGCTCT
*
49340500 ACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGA
49340523 TCTACAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 29 0.53
42 3 0.05
43 2 0.04
44 21 0.38
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (42 bp):
ACTGCAACTTCAGGGAGATAAGACTTTAATATAATCTGCTCT
Found at i:49340645 original size:44 final size:45
Alignment explanation
Indices: 49340411--49340662 Score: 140
Period size: 44 Copynumber: 5.6 Consensus size: 45
49340401 TTTTAGTCTA
* * *
49340411 CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTTAA-CTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTAGCTTCAATC-TG
* * ** * * *
49340455 CTCTACTGCAACTTAAGGGAGATAAGGTTTGATA---T-GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTAGCTTCAATCTG
* * ** *
49340496 CTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-C----GCTAGCTTCAATCTG
* * * * * *
49340547 TTCAACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTAGCTTCAATCTG
* * * * *
49340592 CTTCGCTGCAACTTCAGGGAGATAAGGCT-GGTGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTAGCTTCAATCTG
* *
49340636 CTCCACTGCAACTTTAGAGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
49340663 TCTGCCATAA
Statistics
Matches: 157, Mismatches: 39, Indels: 24
0.71 0.18 0.11
Matches are distributed among these distances:
41 27 0.17
42 3 0.02
44 60 0.38
45 34 0.22
47 3 0.02
49 1 0.01
50 2 0.01
51 27 0.17
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGCTAGCTTCAATCTG
Found at i:49340882 original size:142 final size:143
Alignment explanation
Indices: 49340491--49340902 Score: 507
Period size: 142 Copynumber: 2.9 Consensus size: 143
49340481 GTTTGATATG
* * * * * *
49340491 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT---ACAATTTATAGCTTCAATCTATTCAAC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCAC
** * * * * *
49340553 TGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTTCGCTGCAACTTCAGGGAGATAAG
66 TGCAACGCCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAG
49340618 GCTGGTGGCTTCA
131 GCTGGTGGCTTCA
* *
49340631 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCAC
* * * * * *
49340696 TGCTACGCC-AGAGAAATAAGATTTGTTGTATTCAGTTTGTTCCACTGCAACTTCAAGGAGATAA
66 TGCAACGCCAAG-GAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAA
49340760 GGCTGGT-GCTTCA
130 GGCTGGTGGCTTCA
*
49340773 ATCTGCTCCACTGCAACTTCA-AGAAGATAAGATCTGCCATAATTTGTAGTTTTAATCTGTTCCA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCA
* * *
49340837 CTGCAACGCCAAGGAAATAAGGTTTGACT-TCTTCAATCTACTCCACTGCAACTTC-AGGAAGAT
65 CTGCAACGCCAAGGAAATAAGATTTG-CTATCTTCAGTCTGCTCCACTGCAACTTCAAGG-AGAT
49340900 AAG
128 AAG
49340903 ATTCGCCATA
Statistics
Matches: 232, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
140 33 0.14
141 5 0.02
142 114 0.49
143 80 0.34
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (143 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCAC
TGCAACGCCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAG
GCTGGTGGCTTCA
Found at i:49340902 original size:99 final size:98
Alignment explanation
Indices: 49340733--49341001 Score: 317
Period size: 99 Copynumber: 2.7 Consensus size: 98
49340723 GTATTCAGTT
** * * * * *
49340733 TGTTCCACTGCAACTTCAAGGAGATAAGG-CTGGTGCTTCAATCTGCTCCACTGCAACTTCAAGA
1 TGTTCCACTGCAACGCCAAGGAAATAAGGTTTGCTTCTTCAATCTGCTCCACTGCAACTTCAGGA
*
49340797 AGATAAGA-TCTGCCATAATTTGTAGTTTTAATC
66 AGATAAGATTC-GCCATAATTTGTAGCTTTAATC
*
49340830 TGTTCCACTGCAACGCCAAGGAAATAAGGTTTGACTTCTTCAATCTACTCCACTGCAACTTCAGG
1 TGTTCCACTGCAACGCCAAGGAAATAAGGTTTG-CTTCTTCAATCTGCTCCACTGCAACTTCAGG
49340895 AAGATAAGATTCGCCATAATTTGTAGCTTTAATC
65 AAGATAAGATTCGCCATAATTTGTAGCTTTAATC
* * * * * * * * * *
49340929 TATTCCACTGTAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGTAACTTCAGG
1 TGTTCCACTGCAACGCCAAGGAAATAAGGTTTGCT-TCTTCAATCTGCTCCACTGCAACTTCAGG
*
49340994 GAGATAAG
65 AAGATAAG
49341002 GTTGGTGACT
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
97 26 0.18
98 4 0.03
99 115 0.78
100 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (98 bp):
TGTTCCACTGCAACGCCAAGGAAATAAGGTTTGCTTCTTCAATCTGCTCCACTGCAACTTCAGGA
AGATAAGATTCGCCATAATTTGTAGCTTTAATC
Found at i:49340921 original size:241 final size:242
Alignment explanation
Indices: 49340626--49341099 Score: 670
Period size: 241 Copynumber: 2.0 Consensus size: 242
49340616 AGGCTGGTGG
* * *
49340626 CTTCAATCTGCTCCACTGCAACTTTAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGT
1 CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTAT
* * * *
49340691 TCCATTGCT-ACGCCAGAGAAATAAGATTTGTTGTATTCAGTTTG-TTCCACTGCAACTTCAAGG
66 TCCACTG-TAACGCCAGAGAAATAAGATTCGCTGTATTCAGTCTGCTT-CACTGCAACTTCAAGG
**
49340754 AGATAAGGCTGGTG-CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCTGCCATAATTT
129 AGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTT
* * *
49340818 GTAGTTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGGTTTGACTT
194 GTAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGGTTTGACTT
49340867 CTTCAATCTACTCCACTGCAACTTCAG-GAAGATAAGAT-TCGCCATAATTTGTAGCTTTAATCT
1 CTTCAATCTACTCCACTGCAACTTCAGAG-AGATAAGATCT-GCCATAATTTGTAGCTTTAATCT
* * * * * *
49340930 ATTCCACTGTAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGTAACTTCAGGG
64 ATTCCACTGTAACGCCAGAGAAATAAGATTCGCTGTATTCAGTCTGCTTCACTGCAACTTCAAGG
*
49340995 AGATAAGGTTGGTGACTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTT
129 AGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTT
* * * *
49341060 TTAGCTTTAATCTATTCTACTACAACGCTAGGGAAATAAG
194 GTAGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAG
49341100 ATTAGTTGTC
Statistics
Matches: 205, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
240 3 0.01
241 119 0.58
242 83 0.40
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (242 bp):
CTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATCTGCCATAATTTGTAGCTTTAATCTAT
TCCACTGTAACGCCAGAGAAATAAGATTCGCTGTATTCAGTCTGCTTCACTGCAACTTCAAGGAG
ATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTTGT
AGCTTTAATCTATTCCACTACAACGCCAAGGAAATAAGGTTTGACTT
Found at i:49341001 original size:45 final size:44
Alignment explanation
Indices: 49340946--49341047 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 44
49340936 CTGTAACGCT
* * * * * *
49340946 AGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGTAACTTC
1 AGGGAGATAAGATT-GCTGACTTCAATCTGCTCCACTGCAACTTC
* *
49340991 AGGGAGATAAGGTTGGTGACTTCAATCTGCTCCACTGCAACTTC
1 AGGGAGATAAGATTGCTGACTTCAATCTGCTCCACTGCAACTTC
* *
49341035 AAGAAGATAAGAT
1 AGGGAGATAAGAT
49341048 CCACCATAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
44 34 0.74
45 12 0.26
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATTGCTGACTTCAATCTGCTCCACTGCAACTTC
Found at i:49341033 original size:143 final size:143
Alignment explanation
Indices: 49340867--49341367 Score: 620
Period size: 143 Copynumber: 3.5 Consensus size: 143
49340857 GGTTTGACTT
*
49340867 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTAT
** * *
49340932 TCCACTGTAACGCTAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGTAACTTCAGGGAG
66 TCCACTACAACGCTAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGAG
* *
49340997 ATAAGGTTGGTGA
131 ATAAGGCTGGTGG
* * * *
49341010 CTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATCCACCATAATTTTTAGCTTTAATCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTAT
* * * *
49341075 TCTACTACAACGCTAGGGAAATAAGATTAGTTGTCTTCAGTCTGC-TCTGTTGCAACTTCAAGGA
66 TCCACTACAACGCTAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTTC-GCTGCAACTTCAGGGA
49341139 GATAAGGCTGGTGG
130 GATAAGGCTGGTGG
* * * *** * * *
49341153 CTTCAATCTGTTCCACTGCGACTTCAGGAAGATAA-AATCTTTTATAATTAGTATCTTTAATCTG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAATTTGTAGCTTTAATCTA
* * ** * * *
49341217 TTCCATTACAACG-TCAGGGAAATAAGATTTGCAATCTTTAGTCTGCTCCACTGCAACTTCAGGG
65 TTCCACTACAACGCT-AGGGAAATAAGATTAGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGG
49341281 AGATAAGGCTGGTGG
129 AGATAAGGCTGGTGG
*
49341296 CTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAGATTCGCCATAA--TG-A-CTTTAATCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTAT
* *
49341357 CCCACTGCAAC
66 TCCACTACAAC
49341368 TTCAGGGGTA
Statistics
Matches: 303, Mismatches: 50, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
139 18 0.06
140 1 0.00
141 1 0.00
142 5 0.02
143 274 0.90
144 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (143 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTAT
TCCACTACAACGCTAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGAG
ATAAGGCTGGTGG
Found at i:49342234 original size:6 final size:6
Alignment explanation
Indices: 49342225--49342301 Score: 68
Period size: 6 Copynumber: 13.0 Consensus size: 6
49342215 TTGGCCTCTC
** * * *
49342225 CTTTTT CTTTTT CTTCTTT -TGCTT CTTCTT CTATTT C-TTTT CCTTTT
1 CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
* *
49342272 CTTTTT CTATTT CTTTTT CTATTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
49342302 TTTAATTGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
5 6 0.11
6 48 0.84
7 3 0.05
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (6 bp):
CTTTTT
Found at i:49342262 original size:12 final size:12
Alignment explanation
Indices: 49342225--49342301 Score: 86
Period size: 12 Copynumber: 6.5 Consensus size: 12
49342215 TTGGCCTCTC
*
49342225 CTTTTTCTTTTT
1 CTTTTTCTATTT
**
49342237 CTTCTTT-TGCTT
1 CTT-TTTCTATTT
*
49342249 CTTCTTCTATTT
1 CTTTTTCTATTT
*
49342261 CTTTTCCT-TTT
1 CTTTTTCTATTT
49342272 CTTTTTCTATTT
1 CTTTTTCTATTT
49342284 CTTTTTCTATTT
1 CTTTTTCTATTT
49342296 CTTTTT
1 CTTTTT
49342302 TTTAATTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
11 12 0.22
12 39 0.72
13 3 0.06
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.74
Consensus pattern (12 bp):
CTTTTTCTATTT
Found at i:49342272 original size:35 final size:35
Alignment explanation
Indices: 49342227--49342300 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
49342217 GGCCTCTCCT
* *
49342227 TTTTCTTTTTCTTCTTT-TGCTTCTTCTTCTATTTC
1 TTTTCCTTTTCTT-TTTCTACTTCTTCTTCTATTTC
* *
49342262 TTTTCCTTTTCTTTTTCTATTTCTTTTTCTATTTC
1 TTTTCCTTTTCTTTTTCTACTTCTTCTTCTATTTC
49342297 TTTT
1 TTTT
49342301 TTTTAATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (35 bp):
TTTTCCTTTTCTTTTTCTACTTCTTCTTCTATTTC
Found at i:49342279 original size:23 final size:24
Alignment explanation
Indices: 49342247--49342301 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
49342237 CTTCTTTTGC
*
49342247 TTCTTCTTCTATTTCTTTTCCT-T
1 TTCTTTTTCTATTTCTTTTCCTAT
*
49342270 TTCTTTTTCTATTTCTTTTTCTAT
1 TTCTTTTTCTATTTCTTTTCCTAT
49342294 TTCTTTTT
1 TTCTTTTT
49342302 TTTAATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (24 bp):
TTCTTTTTCTATTTCTTTTCCTAT
Found at i:49346507 original size:40 final size:40
Alignment explanation
Indices: 49346354--49346500 Score: 174
Period size: 40 Copynumber: 3.6 Consensus size: 40
49346344 TTGAATGATG
* * * *
49346354 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49346394 TCCGGACTAAGAAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG--TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49346435 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49346476 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49346501 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 58 0.62
41 26 0.28
42 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49354347 original size:40 final size:40
Alignment explanation
Indices: 49354264--49354448 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
49354254 TTGAATGATG
* * * *
49354264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
49354304 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49354344 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49354383 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49354424 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49354449 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
39 38 0.29
40 83 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49354400 original size:79 final size:82
Alignment explanation
Indices: 49354264--49354448 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
49354254 TTGAATGATG
*
49354264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
49354328 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * * * **
49354344 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
49354406 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
49354424 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49354449 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:49354470 original size:79 final size:79
Alignment explanation
Indices: 49354317--49354481 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
49354307 GGACTAAGAT
* **
49354317 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
49354382 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
49354396 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
49354459 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
49354475 CCGAAGG
1 CCGAAGG
49354482 TACGTGATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
79 49 0.64
