Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 27 of 198
Found at i:7856989 original size:25 final size:25
Alignment explanation
Indices: 7856971--7857047 Score: 154
Period size: 25 Copynumber: 3.1 Consensus size: 25
7856961 GAACGAATGA
7856971 ATAAAAAGATTAAAAGAACAAATTC
1 ATAAAAAGATTAAAAGAACAAATTC
7856996 ATAAAAAGATTAAAAGAACAAATTC
1 ATAAAAAGATTAAAAGAACAAATTC
7857021 ATAAAAAGATTAAAAGAACAAATTC
1 ATAAAAAGATTAAAAGAACAAATTC
7857046 AT
1 AT
7857048 GCCTTCCGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.21
Consensus pattern (25 bp):
ATAAAAAGATTAAAAGAACAAATTC
Found at i:7888401 original size:26 final size:26
Alignment explanation
Indices: 7888352--7888401 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7888342 CTATTTGAAA
*
7888352 TTAATAAAAAAATATGTTACTAATTT
1 TTAATAAAAAAATATATTACTAATTT
*
7888378 TTAA-AAAAAAATATTATTATTAAT
1 TTAATAAAAAAATA-TATTACTAAT
7888402 AGAAATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
TTAATAAAAAAATATATTACTAATTT
Found at i:7893080 original size:5 final size:5
Alignment explanation
Indices: 7893070--7893095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7893060 TGAGCATTTG
7893070 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
7893096 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:7893910 original size:29 final size:29
Alignment explanation
Indices: 7893851--7893910 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7893841 GGATGGGAAG
* **
7893851 GGAATAAAAGTTTTAGGGGAAAAGTGGGA
1 GGAATAAAAATTTTAGGGGAAAAGTAAGA
*
7893880 GGAAGTAAAAATTTTGGGGGAAAA-TAAGA
1 GGAA-TAAAAATTTTAGGGGAAAAGTAAGA
7893909 GG
1 GG
7893911 TTTTGAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (29 bp):
GGAATAAAAATTTTAGGGGAAAAGTAAGA
Found at i:7894131 original size:9 final size:9
Alignment explanation
Indices: 7894117--7894153 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7894107 TATAGTTTGA
7894117 TATTCGAAT
1 TATTCGAAT
7894126 TATTCGAAT
1 TATTCGAAT
*
7894135 TATTCGAGT
1 TATTCGAAT
7894144 TATTCGAAT
1 TATTCGAAT
7894153 T
1 T
7894154 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7894224 original size:9 final size:9
Alignment explanation
Indices: 7894207--7894237 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7894197 TCGAGTTGAT
7894207 TCGAATAAC
1 TCGAATAAC
*
7894216 TCGATTAAC
1 TCGAATAAC
7894225 TCGAATAAC
1 TCGAATAAC
7894234 TCGA
1 TCGA
7894238 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7897939 original size:20 final size:20
Alignment explanation
Indices: 7897914--7897971 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
7897904 GTACAGGTTA
7897914 GCACTTCGGTGCCTCTGTTT
1 GCACTTCGGTGCCTCTGTTT
*
7897934 GCACTTTGGTGTCCT-TGTTT
1 GCACTTCGGTG-CCTCTGTTT
* *
7897954 ACACTTCGATGCCTCTGT
1 GCACTTCGGTGCCTCTGT
7897972 ATAGCATTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.09, C:0.28, G:0.22, T:0.41
Consensus pattern (20 bp):
GCACTTCGGTGCCTCTGTTT
Found at i:7910265 original size:23 final size:23
Alignment explanation
Indices: 7910239--7910328 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
7910229 GAAAAGTTAA
7910239 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
7910262 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
7910285 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
7910304 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
7910327 AA
1 AA