80 27 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:49357750 original size:23 final size:23
Alignment explanation
Indices: 49357724--49357767 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49357714 AAATAAGATA
49357724 AATAATAA-AAAATAAGACAAACC
1 AATAATAAGAAAATAA-ACAAACC
*
49357747 AATAATAAGTAAATAAACAAA
1 AATAATAAGAAAATAAACAAA
49357768 TAAAAACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (23 bp):
AATAATAAGAAAATAAACAAACC
Found at i:49357898 original size:12 final size:14
Alignment explanation
Indices: 49357874--49357908 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
49357864 AAATGAAAAT
49357874 ATAAAAAATATATG
1 ATAAAAAATATATG
49357888 -TAAAAAA-ATATG
1 ATAAAAAATATATG
49357900 ATAAAAAAT
1 ATAAAAAAT
49357909 GAAGATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
ATAAAAAATATATG
Found at i:49357996 original size:15 final size:15
Alignment explanation
Indices: 49357966--49358002 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
49357956 TAAAATGGAT
49357966 AAATAAAAATAGTAA
1 AAATAAAAATAGTAA
49357981 AAATATAAAATA-T-A
1 AAATA-AAAATAGTAA
49357995 AAATAAAA
1 AAATAAAA
49358003 CAAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 6 0.29
15 6 0.29
16 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
AAATAAAAATAGTAA
Found at i:49358814 original size:16 final size:17
Alignment explanation
Indices: 49358773--49358814 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
49358763 TTCTTCTCTA
*
49358773 TTTTTTTTGCTATATTT
1 TTTTTTTTGCAATATTT
* *
49358790 TTTTGTTTG-AATCTTT
1 TTTTTTTTGCAATATTT
49358806 TTTTTTTTG
1 TTTTTTTTG
49358815 TATTTCAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.76
Consensus pattern (17 bp):
TTTTTTTTGCAATATTT
Found at i:49380577 original size:24 final size:24
Alignment explanation
Indices: 49380549--49380596 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49380539 TTCATATTGA
49380549 ATATTGAATATTTAAATTTTTACT
1 ATATTGAATATTTAAATTTTTACT
49380573 ATATTGAATATTTAAATTTTTACT
1 ATATTGAATATTTAAATTTTTACT
49380597 CAATATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTGAATATTTAAATTTTTACT
Found at i:49381029 original size:18 final size:19
Alignment explanation
Indices: 49381006--49381043 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49380996 CGTGCGTGAC
49381006 TTTCTTT-TCTTC-TTTCTT
1 TTTCTTTCT-TTCTTTTCTT
49381024 TTTCTTTCTTTCTTTTCTT
1 TTTCTTTCTTTCTTTTCTT
49381043 T
1 T
49381044 CTAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCTTTCTTTCTTTTCTT
Found at i:49381040 original size:13 final size:13
Alignment explanation
Indices: 49381005--49381045 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
49380995 TCGTGCGTGA
49381005 CTTTCTTTTC-TT
1 CTTTCTTTTCTTT
49381017 CTTTCTTTTTCTTT
1 CTTTC-TTTTCTTT
49381031 CTTTCTTTTCTTT
1 CTTTCTTTTCTTT
49381044 CT
1 CT
49381046 AATTTGTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTCTTTTCTTT
Found at i:49381120 original size:18 final size:18
Alignment explanation
Indices: 49381071--49381124 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
49381061 ATCTTTCTTT
*
49381071 CTTTATTTTTTTATTATA
1 CTTTAATTTTTTATTATA
*
49381089 C-TAAATTTTTTTATTATA
1 CTTTAA-TTTTTTATTATA
*
49381107 CTTTAATTTATTATTATA
1 CTTTAATTTTTTATTATA
49381125 ATATATATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.83
19 3 0.10
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (18 bp):
CTTTAATTTTTTATTATA
Found at i:49385998 original size:10 final size:10
Alignment explanation
Indices: 49385953--49386006 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
49385943 TTTATAACCC
49385953 AAAAAATTAT
1 AAAAAATTAT
*
49385963 AAAAAGTT-T
1 AAAAAATTAT
*
49385972 AAAGAA-TAT
1 AAAAAATTAT
*
49385981 ATAAAAATTTT
1 A-AAAAATTAT
49385992 AAAAAA-TAT
1 AAAAAATTAT
49386001 AAAAAA
1 AAAAAA
49386007 AACCTAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.03
9 15 0.43
10 16 0.46
11 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:49386007 original size:20 final size:20
Alignment explanation
Indices: 49385953--49386006 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
49385943 TTTATAACCC
49385953 AAAAAAT-TATAAAAAGTTT
1 AAAAAATATATAAAAAGTTT
* *
49385972 AAAGAATATATAAAAATTTT
1 AAAAAATATATAAAAAGTTT
49385992 AAAAAATATA-AAAAA
1 AAAAAATATATAAAAA
49386007 AACCTAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAAAATATATAAAAAGTTT
Found at i:49386239 original size:12 final size:12
Alignment explanation
Indices: 49386222--49386246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49386212 ATTTAATTAT
49386222 TTTCTAAGTCAA
1 TTTCTAAGTCAA
49386234 TTTCTAAGTCAA
1 TTTCTAAGTCAA
49386246 T
1 T
49386247 CTCCCTTGCA
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTCTAAGTCAA
Found at i:49389496 original size:10 final size:10
Alignment explanation
Indices: 49389477--49389508 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
49389467 GCTGTCATAC
*
49389477 TGCTGATTAA
1 TGCTGTTTAA
49389487 TGCTGTTTAA
1 TGCTGTTTAA
49389497 TGCTGTTTAA
1 TGCTGTTTAA
49389507 TG
1 TG
49389509 ATTTTGTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (10 bp):
TGCTGTTTAA
Found at i:49400304 original size:26 final size:25
Alignment explanation
Indices: 49400272--49400320 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
49400262 AAATGTTCTA
*
49400272 AAAATAAAATAATTTATAAAATTAAG
1 AAAATAAAA-AAGTTATAAAATTAAG
*
49400298 AAAATAAAAAAGTTCTAAAATTA
1 AAAATAAAAAAGTTATAAAATTA
49400321 TTGGGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAATAAAAAAGTTATAAAATTAAG
Found at i:49400429 original size:19 final size:18
Alignment explanation
Indices: 49400407--49400448 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49400397 ATTTTTTCAA
49400407 AATTTTGGAAATATTTATT
1 AATTTTGG-AATATTTATT
* *
49400426 AATTTTTGAATGTTTATT
1 AATTTTGGAATATTTATT
49400444 -ATTTT
1 AATTTT
49400449 TTATATTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 7 0.33
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (18 bp):
AATTTTGGAATATTTATT
Found at i:49402232 original size:22 final size:21
Alignment explanation
Indices: 49402198--49402246 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
49402188 TATAAAAATA
*
49402198 TTTA-AAAATTTAAAAATATTTT
1 TTTATAAAATTT-AAAAT-TGTT
49402220 TTTATAAAA-TTAAAATTGTT
1 TTTATAAAATTTAAAATTGTT
49402240 TTTATAA
1 TTTATAA
49402247 TGTTTCACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
22 6 0.24
23 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTATAAAATTTAAAATTGTT
Found at i:49403028 original size:15 final size:16
Alignment explanation
Indices: 49402982--49403028 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
49402972 TATAAAAATC
*
49402982 ATATATAAAACCTTAAT
1 ATATATAAAA-ATTAAT
49402999 ATATATGAAATAATTAA-
1 ATATAT-AAA-AATTAAT
49403016 ATATATAAAAATT
1 ATATATAAAAATT
49403029 CAAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 12 0.44
18 7 0.26
19 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATATAAAAATTAAT
Found at i:49417821 original size:13 final size:13
Alignment explanation
Indices: 49417803--49417836 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
49417793 TAGCATCGTC
49417803 AATATTTAATAAA
1 AATATTTAATAAA
49417816 AATATTTAATAAA
1 AATATTTAATAAA
49417829 AATATTTA
1 AATATTTA
49417837 CGGGCCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATATTTAATAAA
Found at i:49431663 original size:26 final size:24
Alignment explanation
Indices: 49431624--49431673 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
49431614 TACACCACAG
49431624 GTCACCCAACTATGGATCATTTTTTT
1 GTCACCCAACTAT-GAT-ATTTTTTT
*
49431650 GTCACCCAATTATGATATTTTTTT
1 GTCACCCAACTATGATATTTTTTT
49431674 AAAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 3 0.13
26 12 0.52
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (24 bp):
GTCACCCAACTATGATATTTTTTT
Found at i:49432048 original size:17 final size:18
Alignment explanation
Indices: 49432026--49432069 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
49432016 GACAAGAAAT
49432026 AATATATAAAT-TTTAAA
1 AATATATAAATATTTAAA
49432043 AATATATAAATAATTTAAA
1 AATATATAAAT-ATTTAAA
49432062 AA-ATATAA
1 AATATATAA
49432070 TAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 6 0.24
19 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATATAAATATTTAAA
Found at i:49432064 original size:21 final size:20
Alignment explanation
Indices: 49432026--49432081 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
49432016 GACAAGAAAT
49432026 AATATATAAAT--TTT-AAA
1 AATATATAAATAATTTAAAA
49432043 AATATATAAATAATTTAAAA
1 AATATATAAATAATTTAAAA
49432063 AATATA-ATAATAAATTTAA
1 AATATATA-AAT-AATTTAA
49432082 CTTTTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.32
19 4 0.12
20 12 0.35
21 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATATAAATAATTTAAAA
Found at i:49435503 original size:2 final size:2
Alignment explanation
Indices: 49435496--49435528 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
49435486 ATGATTTCTT
49435496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49435529 TTGTTAGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49453030 original size:7 final size:7
Alignment explanation
Indices: 49453019--49453086 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
49453009 ATAAATATAT
*
49453019 ATTTTTT
1 ATTTTTA
49453026 ATTTTTA
1 ATTTTTA
*
49453033 TTTTTTA
1 ATTTTTA
49453040 ATTTTTA
1 ATTTTTA
49453047 ATTTTTA
1 ATTTTTA
49453054 ATTTTTA
1 ATTTTTA
49453061 ATTTTTA
1 ATTTTTA
49453068 ATTTTTA
1 ATTTTTA
49453075 ATTTTTA
1 ATTTTTA
49453082 ATTTT
1 ATTTT
49453087 AAAATACTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 58 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:49453144 original size:27 final size:26
Alignment explanation
Indices: 49453094--49453146 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
49453084 TTTAAAATAC
*
49453094 TTTAAAATTTTTTTTATTTTTTTATT
1 TTTAAAATTTTTTTTATTTGTTTATT
49453120 TTTAAAATATTTTTTT-TTGTGTTTATT
1 TTTAAAAT-TTTTTTTATT-TGTTTATT
49453147 AAAAATCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (26 bp):
TTTAAAATTTTTTTTATTTGTTTATT
Found at i:49462354 original size:15 final size:15
Alignment explanation
Indices: 49462334--49462365 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49462324 AGAGACGACT
49462334 AAGGAGAAAAAAAGA
1 AAGGAGAAAAAAAGA
*
49462349 AAGGAGAGAAAAAGA
1 AAGGAGAAAAAAAGA
49462364 AA
1 AA
49462366 AAAAATGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (15 bp):
AAGGAGAAAAAAAGA
Found at i:49464810 original size:20 final size:21
Alignment explanation
Indices: 49464785--49464823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49464775 ATCTTACATG
*
49464785 AAATTAAA-AATATAACTCTT
1 AAATTAAAGAAAATAACTCTT
49464805 AAATTAAAGAAAATAACTC
1 AAATTAAAGAAAATAACTC
49464824 AATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (21 bp):
AAATTAAAGAAAATAACTCTT
Found at i:49466679 original size:24 final size:24
Alignment explanation
Indices: 49466651--49466702 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49466641 TTAGTAAGTC
* *
49466651 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
49466675 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49466699 AAAT
1 AAAT
49466703 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49467290 original size:9 final size:9
Alignment explanation
Indices: 49467276--49467336 Score: 95
Period size: 9 Copynumber: 6.6 Consensus size: 9
49467266 TTTGGTTAAA
49467276 AATTACCCG
1 AATTACCCG
49467285 AATTACCCG
1 AATTACCCG
49467294 AATTACCCG
1 AATTACCCG
*
49467303 AAAATTACCCA
1 --AATTACCCG
49467314 AATTACCCG
1 AATTACCCG
49467323 AATTACCCG
1 AATTACCCG
49467332 AATTA
1 AATTA
49467337 AATCACTACA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
9 40 0.83
11 8 0.17
ACGTcount: A:0.39, C:0.30, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:49467317 original size:29 final size:29
Alignment explanation
Indices: 49467274--49467333 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
49467264 TTTTTGGTTA
*
49467274 AAAATTACCCGAATTACCCGAATTACCCG
1 AAAATTACCCAAATTACCCGAATTACCCG
49467303 AAAATTACCCAAATTACCCGAATTACCCG
1 AAAATTACCCAAATTACCCGAATTACCCG
49467332 AA
1 AA
49467334 TTAAATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.20
Consensus pattern (29 bp):
AAAATTACCCAAATTACCCGAATTACCCG
Found at i:49471663 original size:16 final size:16
Alignment explanation
Indices: 49471624--49471663 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
49471614 GGTGTTGTGA
*
49471624 AAATTGGACTGGAATT
1 AAATTGGGCTGGAATT
**
49471640 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGAATT
49471656 AAATTGGG
1 AAATTGGG
49471664 AGGGAATAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.33
Consensus pattern (16 bp):
AAATTGGGCTGGAATT
Found at i:49473432 original size:24 final size:24
Alignment explanation
Indices: 49473404--49473455 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49473394 TTAGTAAGTC
* *
49473404 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
49473428 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49473452 AAAT
1 AAAT
49473456 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49482603 original size:11 final size:11