7910329 AAGTTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:7910317 original size:42 final size:42
Alignment explanation
Indices: 7910258--7910341 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
7910248 GAGACTTGAA
7910258 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
7910300 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
7910342 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:7914809 original size:23 final size:23
Alignment explanation
Indices: 7914783--7914872 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
7914773 GAAAAGTTAA
7914783 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
7914806 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
7914829 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
7914848 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
7914871 AA
1 AA
7914873 AAATTATACA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:7914861 original size:42 final size:42
Alignment explanation
Indices: 7914802--7914885 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
7914792 GAGACTTGAA
*
7914802 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAATTACACACAT
* *
7914844 TATGAAGAGTGAAGAGACTTGAATATGAAAAATTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAATTACACACAT
7914886 GCATGGATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAATTACACACAT
Found at i:7915825 original size:34 final size:34
Alignment explanation
Indices: 7915782--7915850 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
7915772 CTCTTTGCCA
7915782 TTGACTGCCTCTAGATGTATTAATGTCCAGAGAG
1 TTGACTGCCTCTAGATGTATTAATGTCCAGAGAG
7915816 TTGACTGCCTCTAGATGTATTAATGTCCAGAGAG
1 TTGACTGCCTCTAGATGTATTAATGTCCAGAGAG
7915850 T
1 T
7915851 GAATACTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (34 bp):
TTGACTGCCTCTAGATGTATTAATGTCCAGAGAG
Found at i:7922166 original size:58 final size:60
Alignment explanation
Indices: 7922119--7922234 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 60
7922109 CACTTTAATA
*
7922119 TTAATTAAATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATATAT
1 TTAATT-AATAGAATACTTACTACAAGATAAATATTAGATTAAATTTAATATTAAATATAT
* *
7922178 TTAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTTAATATTAAAT
1 TTAATTAATAGAATACTTA-CTACAAGATAAATATTAGATTAAATTTAATATTAAAT
7922235 TAATAAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 11 0.22
59 6 0.12
60 1 0.02
61 33 0.65
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (60 bp):
TTAATTAATAGAATACTTACTACAAGATAAATATTAGATTAAATTTAATATTAAATATAT
Found at i:7927383 original size:41 final size:41
Alignment explanation
Indices: 7927326--7927527 Score: 271
Period size: 41 Copynumber: 4.9 Consensus size: 41
7927316 ATTGAGATAA
* *
7927326 TATATCAGGCTCTGTGCCTAGTAGGCTTCGTGCC-AGTGATT
1 TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGA-TGATT
* * *
7927367 TATATCACGCTCTGTGCCTAGCAAGCTTCGTGCCGATGATT
1 TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGATGATT
* * *
7927408 TATATTAGGCTCTATGCCTGGCAAGCTTCGTGCCGATGATT
1 TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGATGATT
* * * *
7927449 TATATTAGGCTCTATGCCTAGCAGGCTTCATGTCGGTGATT
1 TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGATGATT
*
7927490 TATATCAGGCTCTATGCCTAGTAGGCTTCGTGCCGATG
1 TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGATG
7927528 TAATTGTATC
Statistics