Alignment explanation
Indices: 49482566--49482607 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
49482556 TAAGAAATAA
49482566 AAATCAGAATC
1 AAATCAGAATC
**
49482577 AAATCCCAA-C
1 AAATCAGAATC
49482587 -AATCAGAATC
1 AAATCAGAATC
49482597 AAATCAGAATC
1 AAATCAGAATC
49482608 TGAATCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
9 6 0.24
10 2 0.08
11 17 0.68
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (11 bp):
AAATCAGAATC
Found at i:49482894 original size:151 final size:151
Alignment explanation
Indices: 49482620--49482922 Score: 597
Period size: 151 Copynumber: 2.0 Consensus size: 151
49482610 AATCAAAACC
*
49482620 TAACAAATGCTATGGTCTACTGTTTGAATTTGAATGAAGATTTAGAAGGCTTCAAAGTCCTGATA
1 TAACAAATGCTATGGTCTACTATTTGAATTTGAATGAAGATTTAGAAGGCTTCAAAGTCCTGATA
49482685 CATACAATGTTTAACTTTACATATGTGCTAATGTAATTCTTGTTGCTTCTTGACTTCCTTGCATG
66 CATACAATGTTTAACTTTACATATGTGCTAATGTAATTCTTGTTGCTTCTTGACTTCCTTGCATG
49482750 TCTATGACGGTTTGGTCCTCT
131 TCTATGACGGTTTGGTCCTCT
49482771 TAACAAATGCTATGGTCTACTATTTGAATTTGAATGAAGATTTAGAAGGCTTCAAAGTCCTGATA
1 TAACAAATGCTATGGTCTACTATTTGAATTTGAATGAAGATTTAGAAGGCTTCAAAGTCCTGATA
49482836 CATACAATGTTTAACTTTACATATGTGCTAATGTAATTCTTGTTGCTTCTTGACTTCCTTGCATG
66 CATACAATGTTTAACTTTACATATGTGCTAATGTAATTCTTGTTGCTTCTTGACTTCCTTGCATG
49482901 TCTATGACGGTTTGGTCCTCT
131 TCTATGACGGTTTGGTCCTCT
49482922 T
1 T
49482923 GCAGAAACGT
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 151 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (151 bp):
TAACAAATGCTATGGTCTACTATTTGAATTTGAATGAAGATTTAGAAGGCTTCAAAGTCCTGATA
CATACAATGTTTAACTTTACATATGTGCTAATGTAATTCTTGTTGCTTCTTGACTTCCTTGCATG
TCTATGACGGTTTGGTCCTCT
Found at i:49486848 original size:18 final size:18
Alignment explanation
Indices: 49486820--49486864 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
49486810 CGTTCGTTTC
*
49486820 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
49486837 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
49486856 CAAAACGTT
1 CAAAACGTT
49486865 TTTTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:49500102 original size:12 final size:12
Alignment explanation
Indices: 49500085--49500116 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
49500075 ATCTTGGTAA
49500085 GGCCAATGTGGT
1 GGCCAATGTGGT
49500097 GGCCAATGTGGT
1 GGCCAATGTGGT
*
49500109 AGCCAATG
1 GGCCAATG
49500117 CTCTTAGTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.22
Consensus pattern (12 bp):
GGCCAATGTGGT
Found at i:49509444 original size:12 final size:12
Alignment explanation
Indices: 49509407--49509436 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49509397 TACATTGTTT
*
49509407 TTCTTTCTTTTC
1 TTCTTTCTTTCC
49509419 TTCTTTCTTTCC
1 TTCTTTCTTTCC
49509431 TTCTTT
1 TTCTTT
49509437 TTTGCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTCTTTCTTTCC
Found at i:49509692 original size:770 final size:767
Alignment explanation
Indices: 49507757--49509914 Score: 2841
Period size: 769 Copynumber: 2.8 Consensus size: 767
49507747 ATTATTTGTT
* * * *
49507757 ATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTATTTCGACAACCGTCAAACCACCTTCTAT
1 ATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCT
* * * * * * **
49507822 TTAGCTACACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTGTTTCTCTCTTTTCCACTTT
66 TTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCTTTCTTTTCTTCTTT
** ** *
49507887 CTTTCCTTCTTTTTCACCTTGCCAACACTGACTCCTTCTTTTACTATTGTGCCCATTGCAAAATC
131 CTTTCCTTCTTTTTTGCCTTGCCAACACTGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAATC
* * *
49507952 TTTCTTTTGTTGCATAAGAACACTGCTGTGGCTTGTTATGATTCTATTGTTCGCTTGTTTCTTTC
196 TTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTATTGTTCGCTTGTTTCTTTC
*
49508017 TTCTCCTT-ATGGTGGCTTGGTTGTGTTGGTAAGTTATGTGGAAGATTAGTTCTTTATAAGGTTG
261 TT-TTCTTCATGGTGGCTTGGTTGTGTTGGTAAGTTATGTGGAAGATTAGTTCTTTATAAGGTTG
* * * *
49508081 GGG-TTTGTTGTTTTAAGC-GAAAAAGT-TCGTAGATTAATGATTTTACGATCGATACAGTATTG
325 GGGTTTTGTTGTTTTAAGCAGAAAAA-TCT-GTAGATTAATGATTTTATGATAGATATAGTGTTG
* * * * ** * * *
49508143 TGGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGAACGCCCTCTGAAAAATTAAGTTT
388 TGGCTGGTTGTTGTGGATAGGAGAAGAGTGTGAGGTGATAG-ACAACTTCTGACAAATTAAGGTT
* * * * *
49508208 TTGGAGTAGTCGCTGGAAGTTTGTGGTAATTGCTTGTTTATGAATATAGGGACTGTTTCTTTGAG
452 TTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGGGACTATTTCTTTGAG
* * * * *
49508273 AAAAGAGTGAATTTAAATGGTAATGTTCGTGTTAAATCGAAGTTGTAATCGTTGATTTTGGTGTT
517 AAAAGAGTGAATTTAAATGGTAATGTTCTTGTTAAATCGAAGTTGTAATAGTT-AGTTTGATGCT
* * *
49508338 ATTTGTAGGATTTTAAGTGTACGACTGCT-TGGTGGATTAATCTCGAAGTCAGGTGTGTGAAAAC
581 GTTTGTAGGATTTTAAGTGTACGACT-ATGTAGTGGATTAATCTCGAAGTCAGGTGTGTGAAAAC
* * * * * * *
49508402 AATCCTAAAACTCGGTAGAAACTCGTTAAATATTGAAACAGGGGTTGTTTTTCAAAATTTCCTAG
645 AATCCTAAAACTCGATAGAAACTCGTTAAATAGTGAAACAGGGCTTGTTTTTCAAAACTGCCCAA
* * * *
49508467 TGCCACACAGCCGTGTGTCAGGCCGTGTGGTAGATTATGTGCGCCACACGGCCGTTTA
710 TGCCACACAGCCGTGTGTCAGGCCGTATGGTAAATTATGTGCGCCACACGGCCATGTA
* *
49508525 GTTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCTTCAAACCAACTTCTC
1 ATTTTA-TTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTC
* * *
49508590 TTTGGTTGCATG-TTCTTTCCCTTCTTTCAATTTTGTTTTAAATTTTTTTCGTTCTTTTCTTCTT
65 TTTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCTTTCTTTTCTTCTT
* * * *
49508654 TCTTTCCTTATTTTTTGCCTTGCCAACACCGATTCCTTCTTTTGTTATTCTGCCAATTGCAAAAT
130 TCTTTCCTTCTTTTTTGCCTTGCCAACACTGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAAT
*
49508719 CTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCAATTGTTCGCTTGTTTCTTT
195 CTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTATTGTTCGCTTGTTTCTTT
* *
49508784 CTTTTCTTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTG
260 CTTTTCTTCATGGTGGCTTGGTTGTGTTGGTAAGTTATGTGGAAGATTAGTTCTTTATAAGGTTG
* * *
49508849 GGGTATTGTTGTTTTAAGCAAAAAAATCTGTAGATTAATGATTTTATGATTGATATAGTGTTGTG
325 GGGTTTTGTTGTTTTAAGCAGAAAAATCTGTAGATTAATGATTTTATGATAGATATAGTGTTGTG
* * * *
49508914 GCTGGTTGTTATGGATAGGAGAAGAGTGTGAGGTGATAGACAATCTTTTGGCAAATTAAGGTTTC
390 GCTGGTTGTTGTGGATAGGAGAAGAGTGTGAGGTGATAGACAA-CTTCTGACAAATTAAGGTTTT
* *
49508979 GGTGTAGTTGCTGCAATTTTGTGGTAACTACTTGTTTATGAATATAGGGACTATTTCTTTGAGAA
454 GGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGGGACTATTTCTTTGAGAA
* * * *
49509044 AATAGTGAGTTTAAATGGTAATGTTCTTGTTAAATTGAAGTTTTAATAGTTAGTTGTGATGCTGT
519 AAGAGTGAATTTAAATGGTAATGTTCTTGTTAAATCGAAGTTGTAATAGTTAGTT-TGATGCTGT
* * * * * *
49509109 TTGTAGGATTTTACGTGTACGACTATGTCGTGGATTAATGTCGCTA-TTAGGTGTGTGAAAACGA
583 TTGTAGGATTTTAAGTGTACGACTATGTAGTGGATTAATCTCG-AAGTCAGGTGTGTGAAAACAA
* * *
49509173 TCCTAAAACTTGATAGAAACTCGTTATATCGTGAAACAAGGGCTT-TTTTTCAAAACTGCCCAAT
647 TCCTAAAACTCGATAGAAACTCGTTAAATAGTGAAAC-AGGGCTTGTTTTTCAAAACTGCCCAAT
* * * * * ***
49509237 GCCCCACGGTCGTGTGTCAGGCTGTATGGTAAATTGTGTGTTTCACACGGCCATGTA
711 GCCACACAGCCGTGTGTCAGGCCGTATGGTAAATTATGTGCGCCACACGGCCATGTA
* * * * * *
49509294 ATTTTACTTTTAAAATTAAATCCCTATTATTTTTCTCTTTCGGTATCCGTCAAAGCAACTTCTCT
1 ATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCT
49509359 TTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTGTTTTTCTTTCTTTTCTTCTT
66 TTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATT-TTTTTCTTTCTTTTCTTCTT
*
49509424 TCTTTCCTTCTTTTTTGCCTTGCCAACGCTGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAAT
130 TCTTTCCTTCTTTTTTGCCTTGCCAACACTGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAAT
* * * *
49509489 ATTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTTTTATGATTCTGTTGTTCGCTTGCTTCTTT
195 CTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTATTGTTCGCTTGTTTCTTT
* * *
49509554 CTTTTCTTCATCGTGGCTTGGTTGTGTTGGCAAGTTTTGTGGAAGATTAGTTCTTTATAAGGTTG
260 CTTTTCTTCATGGTGGCTTGGTTGTGTTGGTAAGTTATGTGGAAGATTAGTTCTTTATAAGGTTG
* *
49509619 GGGTTTTGTTGTTTTAAGCAGAAAAATCTGTAGATTAGTGATTTTATGATAGATATAGTGTTGTT
325 GGGTTTTGTTGTTTTAAGCAGAAAAATCTGTAGATTAATGATTTTATGATAGATATAGTGTTGTG
* * * **
49509684 GATGGTTGTTGTGGATAGGAGAAGAGTGCAT-A-GTGGTAGACAACTCTCCGACAAATTGTGGTT
390 GCTGGTTGTTGTGGATAGGAGAAGAGTG--TGAGGTGATAGACAACT-TCTGACAAATTAAGGTT
* * * * * *
49509747 TTGGAGTAGTTGTTGCCAGTTTGTGGTAACTACTTGTTTATGGATATAGGAACGATTTATTTGAG
452 TTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGGGACTATTTCTTTGAG
* ** *
49509812 AAAAGAGCGAATTTATGTGGTAATGTT-TGTGTTAAATCCAAGTTGTAATCA--TAGGTTT-ATG
517 AAAAGAGTGAATTTAAATGGTAATGTTCT-TGTTAAATCGAAGTTGTAAT-AGTTA-GTTTGATG
* * **
49509873 CCGTTTGTAGGATTTTAAATGTACGACTGCGTAGTGGATTAA
579 CTGTTTGTAGGATTTTAAGTGTACGACTATGTAGTGGATTAA
49509915 AGTTGCTGTC
Statistics
Matches: 1213, Mismatches: 159, Indels: 36
0.86 0.11 0.03
Matches are distributed among these distances:
767 4 0.00
768 335 0.28
769 452 0.37
770 419 0.35
771 2 0.00
772 1 0.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (767 bp):
ATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCT
TTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCTTTCTTTTCTTCTTT
CTTTCCTTCTTTTTTGCCTTGCCAACACTGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAATC
TTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTATTGTTCGCTTGTTTCTTTC
TTTTCTTCATGGTGGCTTGGTTGTGTTGGTAAGTTATGTGGAAGATTAGTTCTTTATAAGGTTGG
GGTTTTGTTGTTTTAAGCAGAAAAATCTGTAGATTAATGATTTTATGATAGATATAGTGTTGTGG
CTGGTTGTTGTGGATAGGAGAAGAGTGTGAGGTGATAGACAACTTCTGACAAATTAAGGTTTTGG
AGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGGGACTATTTCTTTGAGAAAA
GAGTGAATTTAAATGGTAATGTTCTTGTTAAATCGAAGTTGTAATAGTTAGTTTGATGCTGTTTG
TAGGATTTTAAGTGTACGACTATGTAGTGGATTAATCTCGAAGTCAGGTGTGTGAAAACAATCCT
AAAACTCGATAGAAACTCGTTAAATAGTGAAACAGGGCTTGTTTTTCAAAACTGCCCAATGCCAC
ACAGCCGTGTGTCAGGCCGTATGGTAAATTATGTGCGCCACACGGCCATGTA
Found at i:49510860 original size:12 final size:12
Alignment explanation
Indices: 49510838--49510871 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49510828 TATGTTTTAC
49510838 ATTTT-TTCTTT
1 ATTTTCTTCTTT
49510849 ATTTTCTTCTTT
1 ATTTTCTTCTTT
*
49510861 CTTTTCTTCTT
1 ATTTTCTTCTT
49510872 ATACGTCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTCTTCTTT
Found at i:49511398 original size:768 final size:768
Alignment explanation
Indices: 49509921--49514942 Score: 6019
Period size: 768 Copynumber: 6.6 Consensus size: 768
49509911 TTAAAGTTGC
* * * *
49509921 TGTCAGGCCGTGTGGTAGATT-TTTGTGTCACATGACCATGTAATTTTCTTTTTTAAAATCAAAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
* * * * * *
49509985 CTCTATTATTTTTCTCTTTCGGAAACCGTCAAACCAACTTCTCTTTCGTTGCACGTGTCTTTTCT
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
* * *
49510050 TTCTGTCATTTTTGTTTTACATTTTTTAGTCTTTCCTTTT-TTCTTTCTTTCCATCTTTTTCACC
131 TTCTTTCA-ATTTGTTTTACA-TTTTT--TCTTT-CTTTTCTTCTTTCTTTCCTTCTTTTTCACC
* * * *
49510114 TTTCCAATGTTCG-CT-C--CTTTTGTTATTGTGCCAATTACGAAATCTTTCTTTTGTTGTGTAA
191 TTGCCAACG-TCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAA
* * * *
49510175 AAACACTGTTGAGGCATGTTATGATTCTGTTGTTCGCTTGTTTGTTTATTTTCCTCGTGGTGGCT
255 GAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCT
* * *
49510240 TGGTTGTGTTTGTAAGTTGTGTGGAAGATTATGTT-TATATAAGGTTGGGGTTTTGTTGTTTTTA
320 TGGTTGTGTTGGTAAGTTGTGTGGAAGATTA-GTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAA
* * *
49510304 GTAGAAAAATTCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTCA-TTGTTGTGGAT
384 GCAAAAAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCT-AGTTGTTGTGGAT
* * *
49510368 ATGAGAAGAGCACATGGTGATAGACAACAC-TTCGACAAATTAAGGTTTTGGAGTAGTTGTTGCA
448 AGGAGAAGAGCGCATGGTGATAGACAAC-CTTTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCA
* * * **
49510432 AGTTTGTGTTAACGACTTGTTTATGAATATAGGGACTG-TTCATTTGAGAAAAGAATGAATTTAA
512 AGTTTGTGGTAACTACTTGTTTATGAATATAGGGATTGTTTC-TTTGAGAAAAGAGCGAATTTAA
* * * * *
49510496 GTGGTAATGTTCGTGTTTAATCGAAGTTGTAACCGTTGGTTTTGGTGTCGATTGTAGGATTTTAA
576 GTGGTAATGTTCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAA
* * * ** *
49510561 GTGTACGATTGTGTGGTGGATTAATGTCGCTATCAAGTGTGTGAAAATGATCTTAAAACTCGATA
641 GTGTACGACTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATA
* * * * *
49510626 GAAACTCATTAAATGGTGAAACAGGGGCTATTTTTCGAAACTGCCCAGTTCCACACGGCTGTG
706 GAAACTCGTTAAATCGTGAAACAGGGGCTATTTTTCGAAACTACCCAGTGCCACACGGCCGTG
* *
49510689 TGTCAGGCCGTTTGGTA-AGTTGTGTGTGTCACACGACCGTGCAATTTTATTTTTTAAAATCAAA
1 TGTCAGGCCGTGTGGTAGA-TTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAA
* * *
49510753 TCCCTATTATTTTTCTCTTTCGGTAACCTTCAAACCAACTTCTCTTTGGTTGCATG-TTCTTTCC
65 TCCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCC
* * * * **
49510817 CTTCTTTCAATTATGTTTTACATTTTTTCTTTATTTTCTTCTTTCTTTTCTTCTTATACGTCTTG
130 CTTCTTTCAATT-TGTTTTACATTTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTTG
* * *
49510882 CCAACGCCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATATTTCTTTTGTTACGTAAGAAC
194 CCAACGTCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGAAC
* * * * *
49510947 ACTGTTGGGGCTTATTATGATTTTATTGTTTGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGT
259 ACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGT
*
49511012 TGTGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGTTTTTGTTGTTTTAAGCAAA
324 TGTGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAAA
49511077 AAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGAGA
389 AAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGAGA
* * *
49511142 AGAGCGCATGGTGATAGACAACCTTTCGTCAAATTAAGGTTTTGGTGTAGTCGCTGCAAGTTTGT
454 AGAGCGCATGGTGATAGACAACCTTTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTTTGT
* * *
49511207 AGTAACAACTTGTTTATGAATATAGGGATTGTTTCTTTGAGAAAAGAGCGAATGTAAGTGGTAAT
519 GGTAACTACTTGTTTATGAATATAGGGATTGTTTCTTTGAGAAAAGAGCGAATTTAAGTGGTAAT
* *
49511272 TTTCATGTTAAATCGAATTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTACGA
584 GTTCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTACGA
* * * * * *
49511337 CTGCATGGTGGATTAATCTCGCTATCAGGTGTGTTAAAACGATCTTAAAACTCGGTAGAAACTCG
649 CTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCG
* * * **
49511402 TTAAATCGTGAAACATGGGCTATTTTTCG-AACTTACCTAGTGCCACACAGTAGTG
714 TTAAATCGTGAAACAGGGGCTATTTTTCGAAAC-TACCCAGTGCCACACGGCCGTG
* *** * * * *
49511457 TGTTAGGCCGTGTGGTAGATTGTGTGCACCACATGATCGTGTGATTTTATTTTTTAATATCAAAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
* * *
49511522 TCCTATTATTTTTCTATTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCAC
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
* * * * **
49511587 TTCTTTCAAGTTTGTTTTATATTTTTTTCCTTCTTTCCTTCTTTCTTTCCTT-GTTTTCACCCAG
131 TTCTTTCAA-TTTGTTTTACA-TTTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTTG
* * * ** * *
49511651 CCAACGTCGACTCCTTCTTTTGTTATTGTTCAAATAGAAAAATCTTTCTTTTTTTGTGTAAGAAC
194 CCAACGTCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGAAC
* * *
49511716 ATTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCATGGTGCCTTGGT
259 ACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGT
* * *
49511781 TGTGTTGTTAAGTTGT-TGGAAGTTTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAGA
324 TGTGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAAA
** * * **
49511845 AAAATATGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGTTGGTTGTTGTGGATTTGAGA
389 AAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGAGA
* * * * * * *
49511910 AGAACGCGTGGTGATAGA-AAACTCTCCAACAAATTAAGGTTTTGGAGTAGTTGTTGCAATTTTG
454 AGAGCGCATGGTGATAGACAACCT-TTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTTTG
* * * * * ** * *
49511974 TGATAACTACAAT-TTTATGAATAAAAGGACTT-TTTCTCTGAGAAAAGAGAAAATTTAAATGGA
518 TGGTAACTAC-TTGTTTATGAATATAGGGA-TTGTTTCTTTGAGAAAAGAGCGAATTTAAGTGGT
* * * *
49512037 AATGTTCATGTTAAACCAAAGTTGTAATCGTTTG-TTT--TG--G--TG-AGGATTTTAAATGTA
581 AATGTTCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTA
* * * *
49512094 CGACTGCATGGTGGATTAATGTCACTATTAGGTGTGTGAAAAGAATCCTAAAACTCGATAGAAAC
646 CGACTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAAC
* * * * *
49512159 TCGTTAAATC-TGAAATC-GGGG-TATTTTTTGAAACTGCCTAGTGCCATACGGCCGAG
711 TCGTTAAATCGTGAAA-CAGGGGCTATTTTTCGAAACTACCCAGTGCCACACGGCCGTG
* * * * ** * *
49512215 TGTCAAGCCGTTTGGTAGATTGTATGTGTCACACGGCTATGTAACTTTATTTTTTTAAATCAAAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
49512280 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTAGG-TGCACGTTTCTTTCC
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTT-GGTTGCACGTTTCTTTCC
* *
49512344 GTTCTTTCAATATTGTTTTACATTTTTTTCTTT-TTTTCTTCTTTCTTTCCTTCTTTTTCGCCTT
130 CTTCTTTCAAT-TTGTTTTACA-TTTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTT
* ** * *
49512408 GCCAATG-CTGACT-C--CTTTTGTTATTGTGCCAATTGTAAAATCTTTCTCTTGTTGCTTAAGA
193 GCCAACGTC-GACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGA
* * *
49512469 ACACTATTGAGGCTTGTTATGATTCTGTTGTTCACTTGTTTCTTTCTTTTCCTGGTGGTGGCCTT
257 ACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGG-CTT
* * * *
49512534 -GTTGCT-TTGGCAAGTTATGTGGAAGATTAGTTCTTTATAATGTTGGAGTTTTGTTGTTTTAAG
321 GGTTG-TGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAG
* * * * *
49512597 CAAAAAAATCTGTAGATTAATGATTTTATGGTAGATATAGTGTTGTGGTTGGTTGTTGTGGATAG
385 CAAAAAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAG
* * * * * * * * * *
49512662 GAGAAGTGCACGTGGTGGTAGACAACCCTCCGAAAAATTAAAGTTTTGGAGTAGTTGCAGTAAGT
450 GAGAAGAGCGCATGGTGATAGACAACCTTTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGT
* * * * *
49512727 TTGTGGTAACTACTTGTTTATGAACATAGGGACTGTTTCTTTGAGAAAAGAGCGACTGTAAGTCG
515 TTGTGGTAACTACTTGTTTATGAATATAGGGATTGTTTCTTTGAGAAAAGAGCGAATTTAAGTGG
* *
49512792 TAATGTTCGTGTTAAATTGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGT
580 TAATGTTCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGT
* * *
49512857 ACAAATGCGTGGTGGATTAATGTCACTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAA
645 ACGACTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAA
* * * * * ** * * *
49512922 TTCGTTACATCGTGAAACATGTGCTATTTTACTCAACTACCAAGTGCCACAAGGCCATG
710 CTCGTTAAATCGTGAAACAGGGGCTATTTTTCGAAACTACCCAGTGCCACACGGCCGTG
** * * * * * *
49512981 TGTCAGGCTATGTGGTAGATTGTGTGGGACACACAACCGTGAAATTTTAATTTCTAAAATCAAAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
* * *
49513046 CCCTATTATTTTTCTCTTTCAGCAACCGTCAAACCAACTTCTCTTCGTTTGCACGTTTCTTTCCC
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
* *
49513111 TTCTTTCAAATTTGTTTTACA-TTTTTCCTTCTTTTCCTCTTT-TTTCCCATTCTTTTTCACCTT
131 TTCTTTC-AATTTGTTTTACATTTTTTCTTTCTTTTCTTCTTTCTTT-CC-TTCTTTTTCACCTT
* *
49513174 GCCAACGTCGGCTCCTTCTTTTGTTATTGAT-CCAATTGAGAAATCTTTCTTTTGTTGCGTAAGA
193 GCCAACGTCGACTCCTTCTTTTGTTATTG-TGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGA
* * *
49513238 ACACTATTGAGGCTTGTTATGATTTTGTTGTTTGCTTGTTTCTTTCTTTTCCTCGT-GTGGCTTG
257 ACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTG
* * *
49513302 GTTGTGTTGGTAAGTTGTGTGCAATATTAGTTCTTTATAAGGTTGGGGTTTTGTT-TTTTAAGTA
322 GTTGTGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCA
* * * *
49513366 GAAAAATCCGTAGATTAATGATTTTATGATAGATATAGTGTAGTGGCT-GATTGTTGTGGATATG
387 AAAAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAG-TTGTTGTGGATAGG
* * * * * *
49513430 AGAAGAGTGCATAGTGATAGACAA-CTCTCTAACAAATTAACGTTTTGGAGTAGTTGTTGCAAGT
451 AGAAGAGCGCATGGTGATAGACAACCTTTC-GACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGT
* * *
49513494 TTGTGGTAACTACTTGTTTATGAATATAGGGATTGCTTCTCTAAGAAAAGAGCGAATTTAAGTGG
515 TTGTGGTAACTACTTGTTTATGAATATAGGGATTGTTTCTTTGAGAAAAGAGCGAATTTAAGTGG
** * * * * * *
49513559 TAACATTCGTGTTAAATCGAAGGTCTAATCGTTGGTTTTGGGGCCGTTTTTTAGTATTTTAAGTG
580 TAATGTTCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCG-TTTGTAGGATTTTAAGTG
* * *
49513624 TACGACTGCGTGGTGGATTGATGTTGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAAAA
644 TACGACTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAA
* * * *
49513689 ACTCGTTAAATCATGAAACAGAGGCTATTTTTTGAAACTACCCAGTGGCACACGGCCGTG
709 ACTCGTTAAATCGTGAAACAGGGGCTATTTTTCGAAACTACCCAGTGCCACACGGCCGTG
* * * * * *
49513749 TGTCAGGCCGTATGGTAGATTGTGTGTGTCACAGGGCTGTGTGATTTTATTTTTTTAAATCAAAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
* * * *
49513814 CCCTATTATTTTTCTATTTCGACAACCGTCAAACCAACTTCTCTTTGGTTGAACGTTTCTTTCAC
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
* *
49513879 TTCCTTT-ATTTTTGTTTTACATGTTTTTCTTTCTTTTCTTCTTTATTTCCTTCTTTTTCACCTT
131 TT-CTTTCA-ATTTGTTTTACAT-TTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTT
* ** *
49513943 GCCAACGTCGACTCCTTCTTTTGTTGTTGTGCCAATTGCGAAATCTTTCTTTTGTTTTGTAAGAT
193 GCCAACGTCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGAA
* * *
49514008 CACTGTTGAGGCTTTTTATGATTCTGTTGTTCGCTTATTTCTTTCTTTTCCTCGTGGTGGCCTGG
258 CACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGG
* * *
49514073 TTGTGTTGGTAAGTTGTATGGAAGATTAGTTTTTTTATAAGGTTGGGGTTTTGTTGTTTTAAGGA
323 TTGTGTTGGTAAGTTGTGTGGAAGATTAG-TTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCA
* * *
49514138 AAAAAAT-TGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTGGTTGTTCTGGATAGGA
387 AAAAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGA
* *
49514202 GAAGAACGCATGGTGATAGACAATCC-TTCGAGAAATTAAGGTTTTGGAGTAGTTGCTGCAAG-T
452 GAAGAGCGCATGGTGATAGACAA-CCTTTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTT
* * * * *
49514265 TGTGGTAACTACTTCTTTGTGAATATAAGG-TCTTTTTCTTTGAGAAAAGAGCGAATTTAAGTTG
516 TGTGGTAACTACTTGTTTATGAATATAGGGAT-TGTTTCTTTGAGAAAAGAGCGAATTTAAGTGG
* * * *
49514329 TAATATTCATGTTTAAATTGAAGTTGTAATCGTTGGTTTTGGTGTCATTTGTAGGATTTTAAGTG
580 TAATGTTCATG-TTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTG
* * * * * ** * * *
49514394 TATGACTTCGTAGTGGATTAATCTCGCTATCATGTGTAAGAAAACAATCCTAAAGCTTGAGAGAA
644 TACGACTGCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAA
* * ** * * * * * **
49514459 ACTCGTTAAGTCGTGAAACAGGGGTTGGTTTTCAAAACTGCCCTA-TGCGACACAGCAGCA
709 ACTCGTTAAATCGTGAAACAGGGGCTATTTTTCGAAACTACCC-AGTGCCACACGGCCGTG
* * * ** * * * *
49514519 TGTCTGGCCGTGTGGTAGATTTTGTGTGCCACTTGGCTGTTTAATTTTATTTTTTAAAATCATAT
1 TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
* *
49514584 CCCTATTATTTTTATCATTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
66 CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
*
49514649 TTCTTTCAAATTTGTTTT--A--TTTT-TTTC---T-TTCTTTC--T--TTCTTTTTCGCCTTG-
131 TTCTTTC-AATTTGTTTTACATTTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTTGC
* * * *
49514700 CAACGCCAACACCTTCTTTTGTTATTGTGCCAATTGCAAAATCTTTCTTTTGTTGCGTAAGAACA
195 CAACGTCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGAACA
*
49514765 CTGTTGAGGCTTG-T-T-A---------T-G-TTGTTTCTTTCTGTTCCTCGTGGTGGCTTGGTT
260 CTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGTT
* * *
49514816 GTGGTGGTAAGGTT-TGTTGG-AGATTAGTTCTTTATAAGGTTGGGGTTTTTTTATTTTAAGCAA
325 GTGTTGGTAA-GTTGTG-TGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAA
* * * *
49514879 AATAATTCGTAGATTAATGATTTTAGGATTGATATAGTGTAGTGGCTAGTTGTTGTGGATAGGA
388 AAAAATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGA
49514943 AAAGCAAGTT
Statistics
Matches: 3646, Mismatches: 530, Indels: 183
0.84 0.12 0.04
Matches are distributed among these distances:
740 37 0.01
741 99 0.03
742 7 0.00
743 1 0.00
752 1 0.00
753 1 0.00
754 1 0.00
755 178 0.05
756 243 0.07
757 27 0.01
758 177 0.05
759 15 0.00
760 88 0.02
761 4 0.00
763 3 0.00
764 104 0.03
765 58 0.02
766 176 0.05
767 240 0.07
768 1153 0.32
769 475 0.13
770 383 0.11
771 157 0.04
772 17 0.00
773 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (768 bp):
TGTCAGGCCGTGTGGTAGATTGTGTGTGTCACACGACCGTGTAATTTTATTTTTTAAAATCAAAT
CCCTATTATTTTTCTCTTTCGGCAACCGTCAAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCC
TTCTTTCAATTTGTTTTACATTTTTTCTTTCTTTTCTTCTTTCTTTCCTTCTTTTTCACCTTGCC
AACGTCGACTCCTTCTTTTGTTATTGTGCCAATTGCGAAATCTTTCTTTTGTTGCGTAAGAACAC
TGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGTTG
TGTTGGTAAGTTGTGTGGAAGATTAGTTCTTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAAAAA
AATCCGTAGATTAATGATTTTATGATTGATATAGTGTTGTGGCTAGTTGTTGTGGATAGGAGAAG
AGCGCATGGTGATAGACAACCTTTCGACAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTTTGTGG
TAACTACTTGTTTATGAATATAGGGATTGTTTCTTTGAGAAAAGAGCGAATTTAAGTGGTAATGT
TCATGTTAAATCGAAGTTGTAATCGTTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTACGACT
GCGTGGTGGATTAATGTCGCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTT
AAATCGTGAAACAGGGGCTATTTTTCGAAACTACCCAGTGCCACACGGCCGTG
Found at i:49515353 original size:12 final size:12
Alignment explanation
Indices: 49515334--49515367 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49515324 TTGTTTTAAA
49515334 TTTT-TTCTTTC
1 TTTTCTTCTTTC
49515345 TTTTCTTCTTTC
1 TTTTCTTCTTTC
*
49515357 TTTCCTTCTTT
1 TTTTCTTCTTT
49515368 TTCACCTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTTC
Found at i:49517409 original size:767 final size:765
Alignment explanation
Indices: 49515091--49518814 Score: 4030
Period size: 735 Copynumber: 4.9 Consensus size: 765
49515081 TATGACTCAT
* * * * * *
49515091 GGTGTGTGAAAACAATCTTAAATCTTGATAGAAACTTGTTAAGA-CATGAAACATGGGTTGTTTT
1 GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAA-ATCGTGAAACA-GGGGTGTTTT
** * * * ***** * * * * * *
49515155 TATAAATTGCCTAGTGCCACTTGGTCGTGTGTTAGGCTGTGTGGTACATTGTGTGCGTCACACGA
64 TCGAAAATGCCCACTGCCACACAACCCTGTGTCAGGCCGTATGGTAGATTGT-TGAGTCACACGA
49515220 CCGTGTAATTTTATTTTTGTAAATCAAAT-CCTATTATTTTTCTCTTTCAGCAACCGTCAAACCA
128 CCGTGTAATTTTATTTTT-TAAATCAAATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAACCA
* * * * *
49515284 ACCTCTCTTTGGTTGCACATTTCTTTCCTTTCTTTCAATTTTGTTTTAAATTTTTTCTTTCTTTT
192 ACTTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTATTTT
* * * *
49515349 CTTCTTTCTTTCCTTCTTTTTCACCTAGCCAACGCTGACTCCTTCTTTTGTTAATGTGCCAATTG
257 CTT-TTTCTTTCCTTCTTTTTCACATTGCCAACGCCGACTCCTTCTTTTGTTATTGTGCCAATTG
* * * * **
49515414 CAAAATCTTTATTTTTTTACTTAAGAACACTGTTGAGGCTTGTTATGATTCTACTGTTCGCTTGT
321 CAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGT
* **
49515479 TTCTTTCTTTTCCTCGGGGTGGCTTGGTTGTGTTGGTAAGTTGTATGGAAGATTAGTTCTTTATA
386 TTCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGGAAGATTAGTTCTTTATA
* * *
49515544 AGGTTGGGGTTTTGTTGTTGTAAGTAATAAAATCCGTAGATTAATGATTTTATGATATATATAGT
451 AGGTTGGGGTTTTGTTGTTTTAAGCAA-AAAATCCGTAGATTAATGATTTTATGATAGATATAGT
* * * * * * * * * *
49515609 GTTGTTGTTGGTTATTTTGGATATGAGAAGAGTGCGTGGTGATAGACAACCCTCCAAAAAATTTA
515 GTTGTGGCTGATTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACTCTCCGAAAAATTAA
* * * * * *