Matches: 143, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 142 0.99
42 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
TATATCAGGCTCTATGCCTAGCAGGCTTCGTGCCGATGATT
Found at i:7932730 original size:8 final size:8
Alignment explanation
Indices: 7932674--7932744 Score: 54
Period size: 8 Copynumber: 8.6 Consensus size: 8
7932664 GTTTGTATGA
7932674 AAAATTTT
1 AAAATTTT
*
7932682 AAAAATTT
1 AAAATTTT
**
7932690 AGCATTTT
1 AAAATTTT
*
7932698 AGAA-TTT
1 AAAATTTT
* *
7932705 ATTAATTTA
1 A-AAATTTT
7932714 AAATTATTTT
1 AAA--ATTTT
7932724 AAAATTTT
1 AAAATTTT
7932732 AAAATTTT
1 AAAATTTT
7932740 AAAAT
1 AAAAT
7932745 ATTTTGTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
7 4 0.08
8 36 0.72
9 3 0.06
10 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:7934294 original size:19 final size:21
Alignment explanation
Indices: 7934271--7934324 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
7934261 AAAAATACAA
7934271 AAAAAATTTAAAATAATTT-T
1 AAAAAATTTAAAATAATTTAT
* *
7934291 AAAAAATTCAAAA-CATTTAT
1 AAAAAATTTAAAATAATTTAT
*
7934311 -AAAAATTTCAAATA
1 AAAAAATTTAAAATA
7934325 TTATATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATTTAAAATAATTTAT
Found at i:7934296 original size:20 final size:19
Alignment explanation
Indices: 7934271--7934324 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
7934261 AAAAATACAA
7934271 AAAAAATTTAAAATAATTTT
1 AAAAAATTTAAAATAA-TTT
* *
7934291 AAAAAATTCAAAA-CATTT
1 AAAAAATTTAAAATAATTT
*
7934309 ATAAAAATTTCAAATA
1 A-AAAAATTTAAAATA
7934325 TTATATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 11 0.41
20 12 0.44
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTTAAAATAATTT
Found at i:7936686 original size:29 final size:30
Alignment explanation
Indices: 7936653--7936732 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 30
7936643 GGTTGTTCAC
* *
7936653 ATAAGAGCCAAACATTTCAAAA-TACTCAT
1 ATAAGAGTCAAACATTTCAAAACTACTCAA
* *
7936682 ATAAGAGTCTAACATTTCCAAAACTGCTCAA
1 ATAAGAGTCAAACATTT-CAAAACTACTCAA
* *
7936713 ATAAAAGTCAAACCTTTCAA
1 ATAAGAGTCAAACATTTCAA
7936733 TGTGCTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.36
30 8 0.19
31 19 0.45
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (30 bp):
ATAAGAGTCAAACATTTCAAAACTACTCAA
Found at i:7936773 original size:31 final size:31
Alignment explanation
Indices: 7936734--7936806 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
7936724 ACCTTTCAAT
* * *
7936734 GTGCTCAAATAAGGGCCAAGCCTTTTTGAAA
1 GTGCTCAAATAAGAGCCAAACATTTTTGAAA
* * *
7936765 TTGCTCAAATAAGAGTCAAACATTTTTTAAA
1 GTGCTCAAATAAGAGCCAAACATTTTTGAAA
7936796 GTGCTCAAATA
1 GTGCTCAAATA
7936807 TAGGCTTCTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (31 bp):
GTGCTCAAATAAGAGCCAAACATTTTTGAAA
Found at i:7947407 original size:21 final size:21
Alignment explanation
Indices: 7947323--7947403 Score: 99
Period size: 21 Copynumber: 3.9 Consensus size: 21
7947313 CGAACATGCC
* *
7947323 AACAGAAGCTCATAAGAACTG
1 AACAGAAGCTCAAAAGAGCTG
*
7947344 AACAGAAGCTCAAAAGAGCGG
1 AACAGAAGCTCAAAAGAGCTG
* * *
7947365 AACATAAGTTCAAAAGAGTTG
1 AACAGAAGCTCAAAAGAGCTG
*
7947386 AACAAAAGCTCAAAAGAG
1 AACAGAAGCTCAAAAGAG
7947404 TTGATACACC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:7952547 original size:25 final size:25
Alignment explanation
Indices: 7952493--7952541 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