49515674 GGTTTTTGAGTAGTTGCTGCAAGTTTGTGGTAACTAATTGTTTATGAATGTAAGGACTATTTATT
580 GGTTTTGGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCTT
* * * *
49515739 TGGGAAAAGATCGAATGTAAGTGGTAATGTTCGTGTTAAATCAG-AGTTGTAATCGTTGG-TTTG
645 TGAGAAAAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCGTTGGTTTTG
* * *
49515802 TATGTCATTTATAAGATTTTAAGTGTACGATTACGTGGTGGATTAATCTCGCTATCA
710 -GTGCCATTTGTAAGATTTTAAGTGTACGATTACGTGGTGGATTAATCTCGCTATCA
* * * * *
49515859 GGTGTGTAAAAACAATCCAAAAACTCGGTAGAAACTCGTTAAATCGTGAAACATGAGCTGTTTTT
1 GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACA-GGGGTGTTTTT
* * * * * * * * *
49515924 CAAAAACTGCCTAGC-CCCGCACAACCCTGTGTCAGGCTGTGTGGTAGAATGTGGGAG-CTGCAC
65 CGAAAA-TGCCCA-CTGCCACACAACCCTGTGTCAGGCCGTATGGTAGATTGT-TGAGTC-ACAC
* ** * *
49515987 GACAGTGTAATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTTTGCAACTGTTAAACC
126 GACCGTGTAATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAACC
*
49516052 AACTTCTCTTTGGTTGCA-AGTTTCTTTCCCTTCTTTCGATTTTGTTTTACA----------A--
191 AACTTCTCTTTGGTTGCACA-TTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTATT
* * * *
49516104 ----TTTT-TTTCCTTCTTTTTCACCTTTCCTACACCGACT-C--CTTTTGTTATTGTGCCAATT
255 TTCTTTTTCTTTCCTTCTTTTTCACATTGCCAACGCCGACTCCTTCTTTTGTTATTGTGCCAATT
* * *
49516161 GCAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGGGGCTTGTTATAATTCTGTTGTTCGCTTA
320 GCAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTG
* * * * *
49516226 TTTCTTTCTTTTCCTTGTGGTGGCCTGGTTGTGTTGGTAAGTTGT-TGGAAGGTTAGTTCTTGAT
385 TTTCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGGAAGATTAGTTCTTTAT
* * *
49516290 AAGGTTGGGGTTTTGTTGTTTTAA-CAAAAAAAAAAATCCGTAGATTAATAATTTTGTGATAGAG
450 AAGGTTGGGGTTTTGTTGTTTTAAGC-----AAAAAATCCGTAGATTAATGATTTTATGATAGAT
* *
49516354 ATAGTGTTGTGGCT-AGTTGTTGTGGATAGGAGAAGAGCGAGTGGTGATAGACAACTC-CCTGAC
510 ATAGTGTTGTGGCTGA-TTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACTCTCC-GAA
* * * * *
49516417 AAATTAAGGCTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTATTAATGAATAT-AGGATT
573 AAATTAAGGTTTTGGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACT
* * * *
49516481 GTTTCTTTGAGAAAAGAGCGAATTTAAGTGGTAATGGTCGTGTTAATTCA-AAGTTGTAATCATT
638 GTTTCTTTGAGAAAAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCGTT
* * * * *
49516545 GGTTTTGGTGCTATTTGTAGGACTTTACA-TGTACGACTACGCGGTGGATTAATCTCGCTATCA
703 GGTTTTGGTGCCATTTGTAAGATTTTA-AGTGTACGATTACGTGGTGGATTAATCTCGCTATCA
* * * *
49516608 GGTGTGTGAAAACAATCCTAAAACTCGGTAGAAACTCGTTGAATCATGAAATAGGGGATGTTTTT
1 GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACAGGGG-TGTTTTT
** * ** * *
49516673 CGAAAATGCCCACTGCCACACGGCCGTGTGTCAGGCCGTATTCTAGATTGTTAGTGTCACACGTC
65 CGAAAATGCCCACTGCCACACAACCCTGTGTCAGGCCGTATGGTAGATTGTT-GAGTCACACGAC
* *
49516738 CGTGTAATTTTATTTTTTAAATCAAATCCTTATTATTTTTCTCTTTCGGCAACCGTCAAACCAAC
129 CGTGTAATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAACCAAC
* *
49516803 TTCTCTTTGGTTGCACGTTTC-TTCCCTTCTTTCAATTTTCTTTTACATTTTTTCCTTATTTTCT
194 TTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTATTTTCT
* * * *
49516867 TATTTCTTTCCTTCTTTCTCACATTTCCAACGCCGACTCCTTCATTTT-TTATTGTGCAAATTAC
259 T-TTTCTTTCCTTCTTTTTCACATTGCCAACGCCGACTCCTTC-TTTTGTTATTGTGCCAATTGC
* * *
49516931 AGAATCTTTCTTTTGTTGCGTAAGAACATTGTTGAGGCTTGTTATGATTTTGTTGTTCGCTTGTT
322 AAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTT
* *
49516996 TCTTTCTTTTCCTCATGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGAAAGATTAGTTCTTTATAA
387 TCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGGAAGATTAGTTCTTTATAA
** *
49517061 GGTTGGGGTTTTGTTGTTTTAAGCAGAAAAATTTGTAGGTTAATGATTTTATGATAGATATAGTG
452 GGTTGGGGTTTTGTTGTTTTAAGCA-AAAAATCCGTAGATTAATGATTTTATGATAGATATAGTG
* * * *
49517126 TTGTGGTTGATTGTTGTGGATATGAGAAGAGTGCGTGGTGATAGACAACTCTCCGAGAAATTAAG
516 TTGTGGCTGATTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACTCTCCGAAAAATTAAG
* * * * *
49517191 GTTTTGGAGTAGTTGTTGGATGTTTGTGGTAAGTACTTGTTTATGAATATAGGGACTGTTTTTTT
581 GTTTTGGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCTTT
* ** *
49517256 GAGAAAAGAGCAAATTTATGTGGTAACATTCGTGTTAAAT-AGAAGTTGTAATCGTTTGTTTTGG
646 GAGAAAAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCGTTGGTTTTGG
* * * *
49517320 TGCCGTTTGTAAGATTTTAAGTGTACGATTGCGTGGTGGATTAATGTCACTATCA
711 TGCCATTTGTAAGATTTTAAGTGTACGATTACGTGGTGGATTAATCTCGCTATCA
* **
49517375 GGTGTTTGAAAATGATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACATGGGGTGTTTTT
1 GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACA-GGGGTGTTTTT
* * ** * **
49517440 CGAAACTGCCCAATGCCACATGACCCTGTGTCAGGTCGTATGGTAGATTGTGTGAGTCACACGGT
65 CGAAAATGCCCACTGCCACACAACCCTGTGTCAGGCCGTATGGTAGATTGT-TGAGTCACACGAC
* *
49517505 CGTGTAATTTTATTTTTTTGAAATCAAATCCCTATTATTTTTTATCTTTCGGCAACCGTCAAACC
129 CGTGTAATTTTA-TTTTTT-AAATCAAATCCCTATTA-TTTTTCTCTTTCAGCAACCGTCAAACC
49517570 AACTTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTC-----------A-A---TTT-C-----T
191 AACTTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTATTT
* * **
49517614 TC-TTTTCTTT--TTC----GC-C-TTGCCAAAGTTGACTCCTTCTTTTGTTATTGTGCCAATTG
256 TCTTTTTCTTTCCTTCTTTTTCACATTGCCAACGCCGACTCCTTCTTTTGTTATTGTGCCAATTG
* * * ** ** *
49517670 CAAAATCTATCTTCTGTTGAGTAAGAACACTAATGAATCTTGTTATGATTCTGTTGTTCGCTAGT
321 CAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGT
* * * * *
49517735 TTCTTCCTTTTCCTCGTAGTGGCTTGGATGTGTTGGTAAGCTGTGTGGAAGATTAGTTCTTTATA
386 TTCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGGAAGATTAGTTCTTTATA
* *
49517800 AGGTT-GGG--TT-TT-TTTTAAGCAAAAAAATCCGTAGATTAATGATATTATGATAGATATCGT
451 AGGTTGGGGTTTTGTTGTTTTAAGC-AAAAAATCCGTAGATTAATGATTTTATGATAGATATAGT
* * * *
49517860 GTTGTGGCTGGTGGTTGTGGATAGGAGAAGAGCGTGTGGTGATAGACAA-TCCTTCGAAAAATTA
515 GTTGTGGCTGATTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACT-CTCCGAAAAATTA
**
49517924 AGGTTTTGGAGTAACTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCT
579 AGGTTTTGGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCT
* ** *
49517989 TTGAGAAAAGAGCAAATTTAAATGGTAATACTCGTGTTAAATCA-AAGTTGTATTCGTTGGTTTT
644 TTGAGAAAAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCGTTGGTTTT
* * * * *
49518053 GGTGTCATTTGTAGGATTTTAAGTGTAAGAATT-CATGGTGGATTAATCTCGCTATTA
709 GGTGCCATTTGTAAGATTTTAAGTGTACG-ATTACGTGGTGGATTAATCTCGCTATCA
* * *
49518110 --TGTGTG--AGCAATCCTAAAACTCGAGAGAAACTCGTTAAATCTTGAAACAGGGGTTGGTTTT
1 GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACAGGGG-T-GTTTT
** *** * * * * * * *
49518171 T-GAAAACACCTTGTGCGTCACAGCAA--C-ATGTCTGGCCGTGTGGTAGATTTTGTGCGCCACT
64 TCGAAAATGCCCACTGC--CACA-CAACCCTGTGTCAGGCCGTATGGTAGATTGT-TGAGTCACA
* * * *
49518232 TGGCCGTTTAATTTTATTTTTTAAAATCATATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAA
125 CGACCGTGTAATTTTATTTTTT-AAATCAAATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAA
** * * * * *
49518297 CCAACTTCTCTTCAGTTGCACATTTCTTTCCCTTTTTTCAATTTAGTGTTA-TTTTTTTCTTTAT
189 CCAACTTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTAT
* ** *
49518361 TTTCTTCTTTGTTTCCTTCTTTTTTGGC-TTGCCAACGCCGACACCTTCTTTTGTTATTGTGCCA
254 TTTCTT-TTTCTTTCCTTC-TTTTTCACATTGCCAACGCCGACTCCTTCTTTTGTTATTGTGCCA
* * *
49518425 ATTGCAAAATCTTTCTTTTATTGCGTAAGAACACTGTTGAGGCTTGTTATGATTTTGTTGTTCGT
317 ATTGCAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGC
* * * * *
49518490 TTGTTACCTTCTGTTCCTCGTGGAGGCTTGGTTGTGGTGGTAAGTT-T-CATGGAAGATTAGTTC
382 TTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGC--GGAAGATTAGTTC
* * * * * *
49518553 TTTATAAGGTTGGGATTTTTTTGTTTTAAGTAAAAATATCTGTAGATTAATGCTTTT-TGGATTG
445 TTTATAAGGTTGGGGTTTTGTTGTTTTAAGCAAAAA-ATCCGTAGATTAATGATTTTAT-GATAG
* *
49518617 ATATAGTGTAGTGGCT-AGTTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGATAA-TCCTCCG
508 ATATAGTGTTGTGGCTGA-TTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACT-CTCCG
* * *
49518680 GAAAATTAAGGTTTTGGAGTAGTTATTGCAAGTTTGTGGTAACTACTTGTTTATGAATATATGGA
571 AAAAATTAAGGTTTTGGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGA
* * * *
49518745 CTGTTTCATTGAGAAAAGAGCAAATTTCAGTGGTAATGTTTGTGCTAAATC-GAAGTTGTAATCG
636 CTGTTTCTTTGAGAAAAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCG
49518809 TTGGTT
701 TTGGTT
49518815 GATGGTTGTC
Statistics
Matches: 2492, Mismatches: 356, Indels: 220
0.81 0.12 0.07
Matches are distributed among these distances:
729 59 0.02
730 26 0.01
731 87 0.03
732 7 0.00
733 9 0.00
734 2 0.00
735 254 0.10
736 7 0.00
737 2 0.00
739 7 0.00
740 147 0.06
741 1 0.00
742 1 0.00
743 3 0.00
746 3 0.00
747 65 0.03
748 243 0.10
749 175 0.07
750 137 0.05
751 35 0.01
752 3 0.00
753 4 0.00
755 1 0.00
756 3 0.00
757 1 0.00
758 1 0.00
759 149 0.06
760 3 0.00
762 2 0.00
763 9 0.00
764 207 0.08
765 29 0.01
766 134 0.05
767 230 0.09
768 193 0.08
769 191 0.08
770 50 0.02
771 12 0.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.41
Consensus pattern (765 bp):
GGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTCGTTAAATCGTGAAACAGGGGTGTTTTTC
GAAAATGCCCACTGCCACACAACCCTGTGTCAGGCCGTATGGTAGATTGTTGAGTCACACGACCG
TGTAATTTTATTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCAGCAACCGTCAAACCAACTT
CTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTCCTTATTTTCTTT
TTCTTTCCTTCTTTTTCACATTGCCAACGCCGACTCCTTCTTTTGTTATTGTGCCAATTGCAAAA
TCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTGTTGTTCGCTTGTTTCTT
TCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGCGGAAGATTAGTTCTTTATAAGGTT
GGGGTTTTGTTGTTTTAAGCAAAAAATCCGTAGATTAATGATTTTATGATAGATATAGTGTTGTG
GCTGATTGTTGTGGATAGGAGAAGAGCGCGTGGTGATAGACAACTCTCCGAAAAATTAAGGTTTT
GGAGTAGTTGTTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCTTTGAGAA
AAGAGCAAATTTAAGTGGTAATGTTCGTGTTAAATCAGAAGTTGTAATCGTTGGTTTTGGTGCCA
TTTGTAAGATTTTAAGTGTACGATTACGTGGTGGATTAATCTCGCTATCA
Found at i:49519054 original size:15 final size:15
Alignment explanation
Indices: 49519036--49519066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49519026 GTAAAAGCTG
49519036 AAAATAATTAAATAA
1 AAAATAATTAAATAA
*
49519051 AAAATAGTTAAATAA
1 AAAATAATTAAATAA
49519066 A
1 A
49519067 TCTGAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAATTAAATAA
Found at i:49527349 original size:12 final size:12
Alignment explanation
Indices: 49527334--49527367 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
49527324 TTGTTTTACA
*
49527334 TTTTTTTCTTTC
1 TTTTCTTCTTTC
49527346 TTTTCTTCTTTC
1 TTTTCTTCTTTC
*
49527358 TTTCCTTCTT
1 TTTTCTTCTT
49527368 ATACGCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTCTTTC
Found at i:49527842 original size:771 final size:757
Alignment explanation
Indices: 49525507--49527943 Score: 3356
Period size: 756 Copynumber: 3.2 Consensus size: 757
49525497 TTTTAGCATT
* * * * *
49525507 TAATCATCGGTTTTGGTGTCATTTGTAGGATTTTAAGTGTATAACTTCGTGGTGGATTAATCTCG
1 TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACTACGTGGTGGATTAATCTCG
* * * * *
49525572 CTATCAGGTGTGTGAAAATAATCTTAAAACTTGATAGAAACTTGTTAAATTGTGAAATAGGGGCT
66 CTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTTGTTAAATCGTGAAACAGGGGCT
* * * *
49525637 ATTTTTCGAAACTGCCTAGTGCCACACGGCCCTGGGTCAGGCCGTGTGGTAGATTGTGTGCGTCA
131 ATTTTTCAAAACTGCCCAGTGCCACACGGCCGTGTGTCAGGCCGTGTGGTAGATTGTGTGCGTCA
* * ** *
49525702 CACGACCGTGTACTTTTATTTTTTTAAATCAAATCCTTATTATTTTTCTCTTTCGATAACTGTCA
196 CACGACCGTGTAATTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCA
* * * *
49525767 AACAAACTTCTCTTTGCTGGCACGTTTCTTT-CCTTCCTTTCAATTTTGTTTTAAATTTTTTTCT
261 AACCAACTTCTCTTTGGTTGCACGTTTCTTTCCCTT-CTTTCAATTTTGTTTTACATTTTTTTCT
*
49525831 TTCTTTCCTTCCTTT-T-CACCTTGCCAACGCCGA-ATC--CTTTTGTTATTGTGCCAATTGTAA
325 TTCTTTCCTTCCTTTATACACCTTGCCAACGCCGACTTCTTCTTTTGTTATTGTGCCAATTGTAA
* * * **
49525891 AATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTGTTATGATTCTATTATTCGCTTAATTC
390 AATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTCTTATGATTCTATTGTTCACTTGTTTC
*
49525956 TTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAGTTTTTTTATAAA
455 TTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAG-TTATTTATAAA
* * * * *
49526021 GTTTGGGTTTTGTTGTTTTAAGTAGAAAAATCCATAGATTAATGATTTTATGATAGATATACTGT
519 GTTGGGGTTTTGTTGTTTTAA-CAAAAAAATCCGTAGATTAATGATTTTATGATAGATATAGTGT
* * * *
49526086 TCTAGCTAGTTGTTGTGGATATGAGAAGAGCGCGTGGTGATAGACAACCTTCCGACAAATTAAGG
583 TGTGGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGACAACCTTCCGACAAATTAAGG
* * * * *
49526151 TTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTAATAGTTGATGAATATAGGGACTATTTATTTG
648 TTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATA-GGACTGTTTCTTTG
* * * *
49526216 GGAAAAGTGAGAATGTAAGTGGTAATGTTCGTGTTTAATC-AGAGTTG
712 AGAAAAGAGA-AATTTAAGTGGTAATGTTCGTGTTAAATCGA-AGTTG
* * * *
49526263 TAATCGTTAGTTTTGGTGCCGTTTGTAGGATTTTAAGTATACGACTACGTGGTGGATTAATCTCG
1 TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACTACGTGGTGGATTAATCTCG
* * *
49526328 CTATCAGGTGTGTGAAAACAATCCTAAAACTCTG-TAGAAACTCGTTAAATCGTGAAACATGGTC
66 CTATCAGGTGTGTGAAAACAATCCTAAAACTC-GATAGAAACTTGTTAAATCGTGAAACAGGGGC
* * * * * *
49526392 TGTTTTTCAAAACTGCCTAGTGCCACACGGTCGAGTGTCAGGCCGTGTTGTAGATTGTGTGCGCC
130 TATTTTTCAAAACTGCCCAGTGCCACACGGCCGTGTGTCAGGCCGTGTGGTAGATTGTGTGCGTC
* * * * *
49526457 ACACGACCGTCTAATTTTATTTTTTAAAATCAAATACCTATTATTTTTCTCTTTCAGCAACCGTT
195 ACACGACCGTGTAATTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTC
*
49526522 AAACCAACTTCTCTTTGGTTGCACATTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCT
260 AAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCT
* * * * *
49526587 TTCTTTCCTT-CTTTA-A-ACCTTGCCAACACCGACTCCTTTTTTTGTTATTGTGCTAATTGCAA
325 TTCTTTCCTTCCTTTATACACCTTGCCAACGCCGACTTCTTCTTTTGTTATTGTGCCAATTGTAA
* * *
49526649 AATCTTTCTTTTGTTGTGTGAGAACACTGTTGAGGCTTGC-TATGATTCTGTTGTTCACTTGTTT
390 AATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTT-CTTATGATTCTATTGTTCACTTGTTT
* *
49526713 CTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGT-TGGAAGATTAGTTCTTTATAAG
454 CTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAGTTATTTATAAA
* *
49526777 GTTGGAGTTTTGTTGTTTTAAGCAAAAAAATACGTAGATTAATGATTTTATGATAGATATAGTGT
519 GTTGGGGTTTTGTTGTTTTAA-CAAAAAAATCCGTAGATTAATGATTTTATGATAGATATAGTGT
*
49526842 TGTGGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGACAA-CTCTCCGACAATTTAAG
583 TGTGGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGACAACCT-TCCGACAAATTAAG
49526906 GTTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAAGGACTGTTTCTTT
647 GTTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATAT-AGGACTGTTTCTTT
* * * *
49526971 GAGAAAAGAGCGAATTTAAATGGTAATGTTCGTGTTAAATTGAAGTTT
711 GAGAAAAGAG-AAATTTAAGTGGTAATGTTCGTGTTAAATCGAAGTTG
* ** * * * * *
49527019 TAATCGTTGGTTTTGGTGTTGTTTGTAGGATTTTACGTGTA-CAATGACGTGGTGGATTAATGTT
1 TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACT-ACGTGGTGGATTAATCTC
* *
49527083 GCTATCAGGTGTGTGAAAACGATCCTAAAACTCGATAGAAACTTGTTAAATCGTGAAATAGGGGC
65 GCTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTTGTTAAATCGTGAAACAGGGGC
** ** * * *
49527148 TATTTTTTGAAACTGCCCAGTGCCACACGGCCGTGTGTCAGGCCGCATGGTAAATTGTGTGTGTG
130 TATTTTTCAAAACTGCCCAGTGCCACACGGCCGTGTGTCAGGCCGTGTGGTAGATTGTGTGCGTC
* *
49527213 ACACGTCCGTGTAATTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCATC
195 ACACGACCGTGTAATTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTC
* *
49527278 AAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCCTTATTCCAATTTTGTTTTACATTTTTTTCT
260 AAACCAACTTCTCTTTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCT
* *
49527343 TTCTTTTCTTCTTTCTTTCCTTCTTATACGCCTTGCCAACGCTGACTTCTTCTTTTGTTATTGTG
325 TTC---T-TTC---C-TTCC-T-TTATACACCTTGCCAACGCCGACTTCTTCTTTTGTTATTGTG
* *
49527408 CCAATTGTAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTCTTATTATTCAATTGTT
380 CCAATTGTAAAATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTCTTATGATTCTATTGTT
** * * *
49527473 CACTTGTTTCTTTCTTTTCCTCGTGGTGGCTTTATTTTGTTGGTAAGTTGTGTGAAAGATAAGTT
445 CACTTGTTTCTTTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAGTT
* *
49527538 ATTAATAAAGTTGGGGTTTTGTTGTTTTAACAAAAAAAAATCCGTAGATTAATGATTTTATGATT
510 ATTTATAAAGTTGGGGTTTTGTTGTTTTAAC--AAAAAAATCCGTAGATTAATGATTTTATGATA
* * * *
49527603 TATATAGTGTTGTGGCTGGTTGTTGTGGATAGGAGAAGAGTGCGTGGTGGTAGACAACCTTCCGA
573 GATATAGTGTTGTGGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGACAACCTTCCGA
*
49527668 CAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGTGAT
638 CAAATTAAGGTTTTGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAG-GAC
49527733 TGTTTCTTTGAGAAAAGAGTAAATTTAAGTGGTAATGTTCGTGTTAAATCGAAGTTG
702 TGTTTCTTTGAGAAAAGAG-AAATTTAAGTGGTAATGTTCGTGTTAAATCGAAGTTG
*
49527790 TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACTACGTGGTGGATTAATGTCG
1 TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACTACGTGGTGGATTAATCTCG
* ** * * * *
49527855 CTATCAGGTGTGTAAAAATGATTCTAAAACCCTATAGAAACTAGTTAAATCGTGAAACAGGGGCT
66 CTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTTGTTAAATCGTGAAACAGGGGCT
*
49527920 ATTTTTCAAAACTACCCAGTGCCA
131 ATTTTTCAAAACTGCCCAGTGCCA
49527944 TACAGCGGTA
Statistics
Matches: 1478, Mismatches: 169, Indels: 53
0.87 0.10 0.03
Matches are distributed among these distances:
755 24 0.02
756 791 0.54
757 18 0.01
758 118 0.08
759 1 0.00
760 3 0.00
763 1 0.00
764 2 0.00
765 1 0.00
766 1 0.00
767 3 0.00
768 2 0.00
769 136 0.09
770 39 0.03
771 334 0.23
772 4 0.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (757 bp):
TAATCATTGGTTTTGGTGCCGTTTGTAGGATTTTAAGTGTATGACTACGTGGTGGATTAATCTCG
CTATCAGGTGTGTGAAAACAATCCTAAAACTCGATAGAAACTTGTTAAATCGTGAAACAGGGGCT
ATTTTTCAAAACTGCCCAGTGCCACACGGCCGTGTGTCAGGCCGTGTGGTAGATTGTGTGCGTCA
CACGACCGTGTAATTTTATTTTTTTAAATCAAATCCCTATTATTTTTCTCTTTCGGCAACCGTCA
AACCAACTTCTCTTTGGTTGCACGTTTCTTTCCCTTCTTTCAATTTTGTTTTACATTTTTTTCTT
TCTTTCCTTCCTTTATACACCTTGCCAACGCCGACTTCTTCTTTTGTTATTGTGCCAATTGTAAA
ATCTTTCTTTTGTTGCGTAAGAACACTGTTGAGGCTTCTTATGATTCTATTGTTCACTTGTTTCT
TTCTTTTCCTCGTGGTGGCTTGGTTGTGTTGGTAAGTTGTGTGGAAGATTAGTTATTTATAAAGT
TGGGGTTTTGTTGTTTTAACAAAAAAATCCGTAGATTAATGATTTTATGATAGATATAGTGTTGT
GGCTGGTTGTTGTGGATAAGAGAAGAGCGCGTGGTGATAGACAACCTTCCGACAAATTAAGGTTT
TGGAGTAGTTGCTGCAAGTTTGTGGTAACTACTTGTTTATGAATATAGGACTGTTTCTTTGAGAA
AAGAGAAATTTAAGTGGTAATGTTCGTGTTAAATCGAAGTTG
Found at i:49536590 original size:43 final size:41
Alignment explanation
Indices: 49536532--49536686 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 41
49536522 TGTATTTTCA
49536532 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTGTGTATACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCAA-TTGTG-ATACG
* * * **
49536575 TGTAAGACCATGTCTGGGACATTGGCATCGTATT-TGATTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-AATTGTGATACG
* *
49536616 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAAT-TGTGA-TACG
49536659 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
49536687 TGTACGAGCC
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
40 2 0.02
41 29 0.31
42 6 0.06
43 54 0.58
44 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAATTGTGATACG
Found at i:49536674 original size:84 final size:84
Alignment explanation
Indices: 49536532--49536686 Score: 210
Period size: 84 Copynumber: 1.8 Consensus size: 84
49536522 TGTATTTTCA
* *
49536532 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTGTGTATACGTGTAAGACCATGTCTGGGACAT
1 TGTAAGACCACGTCTGGGACGTTGGCATCAACTTGTGTATACATGTAAGACCACGTCTGGGACAT
49536597 TGGCATCGTATTTGATTTG
66 TGGCATCGTATTTGATTTG
*
49536616 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTG-ATTACATGTAAGACCACGTCTGGG
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCAACT-TGTGTA-TACATGTAAGACCACGTCTGGG
*
49536677 ACGTTGGCAT
62 ACATTGGCAT
49536687 TGTACGAGCC
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
83 3 0.05
84 59 0.94
85 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (84 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCAACTTGTGTATACATGTAAGACCACGTCTGGGACAT
TGGCATCGTATTTGATTTG
Found at i:49536876 original size:16 final size:17
Alignment explanation
Indices: 49536847--49536878 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49536837 TGAATTGATG
49536847 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
49536864 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
49536879 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:49543437 original size:21 final size:21
Alignment explanation
Indices: 49543413--49543463 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49543403 CACTGAGGAA
** *
49543413 AAGAAGTTTGTTGCCATTGAG
1 AAGAAGTTTGTCACCAATGAG
* *
49543434 AAGAAGTCTGTCACTAATGAG
1 AAGAAGTTTGTCACCAATGAG
49543455 AAGAAGTTT
1 AAGAAGTTT
49543464 ATTTCCGCTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (21 bp):
AAGAAGTTTGTCACCAATGAG
Found at i:49545211 original size:38 final size:38
Alignment explanation
Indices: 49545160--49545233 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
49545150 TGATAAAAAG
*
49545160 GGATTTAGTTAATTGAATGGAATTATTATTTTAGATGT
1 GGATTTAGTTAATTGAATGGAATTATTATTTCAGATGT
49545198 GGATTTAGTTAATTGAATGGAATTATTATTTCAGAT
1 GGATTTAGTTAATTGAATGGAATTATTATTTCAGAT
49545234 TAAGAACGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (38 bp):
GGATTTAGTTAATTGAATGGAATTATTATTTCAGATGT
Found at i:49556310 original size:17 final size:17
Alignment explanation
Indices: 49556288--49556320 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
49556278 CTATTATTTT
49556288 AATTTAATCTAATATTA
1 AATTTAATCTAATATTA
49556305 AATTTAATCTAATATT
1 AATTTAATCTAATATT
49556321 TAATCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAATCTAATATTA
Found at i:49558126 original size:18 final size:18
Alignment explanation
Indices: 49558103--49558153 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
49558093 CGTTTATGGT
49558103 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
49558121 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
49558139 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
49558154 AGTAGTTGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:49570460 original size:6 final size:6
Alignment explanation
Indices: 49570449--49570478 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
49570439 TTTAGTTGTC
49570449 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
1 TGAAAT TGAAAT TGAAAT TGAAAT TGAAAT
49570479 CGAAGTGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TGAAAT
Found at i:49571078 original size:32 final size:32
Alignment explanation
Indices: 49571035--49571104 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
49571025 GTAAACAAAT
* *
49571035 ACCAAAGTCTCTAATGGATACCAAAATTTGTA
1 ACCAAAATCTCTAACGGATACCAAAATTTGTA
* *
49571067 ACCAAAATCTCTTACGGGTACCAAAATTTGTA
1 ACCAAAATCTCTAACGGATACCAAAATTTGTA
49571099 ACCAAA
1 ACCAAA
49571105 TATCAAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (32 bp):
ACCAAAATCTCTAACGGATACCAAAATTTGTA
Found at i:49571130 original size:19 final size:19
Alignment explanation
Indices: 49571085--49571198 Score: 75
Period size: 19 Copynumber: 5.9 Consensus size: 19
49571075 CTCTTACGGG
* *
49571085 TACCAAAATTTGTAACCAAA
1 TACCAAAATCTCTAA-CAAA
* * *
49571105 TATCAAAATCTTTAATAAA
1 TACCAAAATCTCTAACAAA
49571124 TACCAAAATCTCTAACAAA
1 TACCAAAATCTCTAACAAA
*** *
49571143 TATTGAAATTTCTAACAAA
1 TACCAAAATCTCTAACAAA
* * * * *
49571162 CACCAAATTTTCTAACCGAC
1 TACCAAAATCTCTAA-CAAA
*
49571182 TGCCAAAATCTCTAACA
1 TACCAAAATCTCTAACA
49571199 GGGACCAAAA
Statistics
Matches: 70, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
19 45 0.64
20 25 0.36
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (19 bp):
TACCAAAATCTCTAACAAA
Found at i:49577447 original size:89 final size:89
Alignment explanation
Indices: 49577284--49577528 Score: 325
Period size: 89 Copynumber: 2.7 Consensus size: 89
49577274 ATTCAAATTT
* * ** * *
49577284 TTTGTATTATTTTTGTATATGTAAATCAAATTTAGTCAGTATTATTTGTTGTTCGAATTTTATAT
1 TTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATAT
* * *
49577349 TTTCGTGTATTGATTTTTTAGAATG
65 TTTCGTGTATTAATATTCTAGAATG
49577374 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
49577439 TTCGTGTATTAATATTCTAGAATG
66 TTCGTGTATTAATATTCTAGAATG
* * *
49577463 TTTGTATTTTCTTGTATCTATAAATTTAATTT-GT-TGCGTATTA-TTATTTTTCCGAATTATAT
1 TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCT--GTATTATTTATTGTT-CGAATTTTAT
49577525 ATTT
63 ATTT
49577529 GTTCTATTAA
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
87 1 0.01
88 9 0.06
89 122 0.87
90 8 0.06
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.57
Consensus pattern (89 bp):
TTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTATTGTTCGAATTTTATATT
TTCGTGTATTAATATTCTAGAATG
Found at i:49577589 original size:22 final size:20
Alignment explanation
Indices: 49577564--49577613 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
49577554 TTATCCAAAC
*
49577564 AAATAATTATTTTAGAAAAATT
1 AAATAATTATATT-GAAAAA-T
49577586 AAAT--TTATATTGAAAAAT
1 AAATAATTATATTGAAAAAT
49577604 AGAATAATTA
1 A-AATAATTA
49577614 CAAACTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 6 0.25
21 3 0.12
22 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATAATTATATTGAAAAAT
Found at i:49580819 original size:79 final size:78
Alignment explanation
Indices: 49580685--49580843 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 78
49580675 TCACATGCAC
* ***
49580685 GGTTATAAATCAGAATCAATAACAATCAGTCTAACATATTCAGATATCGTGTATTCCTCATCAAC
1 GGTTATAAATCAGAATCAATAACAATCAATCTAACATATTCAGATATCACATATTCCTCATCAAC
49580750 AAAGTAACGCAGAA
66 AAAGTAACGCA-AA
* * *
49580764 GGTTATAAATCAGAATCAGTAACAATCAATCTAACATAATT-AGATGTCACATATTCTTCATCAA
1 GGTTATAAATCAGAATCAATAACAATCAATCTAACAT-ATTCAGATATCACATATTCCTCATCAA
* *
49580828 TAGAGTAACGCAAA
65 CAAAGTAACGCAAA
49580842 GG
1 GG
49580844 CGTATCAACA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
78 4 0.06
79 63 0.90
80 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (78 bp):
GGTTATAAATCAGAATCAATAACAATCAATCTAACATATTCAGATATCACATATTCCTCATCAAC
AAAGTAACGCAAA
Found at i:49582817 original size:17 final size:17
Alignment explanation
Indices: 49582795--49582832 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
49582785 ATATCATTTT
49582795 TTTTAAATTCATTTCAA
1 TTTTAAATTCATTTCAA
* *
49582812 TTTTAATTTCATTTCAC
1 TTTTAAATTCATTTCAA
49582829 TTTT
1 TTTT
49582833 TCTCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAATTCATTTCAA
Found at i:49583005 original size:12 final size:12
Alignment explanation