7952483 TTAGCCCTCT
*
7952493 TGAGCTTCCCATTATATGGTTCTTA
1 TGAGCTTCCCATTATATGGCTCTTA
7952518 TGAGCTTCCCATTATATGGCTCTT
1 TGAGCTTCCCATTATATGGCTCTT
7952542 TGGAGCATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.43
Consensus pattern (25 bp):
TGAGCTTCCCATTATATGGCTCTTA
Found at i:7955081 original size:27 final size:26
Alignment explanation
Indices: 7955037--7955450 Score: 456
Period size: 27 Copynumber: 15.3 Consensus size: 26
7955027 GTAATGGGCC
*
7955037 TAAAAAGACGAAAATACCCTCGAAGGG
1 TAAAATGACG-AAATACCCTCGAAGGG
* *
7955064 TAAAATGACTAAACTACCCTCGAAGGT
1 TAAAATGACGAAA-TACCCTCGAAGGG
7955091 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
7955118 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
**
7955145 TAAAATGACCGAAATACCCTTAAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
* * *
7955172 TAAAATAACCAAAATACCCTCAAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
* *
7955199 TAAAATGACTAAAATACCCTCGAAGGA
1 TAAAATGAC-GAAATACCCTCGAAGGG
7955226 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGAC-GAAATACCCTCGAAGGG
* **
7955253 TAAAATGATCGAAATACCTTTAAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
* * * *
7955280 TAAAATGACCAAAATACCCCCAAAGGT
1 TAAAATGA-CGAAATACCCTCGAAGGG
7955307 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGAC-GAAATACCCTC-GAAGGG
* * *
7955334 TAAAATAATCGAAATACCCTTGAAAGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
7955361 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGA-CGAAATACCCTCGAAGGG
7955388 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGAC-GAAATACCCTC-GAAGGG
*
7955415 TAAAATGATCGAAATACCC-CTGAATGG
1 TAAAATGA-CGAAATACCCTC-GAAGGG
7955442 TAAAATGAC
1 TAAAATGAC
7955451 TGTTATACTC
Statistics
Matches: 342, Mismatches: 34, Indels: 23
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.03
27 326 0.95
28 7 0.02
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (26 bp):
TAAAATGACGAAATACCCTCGAAGGG
Found at i:7955176 original size:81 final size:81
Alignment explanation
Indices: 7955037--7955450 Score: 535
Period size: 81 Copynumber: 5.1 Consensus size: 81
7955027 GTAATGGGCC
* * * * *
7955037 TAAAAAGACGAAAATACCCTCGAAGGGTAAAATGACT-AAACTACCCTCGAAGGTTAAAATGACC
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAA-TACCCTTGAAGGGTAAAATGATC
7955101 GAAATACCCTCGAAGGG
65 GAAATACCCTCGAAGGG
* * * * * *
7955118 TAAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTTAAAGGGTAAAATAACCA
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCG
*
7955183 AAATACCCTCAAAGGG
66 AAATACCCTCGAAGGG
* * *
7955199 TAAAATGACTAAAATACCCTCGAAGGATAAAATGACTGAAATACCCTCGAAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCG
* **
7955264 AAATACCTTTAAAGGG
66 AAATACCCTCGAAGGG
* * * * *
7955280 TAAAATGACCAAAATACCCCCAAAGGTTAAAATGACTGAAATACCCCTGAAGGGTAAAATAATCG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCG
* *
7955345 AAATACCCTTGAAAGG
66 AAATACCCTCGAAGGG
* * *
7955361 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCTGAAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCG
*
7955426 AAATACCC-CTGAATGG
66 AAATACCCTC-GAAGGG
7955442 TAAAATGAC
1 TAAAATGAC
7955451 TGTTATACTC
Statistics
Matches: 291, Mismatches: 40, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
81 288 0.99
82 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCG
AAATACCCTCGAAGGG
Found at i:7955654 original size:26 final size:26