Indices: 49582974--49583011 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
49582964 TTTTTATTTT
49582974 ATTTGAATTTC-
1 ATTTGAATTTCA
*
49582985 ATTTCAATTTCA
1 ATTTGAATTTCA
49582997 ATTTGAATTTCA
1 ATTTGAATTTCA
49583009 ATT
1 ATT
49583012 CAATGCAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (12 bp):
ATTTGAATTTCA
Found at i:49583015 original size:5 final size:6
Alignment explanation
Indices: 49582974--49583028 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
49582964 TTTTTATTTT
* * *
49582974 ATTTGA ATTTC- ATTTCA ATTTCA ATTTGA ATTTCA A-TTCA A-TGCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
49583019 ACTTTCA ATT
1 A-TTTCA ATT
49583029 AAATTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 14 0.34
6 23 0.56
7 4 0.10
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (6 bp):
ATTTCA
Found at i:49583028 original size:23 final size:23
Alignment explanation
Indices: 49582974--49583028 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
49582964 TTTTTATTTT
* * *
49582974 ATTTGAATTTCATTTCAATTTCA
1 ATTTCAATTTCAATTCAATTGCA
*
49582997 ATTTGAATTTCAATTCAA-TGCA
1 ATTTCAATTTCAATTCAATTGCA
49583019 ACTTTCAATT
1 A-TTTCAATT
49583029 AAATTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTTCAATTTCAATTCAATTGCA
Found at i:49585137 original size:22 final size:23
Alignment explanation
Indices: 49585083--49585143 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
49585073 CCGGCCCATT
*
49585083 TTTTAATTAAAATTAAAATTATAC
1 TTTT-ATTAAAATTAAAACTATAC
49585107 TTTTATTAAAATTAAAACTA-A-
1 TTTTATTAAAATTAAAACTATAC
49585128 TTGTTATTAAAATTAA
1 TT-TTATTAAAATTAA
49585144 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 2 0.06
22 14 0.40
23 15 0.43
24 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (23 bp):
TTTTATTAAAATTAAAACTATAC
Found at i:49585138 original size:16 final size:16
Alignment explanation
Indices: 49585117--49585173 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
49585107 TTTTATTAAA
*
49585117 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
49585133 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
49585149 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
49585165 ATTAAAATT
1 ATTAAAATT
49585174 GTATCTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:49585324 original size:93 final size:93
Alignment explanation
Indices: 49585218--49585401 Score: 341
Period size: 93 Copynumber: 2.0 Consensus size: 93
49585208 TTTGTAAAAT
49585218 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
49585283 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
* *
49585311 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
*
49585376 ATATCAAATTATTAATTGTTAATTGT
66 ATATCAAATTATTAATTATTAATTGT
49585402 ATTAATTGTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:49585475 original size:22 final size:22
Alignment explanation
Indices: 49585450--49585496 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
49585440 AAACTTAAAA
* *
49585450 TAAAACTAAAACTAGTATAT-TT
1 TAAAAATAAAAATA-TATATATT
49585472 TAAAAATAAAAATATATATATT
1 TAAAAATAAAAATATATATATT
49585494 TAA
1 TAA
49585497 TATATTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAATATATATATT
Found at i:49587017 original size:50 final size:51
Alignment explanation
Indices: 49586947--49587073 Score: 152
Period size: 52 Copynumber: 2.5 Consensus size: 51
49586937 AAAAAGGTGT
49586947 TGTCGGCCATCTA-TGAGCCAAAACCAAAGAAAAAGA-AAT-TTAAGTGTTGG
1 TGTCGGCCATCTATTG-GCCAAAACCAAA-AAAAAGATAATATTAAGTGTTGG
* ** * **
49586997 TGTCGGCCCTCTATTGGCCAAAACCCCCAAAAAATATTTTATTAAGTGTTGG
1 TGTCGGCCATCTATTGGCCAAAA-CCAAAAAAAAGATAATATTAAGTGTTGG
49587049 TGTCGGCCATCTATTGGCCAAAACC
1 TGTCGGCCATCTATTGGCCAAAACC
49587074 CTAAAAAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
50 25 0.38
51 8 0.12
52 33 0.50
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (51 bp):
TGTCGGCCATCTATTGGCCAAAACCAAAAAAAAGATAATATTAAGTGTTGG
Found at i:49587056 original size:52 final size:51
Alignment explanation
Indices: 49586986--49587087 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 51
49586976 AAAAAGAAAT
*
49586986 TTAAGTGTTGGTGTCGGCCCTCTATTGGCCAAAACCCCCAAAAAATATTTTA
1 TTAAGTGTTGGTGTCGGCCATCTATTGGCCAAAA-CCCCAAAAAATATTTTA
*
49587038 TTAAGTGTTGGTGTCGGCCATCTATTGGCCAAAACCCTAAAAAATATTTT
1 TTAAGTGTTGGTGTCGGCCATCTATTGGCCAAAACCCCAAAAAATATTTT
49587088 TTCTTCTCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 15 0.31
52 33 0.69
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (51 bp):
TTAAGTGTTGGTGTCGGCCATCTATTGGCCAAAACCCCAAAAAATATTTTA
Found at i:49588593 original size:4 final size:4
Alignment explanation
Indices: 49588584--49588631 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
49588574 ATTTCATTTG
* * * *
49588584 ATGT ATGT ATGT GTGT CTGT ATGT ATGT ATGT GTGT ATGT GTGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
49588632 GGATTATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:49588632 original size:16 final size:16
Alignment explanation
Indices: 49588585--49588632 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
49588575 TTTCATTTGA
* *
49588585 TGTATGTATGTGTGTC
1 TGTATGTATGTATGTG
49588601 TGTATGTATGTATGTG
1 TGTATGTATGTATGTG
*
49588617 TGTATGTGTGTATGTG
1 TGTATGTATGTATGTG
49588633 GATTATATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.15, C:0.02, G:0.33, T:0.50
Consensus pattern (16 bp):
TGTATGTATGTATGTG
Found at i:49588818 original size:30 final size:30
Alignment explanation
Indices: 49588777--49588837 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
49588767 AAACCTATTT
49588777 ACTTTCCCCCAAAACTTTTACT-CTTTCCC
1 ACTTTCCCCCAAAACTTTTACTCCTTTCCC
49588806 ACTTTCCCCCCAAAACTTTTACTCCTTTCCC
1 ACTTT-CCCCCAAAACTTTTACTCCTTTCCC
49588837 A
1 A
49588838 TCCTACCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 5 0.17
30 17 0.57
31 8 0.27
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
ACTTTCCCCCAAAACTTTTACTCCTTTCCC
Found at i:49592255 original size:20 final size:19
Alignment explanation
Indices: 49592223--49592269 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
49592213 CTCTATGAAG
* *
49592223 AAATATGAAAATTTTCTAT
1 AAATAGGAAAAATTTCTAT
49592242 AAATAGGAAAAATTTCTAT
1 AAATAGGAAAAATTTCTAT
49592261 AAATAGGAA
1 AAATAGGAA
49592270 TGAGATTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATAGGAAAAATTTCTAT
Found at i:49593702 original size:80 final size:77
Alignment explanation
Indices: 49593579--49593773 Score: 257
Period size: 80 Copynumber: 2.5 Consensus size: 77
49593569 TTTAAATTGC
* * * * * *
49593579 AAAAAACTCCTAAAATTAATAATTGAAATAGCGAAAAAGTCATTACATAAATACAAAGTTGACAA
1 AAAAAACTCATAAAATTAATAAATAAAATGGCAAAAAAATCATTACATAAATACAAAGTTGACAA
49593644 TTTAAATTGTAAA
66 TTTAAATTG-AAA
*
49593657 AAATTAAACTCATAAAATTAATAAATAAAATGGCAAAAAAATCATTACATAAATACAAAGTTGAT
1 AAA--AAACTCATAAAATTAATAAATAAAATGGCAAAAAAATCATTACATAAATACAAAGTTGAC
* *
49593722 TATTTAAATTGGAA
64 AATTTAAATTGAAA
* *
49593736 AAAAAACCCATAAAATTAATAACTAAAATGG-AAAAAAA
1 AAAAAACTCATAAAATTAATAAATAAAATGGCAAAAAAA
49593774 GTTATTGTAT
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
76 7 0.07
77 26 0.25
78 3 0.03
79 5 0.05
80 63 0.61
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (77 bp):
AAAAAACTCATAAAATTAATAAATAAAATGGCAAAAAAATCATTACATAAATACAAAGTTGACAA
TTTAAATTGAAA
Found at i:49594078 original size:33 final size:34
Alignment explanation
Indices: 49594028--49594105 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 34
49594018 AGGGGGAGTA
* * *
49594028 GATACGGGTC-GAGAGGAGTGGAGTACGGCGGTG
1 GATACGGGCCGGAGAGGAGCGGAGTACGGAGGTG
*
49594061 GATACGGGCCGGA-AGGAGCGGAGTACTGAGGTG
1 GATACGGGCCGGAGAGGAGCGGAGTACGGAGGTG
*
49594094 GATACGAGCCGG
1 GATACGGGCCGG
49594106 GATGACTAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.49, T:0.13
Consensus pattern (34 bp):
GATACGGGCCGGAGAGGAGCGGAGTACGGAGGTG
Found at i:49596083 original size:103 final size:102
Alignment explanation
Indices: 49595964--49596405 Score: 505
Period size: 103 Copynumber: 4.3 Consensus size: 102
49595954 ACATTATATA
49595964 AAAATTACATTA--AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
1 AAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATC
49596027 ATAAATTACTAACAAAATAACTATAAAATTATTATTTTTT
64 ATAAATTACTAACAAAATAACTATAAAATTATT-TTTTTT
*
49596067 -AAA-TACATTACTAAAAAATCACAAAACACATAAA-TAAACACTAATAATTTATATAACCTAAT
1 AAAATTACATTACTAAAAAATCACAAAACAC-TAAACTAAACACTAACAA-TT-TATAACCTAAT
49596129 CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
63 CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
* * * * *
49596169 AAAAATTACATTACTAAAAAATCACAAAACCCTAAATTAAATACTAATAATTTGTAACCTAATCC
1 -AAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT--
* ***
49596234 CATAAATTACTAACAAAGTAAATAACTATAACA-T-TTTTTAAA
63 CATAAATTACTAAC--A--AAATAACTATAAAATTATTTTTTTT
* *
49596276 AGAAATTACATTACTAAAAAAT-A-AAAA-AGC---ACAAAATACTAACAATTTATAACCTAATC
1 A-AAATTACATTACTAAAAAATCACAAAACA-CTAAACTAAACACTAACAATTTATAACCTAATC
* **
49596335 ATAAACTACTAACAAAATAACTATAATTTTATTTTTTTT
64 ATAAATTACTAACAAAATAACTATAAAATTATTTTTTTT
*
49596374 AAAATTTACATTACTAAAAACTCACAAAACAC
1 AAAA-TTACATTACTAAAAAATCACAAAACAC
49596406 AACAATTTAT
Statistics
Matches: 298, Mismatches: 20, Indels: 45
0.82 0.06 0.12
Matches are distributed among these distances:
96 12 0.04
97 4 0.01
98 23 0.08
99 1 0.00
100 18 0.06
101 8 0.03
102 33 0.11
103 88 0.30
104 13 0.04
105 56 0.19
106 2 0.01
107 26 0.09
108 1 0.00
109 13 0.04
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (102 bp):
AAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCAT
AAATTACTAACAAAATAACTATAAAATTATTTTTTTT
Found at i:49596369 original size:205 final size:205
Alignment explanation
Indices: 49595962--49596405 Score: 550
Period size: 205 Copynumber: 2.2 Consensus size: 205
49595952 TTACATTATA
49595962 TAAAAATTACATTA--AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
**** *
49596025 TCATAAATTACTAACAAAATAACTATAAAATTATTATTTTTTAAATACATTACTAAAAAATCACA
66 TCATAAATTACTAACAAAATAACTATAAAATTATTATTAAAGAAATACATTACTAAAAAATCAAA
* *
49596090 AAACACATAAATAAACACTAATAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATA
131 AAACACATAAAT--A-ACTAACAATTTATATAACCTAATCATAAACTACTAACAAAATAACTATA
49596155 AAATTATTTTTTT
193 AAATTATTTTTTT
* * * * *
49596168 TAAAAATTACATTACTAAAAAATCACAAAACCCTAAATTAAATACTAATAA-TT-TGTAACCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
*
49596231 TCCCATAAATTACTAACAAAGTAAATAACTATAACATT-TT-TTAAAAGAAATTACATTACTAAA
66 T--CATAAATTACTAAC--A--AAATAACTATAAAATTATTATT-AAAGAAA-TACATTACTAAA
49596294 AAAT-AAAAAAGCACA-AAAT-ACTAACAA-TT-TATAACCTAATCATAAACTACTAACAAAATA
123 AAATCAAAAAA-CACATAAATAACTAACAATTTATATAACCTAATCATAAACTACTAACAAAATA
**
49596354 ACTATAATTTTATTTTTTT
187 ACTATAAAATTATTTTTTT
* *
49596373 TAAAATTTACATTACTAAAAACTCACAAAACAC
1 TAAAAATTACATTACTAAAAAATCACAAAACAC
49596406 AACAATTTAT
Statistics
Matches: 209, Mismatches: 18, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
205 77 0.37
206 26 0.12
207 9 0.04
208 45 0.22
210 3 0.01
211 14 0.07
212 35 0.17
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (205 bp):
TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATTATTATTAAAGAAATACATTACTAAAAAATCAAA
AAACACATAAATAACTAACAATTTATATAACCTAATCATAAACTACTAACAAAATAACTATAAAA
TTATTTTTTT
Found at i:49596557 original size:60 final size:59
Alignment explanation
Indices: 49596483--49596605 Score: 201
Period size: 60 Copynumber: 2.1 Consensus size: 59
49596473 AATACTAAAC
*
49596483 TAAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATATTTA
1 TAAACACAACAATTTATAACATAATCCTAAATTACTAA-AAATTAATTTTAAAATAATTA
* * *
49596543 TAAACACAATAATTTATAACATAATCCTAAATTACTAACAATTAATTTTAAAGTAATTA
1 TAAACACAACAATTTATAACATAATCCTAAATTACTAAAAATTAATTTTAAAATAATTA
49596602 TAAA
1 TAAA
49596606 AAAAATTACA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
59 22 0.37
60 37 0.63
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.36
Consensus pattern (59 bp):
TAAACACAACAATTTATAACATAATCCTAAATTACTAAAAATTAATTTTAAAATAATTA
Found at i:49596714 original size:13 final size:13
Alignment explanation
Indices: 49596698--49596722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49596688 AAAATTTCAC
49596698 AACATCTTAATTG
1 AACATCTTAATTG
49596711 AACATCTTAATT
1 AACATCTTAATT
49596723 AAAGTCTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AACATCTTAATTG
Found at i:49596744 original size:3 final size:3
Alignment explanation
Indices: 49596730--49596801 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
49596720 ATTAAAGTCT
*
49596730 TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
49596778 TTC TTC TTC TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
49596802 CCTTTCTCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:49597033 original size:27 final size:27
Alignment explanation
Indices: 49597003--49597058 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
49596993 GGCAGTGGCA
*
49597003 CCTACTTGGCAGGCACGACCAGTGCCG
1 CCTACTTGACAGGCACGACCAGTGCCG
* **
49597030 CCTATTTGACAGGCACGACTGGTGCCG
1 CCTACTTGACAGGCACGACCAGTGCCG
49597057 CC
1 CC
49597059 AGTCCAGGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.18
Consensus pattern (27 bp):
CCTACTTGACAGGCACGACCAGTGCCG