Alignment explanation
Indices: 7955625--7955701 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
7955615 TTACCACATA
7955625 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
7955651 TACTGTTACTGGTAGCTTCGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * *
7955677 CACTATTATTGGCAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
7955702 ATTTTGGTGT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:7955848 original size:33 final size:33
Alignment explanation
Indices: 7955804--7955866 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
7955794 ATTACTGTAT
* **
7955804 TGTACTGTTACTGTATTTGGCTAAGGCCCACAC
1 TGTACTATTACTGTATGGGGCTAAGGCCCACAC
*
7955837 TGTACTATTACTGTATGGGGCTCAGGCCCA
1 TGTACTATTACTGTATGGGGCTAAGGCCCA
7955867 GACTACTACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (33 bp):
TGTACTATTACTGTATGGGGCTAAGGCCCACAC
Found at i:7963269 original size:26 final size:25
Alignment explanation
Indices: 7963232--7963288 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
7963222 ACACACCACA
7963232 ACTCTTATTGAGCACCCCGTTATATG
1 ACTCTTATTGAGCACCCCGTTA-ATG
**
7963258 ACTCTT-TGTGAGCTTCCCGTTAATG
1 ACTCTTAT-TGAGCACCCCGTTAATG
*
7963283 GCTCTT
1 ACTCTT
7963289 CAGAGCTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.39
Consensus pattern (25 bp):
ACTCTTATTGAGCACCCCGTTAATG
Found at i:7965476 original size:649 final size:650
Alignment explanation
Indices: 7964234--7965538 Score: 2504
Period size: 649 Copynumber: 2.0 Consensus size: 650
7964224 ATTTGATAAT
*
7964234 TGAATATATAAGTTGATGTACCATGTATAAGACTTAGTTTTGGCTTGGTTTAAATGTCTTGGATT
1 TGAATATATAAGTTGATATACCATGTATAAGACTTAGTTTTGGCTTGGTTTAAATGTCTTGGATT
7964299 GGCTTGTGAAAGTGTTTTAAGTGTTTATGTAGGTGGAAGGCAAATTTGGGTGAGAAATATGGCTA
66 GGCTTGTGAAAGTGTTTTAAGTGTTTATGTAGGTGGAAGGCAAATTTGGGTGAGAAATATGGCTA
7964364 GGAAATGACCTTATTTTGTCCACACAAGCAGAGACACGGGCATATGTCTTAGCCTTGTGTGACAC
131 GGAAATGACCTTATTTTGTCCACACAAGCAGAGACACGGGCATATGTCTTAGCCTTGTGTGACAC
7964429 ACGGCGTAGCACATGGGCATGTGTCTTGGCCTTGTGTCCCCTGTATCTTTAAAATTTAGAACAGA
196 ACGGCGTAGCACATGGGCATGTGTCTTGGCCTTGTGTCCCCTGTATCTTTAAAATTTAGAACAGA
7964494 ATTCTTAGGATTTTTCACACGGCCTAACACACGGGTGTGTGGCTTAACCATGTGACCCCTGTAGC
261 ATTCTTAGGATTTTTCACACGGCCTAACACACGGGTGTGTGGCTTAACCATGTGACCCCTGTAGC
* *
7964559 TACACACGGCTTAGCACACGGGTGTGTGACTTGGCCGTGTGACCCAAGTTAGAGAGTTATACGGG
326 TACACACGGCCTAGCACACGGGTGTGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTATACGGG
*
7964624 TACAGACACGAGTTGGAACACGGGCGTGTGCCCTATTTCGAATGCTCACATGGCTTAGGACACGG
391 TACAGACACGAGTTGGAACACGGGCGTGTGCCCTATTTCAAATGCTCACATGGCTTAGGACACGG
* *
7964689 GAGTGTCACATTAACGTTTGAGCCACACAGTCTGACCACACGGGTGTGTGTCCTCTGCACTTGGG
456 GAGTGTCACATTAACGTGTGAGCCACACAGTCTGACCACACGGGTGTGTGTCCTCTGCACCTGGG
*
7964754 AAAAAATTTTGAAATTTTGCGAAAAAGTCTCTGAGTGCACGGTTTTGTCCCGACTTGTTTCTAAT
521 AAAAAATTTTGAAATTTTGCAAAAAAGTCTCTGAGTGCACGGTTTTGTCCCGACTTGTTTCTAAT
7964819 ACATGATTTGGGTTTCGAGGGCCCATACAAGGGACAATATGATTGAATATAATTTTTTTCTGATA
586 ACATGATTTGGGTTTCGAGGGCCCATACAAGGGACAATATGATTGAATATAATTTTTTTCTGATA
**
7964884 TGAATATATAAGTTGATATGTCATGTATAAGACTTAGTTTTGGCTTGGTTTAAATGTCTTGGATT
1 TGAATATATAAGTTGATATACCATGTATAAGACTTAGTTTTGGCTTGGTTTAAATGTCTTGGATT
7964949 GGCTTGTGAAAGTGTTTTAAGTGTTTATGTAGGTGGAAGGCAAATTTGGGTGAGAAATATGGCTA
66 GGCTTGTGAAAGTGTTTTAAGTGTTTATGTAGGTGGAAGGCAAATTTGGGTGAGAAATATGGCTA
*
7965014 GGAAATGACCTTATTTTGTCCACACAAGCAGAGACACGGGCGTATGTCTTAGCCTTGTGTGACAC