Found at i:49598797 original size:19 final size:19
Alignment explanation
Indices: 49598773--49598837 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
49598763 TAAATATATT
49598773 TATTTTTTAAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
**
49598792 TATTTTTTACATACTTTT-TTA
1 TATTTTTTA-A-A-TTTTAAAA
* *
49598813 TTTTTTTTTAATTTTAAAA
1 TATTTTTTAAATTTTAAAA
49598832 TATTTT
1 TATTTT
49598838 AAAAATACTT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 2 0.06
21 9 0.26
22 4 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTTTAAATTTTAAAA
Found at i:49598826 original size:40 final size:41
Alignment explanation
Indices: 49598769--49598875 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
49598759 TTAATAAATA
** *
49598769 TATTTATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTT
1 TATTT-TTTTTT-AATTTTAAAATATTTTAAAAATACTTTTTT
49598811 TATTTTTTTTTAATTTTAAAATATTTTAAAAATACTTTTTT
1 TATTTTTTTTTAATTTTAAAATATTTTAAAAATACTTTTTT
* **
49598852 TAATTTTTTAAAATTTTTAAAATA
1 TATTTTTTTTTAA-TTTTAAAATA
49598876 AAAATGGGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 21 0.37
41 21 0.37
42 15 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (41 bp):
TATTTTTTTTTAATTTTAAAATATTTTAAAAATACTTTTTT
Found at i:49606917 original size:11 final size:11
Alignment explanation
Indices: 49606901--49606952 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
49606891 TCAATTATTT
49606901 TCTCAAATTCC
1 TCTCAAATTCC
* *
49606912 TCTCAATTTGC
1 TCTCAAATTCC
*
49606923 TCTCAATTTCC
1 TCTCAAATTCC
*
49606934 T-TCCAAATTTC
1 TCT-CAAATTCC
49606945 TCTCAAAT
1 TCTCAAAT
49606953 CCATATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 1 0.03
11 32 0.94
12 1 0.03
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
TCTCAAATTCC
Found at i:49606933 original size:22 final size:22
Alignment explanation
Indices: 49606897--49606952 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
49606887 TCTCTCAATT
49606897 ATTT-TCTCAAATTCC-TCTC-A
1 ATTTCTCTCAAATTCCTTC-CAA
*
49606917 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAAATTCCTTCCAA
49606940 ATTTCTCTCAAAT
1 ATTTCTCTCAAAT
49606953 CCATATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCTCTCAAATTCCTTCCAA
Found at i:49606976 original size:51 final size:51
Alignment explanation
Indices: 49606914--49607011 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
49606904 CAAATTCCTC
*
49606914 TCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAATA
1 TCAATTAGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAATA
* * *
49606965 TCAATTAGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTAGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
49607012 TTAATTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.02, T:0.45
Consensus pattern (51 bp):
TCAATTAGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAATA
Found at i:49607953 original size:20 final size:21
Alignment explanation
Indices: 49607919--49607962 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
49607909 ATAACGAGGT
49607919 AAATTTTATATTAGA-TTTTA
1 AAATTTTATATTAGATTTTTA
49607939 AAATTATTATA-TAGATTTTTA
1 AAATT-TTATATTAGATTTTTA
49607960 AAA
1 AAA
49607963 ATAATAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
AAATTTTATATTAGATTTTTA
Found at i:49608705 original size:29 final size:31
Alignment explanation
Indices: 49608640--49608706 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 31
49608630 GACGACGACT
*
49608640 CAGGCCCATCAATGAGGCCCAGACAATCACC
1 CAGGCCCATCAATCAGGCCCAGACAATCACC
* **
49608671 CA-GCCCATC-ATCAGGGCCATTCAATCA-C
1 CAGGCCCATCAATCAGGCCCAGACAATCACC
49608699 CAGGCCCA
1 CAGGCCCA
49608707 GCGAGAGCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 3 0.10
29 19 0.61
30 7 0.23
31 2 0.06
ACGTcount: A:0.30, C:0.40, G:0.18, T:0.12
Consensus pattern (31 bp):
CAGGCCCATCAATCAGGCCCAGACAATCACC
Found at i:49608826 original size:18 final size:18
Alignment explanation
Indices: 49608790--49608832 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49608780 TGCCAGGTGC
*
49608790 GTATCCTAGCTCTTTTAT
1 GTATCCTAACTCTTTTAT
49608808 GTATCCTAAC-CTTTATAT
1 GTATCCTAACTCTTT-TAT
*
49608826 GTTTCCT
1 GTATCCT
49608833 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (18 bp):
GTATCCTAACTCTTTTAT
Found at i:49609119 original size:21 final size:21
Alignment explanation
Indices: 49609076--49609116 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49609066 AGATGCCTTA
* *
49609076 CCGGAGGAACCAGAATCCCCG
1 CCGGAGCAACCACAATCCCCG
49609097 CCGGAGCAACCACAACTCCC
1 CCGGAGCAACCACAA-TCCC
49609117 GCCAGAAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.29, C:0.44, G:0.22, T:0.05
Consensus pattern (21 bp):
CCGGAGCAACCACAATCCCCG
Found at i:49609411 original size:21 final size:21
Alignment explanation
Indices: 49609381--49610144 Score: 1003
Period size: 21 Copynumber: 35.9 Consensus size: 21
49609371 CAAAAACCCT
49609381 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609402 AACACTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
49609423 AATCCTAGCCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
49609444 AACCCTTAACCCTTAACTTAAA
1 AACCC-TAACCCTTAACTTAAA
*
49609466 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
49609487 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609508 AACTCTAACCCTTAATTTAAA
1 AACCCTAACCCTTAACTTAAA
**
49609529 AACCCTAAAGCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
49609550 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609571 AATCGTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
49609593 AATTCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
*
49609614 AACCCTAACCCTTAACATAAAA
1 AACCCTAACCCTTAAC-TTAAA
* *
49609636 AATCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
49609658 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
49609679 AGCCTTAACCTTTAACTTAAAA
1 AACCCTAACCCTTAACTT-AAA
49609701 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
49609723 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609744 AATCCTAACCCTTAACATAAA
1 AACCCTAACCCTTAACTTAAA
*
49609765 AACACTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
49609787 AACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAA
*
49609808 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
49609829 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
49609851 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609872 AACCCTAACCCATAACCTAAA
1 AACCCTAACCCTTAACTTAAA
*
49609893 AACCCTAACCCTTCACTTAAA
1 AACCCTAACCCTTAACTTAAA
49609914 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
49609935 AACCCTAATCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
49609956 AACACTAACACTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
49609976 AACCCTAACCCTTAA-TATAAA
1 AACCCTAACCCTTAACT-TAAA
*
49609997 AAGCCCTAAACCATTAACTTAAA
1 AA-CCCT-AACCCTTAACTTAAA
49610020 AACCCTAACCCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
*
49610040 AACCCTTAACCCTTAACCTAAA
1 AACCC-TAACCCTTAACTTAAA
* *
49610062 AACCCGAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* *
49610083 AACCTTAAATCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
49610105 AACACTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
49610126 AACCCTAACCCTAAACTTA
1 AACCCTAACCCTTAACTTA
49610145 GCCCTAATAT
Statistics
Matches: 645, Mismatches: 82, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.00
20 23 0.04
21 446 0.69
22 139 0.22
23 35 0.05
24 1 0.00
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:49609459 original size:64 final size:64
Alignment explanation
Indices: 49609381--49610144 Score: 995
Period size: 64 Copynumber: 12.0 Consensus size: 64
49609371 CAAAAACCCT
* * * * * *
49609381 AACCC-TAACCCTTAACTTAAAAACACTAACCTTTAACTTAAAAATCCTAGCCCTTAACATAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
49609444 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * ** * *
49609508 AACTC-TAACCCTTAATTTAAAAACCCTAAAGCTTAACTTAAAAACCCTAACCCTTAACCTAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * * ** *
49609571 AATCGTAAACCCTTAACTTAAAAATTCTAACCCTTAACCTAAAAACCCTAACCCTTAACATAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
** * * *
49609635 AAATCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAGCCTTAACCTTTAACTTAAA
1 AACCCTT-AACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTT-AA
49609700 A
64 A
* * *
49609701 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAATCCTAACCCTTAACATAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * *
49609765 AACACTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCTTTAACTTAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * * *
49609829 AACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCCATAACCTAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * *
49609893 AACCC-TAACCCTTCACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAATCCTTAACTTAAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * ** *
49609956 AACAC-TAACACTTAACTT-AAAACCCTAACCCTTAATATAAAAAGCCCTAAACCATTAACTTAA
1 AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAA-CCCT-AACCCTTAACTTAA
49610019 A
64 A
* *
49610020 AACCC-TAACCCTTAACTT-AAAACCCTTAACCCTTAACCTAAAAACCCGAACCCTTAACTTTAA
1 AACCCTTAACCCTTAACTTAAAAACCC-TAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
* * * *
49610083 AA-CCTTAAATCCTTAACTTAAAAACACTAACCCTTAACTTAAAAACCCTAACCCTAAACTTA
1 AACCCTT-AACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTA
49610145 GCCCTAATAT
Statistics
Matches: 616, Mismatches: 75, Indels: 19
0.87 0.11 0.03
Matches are distributed among these distances:
62 25 0.04
63 148 0.24
64 317 0.51
65 119 0.19
66 7 0.01
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (64 bp):
AACCCTTAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
Found at i:49609480 original size:85 final size:83
Alignment explanation
Indices: 49609381--49610144 Score: 976
Period size: 85 Copynumber: 9.0 Consensus size: 83
49609371 CAAAAACCCT
* * * *
49609381 AACCCTAACCCTTAACTTAAAAACACTAACCTTTAACTTAAAAATCCTAGCCCTTAACATAAAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTAACCCTTAACTTAAAAA
49609446 CCCTTAACCCTTAACTTAAA
65 CCC-TAACCCTTAACTTAAA
* *
49609466 AACCCTAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAAAACTCTAACCCTTAATTTAAAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAC-CTAACCCTTAACTTAAAAA
**
49609531 CCCTAAAGCTTAACTTAAA
65 CCCTAACCCTTAACTTAAA
* * * * *
49609550 AACCCTAACCCTTAACCTAAAAATCGTAAACCCTTAACTTAAAAATTCTAACCCTTAACCTAAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA-CCTAACCCTTAACTTAAAA
*
49609615 ACCCTAACCCTTAACATAAAA
64 ACCCTAACCCTTAAC-TTAAA
* * * * *
49609636 AATCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACCTAAAAGCCTTAACCTTTAACTTAAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACC-TAACCCTTAACTT-AAA
49609701 AACCCTAAACCCTTAACTTAAA
63 AACCCT-AACCCTTAACTTAAA
* * *
49609723 AACCCTAACCCTTAACCTAAAAATCCTAACCCTTAACATAAAAACACTAAACCCTTAACTTAAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAAC-CT-AACCCTTAACTTAAAA
*
49609788 ACCCTAACCCTTAACCTAAA
64 ACCCTAACCCTTAACTTAAA
*
49609808 AACCCTAACCTTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAA-CCTAACCCTTAACTTAAAA
* *
49609873 ACCCTAACCCATAACCTAAA
64 ACCCTAACCCTTAACTTAAA
* *
49609893 AACCCTAACCCTTCACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAATCCTTAACTTAAAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCTAACCCTTAACTTAAAAA
* *
49609958 CACTAACACTTAACTT-AA
65 CCCTAACCCTTAACTTAAA
*
49609976 AACCCTAACCCTTAA-TATAAAAAGCCCTAAACCATTAACTTAAAAACCCTAACCCTTAACTT-A
1 AACCCTAACCCTTAACT-TAAAAA-CCCT-AACCCTTAACTTAAAAA-CCTAACCCTTAACTTAA
*
49610039 AAACCCTTAACCCTTAACCTAAA
62 AAACCC-TAACCCTTAACTTAAA
* * * *
49610062 AACCCGAACCCTTAACTTTAAAACCTTAAATCCTTAACTTAAAAACACTAACCCTTAACTTAAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAAC-CTAACCCTTAACTTAAAA
*
49610127 ACCCTAACCCTAAACTTA
64 ACCCTAACCCTTAACTTA
49610145 GCCCTAATAT
Statistics
Matches: 599, Mismatches: 60, Indels: 40
0.86 0.09 0.06
Matches are distributed among these distances:
82 1 0.00
83 22 0.04
84 100 0.17
85 292 0.49
86 125 0.21
87 49 0.08
88 10 0.02
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (83 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCTAACCCTTAACTTAAAAAC
CCTAACCCTTAACTTAAA
Found at i:49614716 original size:22 final size:21
Alignment explanation
Indices: 49614679--49614731 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
49614669 TTAATTTTCA
*
49614679 AAATTA-ATGAACTTTTATTAT
1 AAATTAGATGAATTTTTATT-T
49614700 AAATTAGATGAATTTTTATTT
1 AAATTAGATGAATTTTTATTT
49614721 -AATTAG-TGAAT
1 AAATTAGATGAAT
49614732 ATATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 6 0.20
21 7 0.23
22 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (21 bp):
AAATTAGATGAATTTTTATTT
Found at i:49614738 original size:19 final size:20
Alignment explanation
Indices: 49614701--49614739 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
49614691 TTTTATTATA
* *
49614701 AATTAGATGAATTTTTATTT
1 AATTAGATGAATATATATTT
49614721 AATTAG-TGAATATATATTT
1 AATTAGATGAATATATATTT
49614740 TAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (20 bp):
AATTAGATGAATATATATTT
Done.