131 GGAAATGACCTTATTTTGTCCACACAAGCAGAGACACGGGCATATGTCTTAGCCTTGTGTGACAC
7965079 ACGGCGTAGCACATGGGCATGTGTCTTGGCCTTGTGTCCCCTGTATCTTTAAAATTTAGAACAGA
196 ACGGCGTAGCACATGGGCATGTGTCTTGGCCTTGTGTCCCCTGTATCTTTAAAATTTAGAACAGA
7965144 ATTCTTAGGATTTTTCACACGGCCTAACACAC-GGTGTGTGGCTTAACCATGTGACCCCTGTAGC
261 ATTCTTAGGATTTTTCACACGGCCTAACACACGGGTGTGTGGCTTAACCATGTGACCCCTGTAGC
*
7965208 TACAGACGGCCTAGCACACGGGTGTGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTATACGGG
326 TACACACGGCCTAGCACACGGGTGTGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTATACGGG
7965273 TACAGACACGAGTTGGAACACGGGCGTGTGCCCTATTTCAAATGCTCACATGGCTTAGGACACGG
391 TACAGACACGAGTTGGAACACGGGCGTGTGCCCTATTTCAAATGCTCACATGGCTTAGGACACGG
7965338 GAGTGTCACATTAACGTGTGAGCCACACAGTCTGACCACACGGGTGTGTGTCCTCTGCACCTGGG
456 GAGTGTCACATTAACGTGTGAGCCACACAGTCTGACCACACGGGTGTGTGTCCTCTGCACCTGGG
7965403 AAAAAATTTTGAAATTTTGCAAAAAAGTCTCTGAGTGCACGGTTTTGTCCCGACTTGTTTCTAAT
521 AAAAAATTTTGAAATTTTGCAAAAAAGTCTCTGAGTGCACGGTTTTGTCCCGACTTGTTTCTAAT
7965468 ACATGATTTGGGTTTCGAGGGCCCATACAAGGGACAATATGATTGAATATAATTTTTTTCTGATA
586 ACATGATTTGGGTTTCGAGGGCCCATACAAGGGACAATATGATTGAATATAATTTTTTTCTGATA
7965533 TGAATA
1 TGAATA
7965539 GTAAATGATA
Statistics
Matches: 644, Mismatches: 11, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
649 356 0.55
650 288 0.45
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (650 bp):
TGAATATATAAGTTGATATACCATGTATAAGACTTAGTTTTGGCTTGGTTTAAATGTCTTGGATT
GGCTTGTGAAAGTGTTTTAAGTGTTTATGTAGGTGGAAGGCAAATTTGGGTGAGAAATATGGCTA
GGAAATGACCTTATTTTGTCCACACAAGCAGAGACACGGGCATATGTCTTAGCCTTGTGTGACAC
ACGGCGTAGCACATGGGCATGTGTCTTGGCCTTGTGTCCCCTGTATCTTTAAAATTTAGAACAGA
ATTCTTAGGATTTTTCACACGGCCTAACACACGGGTGTGTGGCTTAACCATGTGACCCCTGTAGC
TACACACGGCCTAGCACACGGGTGTGTGACTTGGCCGTGTGACCCAAGTCAGAGAGTTATACGGG
TACAGACACGAGTTGGAACACGGGCGTGTGCCCTATTTCAAATGCTCACATGGCTTAGGACACGG
GAGTGTCACATTAACGTGTGAGCCACACAGTCTGACCACACGGGTGTGTGTCCTCTGCACCTGGG
AAAAAATTTTGAAATTTTGCAAAAAAGTCTCTGAGTGCACGGTTTTGTCCCGACTTGTTTCTAAT
ACATGATTTGGGTTTCGAGGGCCCATACAAGGGACAATATGATTGAATATAATTTTTTTCTGATA
Found at i:7979678 original size:19 final size:18
Alignment explanation
Indices: 7979654--7979701 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
7979644 GACGCTCTTT
*
7979654 TTTGCATTCATTTCATGCA
1 TTTGCATTCATGTCAT-CA
7979673 TTTGCATTACATGTCATCA
1 TTTGCATT-CATGTCATCA
*
7979692 TATGCATTCA
1 TTTGCATTCA
7979702 AGATTATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 2 0.08
19 17 0.65
20 7 0.27
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (18 bp):
TTTGCATTCATGTCATCA
Found at i:7987050 original size:42 final size:42
Alignment explanation
Indices: 7986991--7987090 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
7986981 GGCTCAAATA
* * *
7986991 TTGATTAGAATGGGGCATGAAGTGATCAGAGTAACTTGTATC
1 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTTGTATC
* *
7987033 TTGATCAGAATGGGGCATGAAATGATTAGAGCAGCTTGTATC
1 TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTTGTATC
7987075 TTGATCA-AATCGGGGC
1 TTGATCAGAAT-GGGGC
7987091 GTGTGGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 3 0.06
42 49 0.94
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (42 bp):
TTGATCAGAATGGGGCATGAAATGATCAGAGCAACTTGTATC
Found at i:7988435 original size:44 final size:43
Alignment explanation
Indices: 7988163--7988499 Score: 224
Period size: 44 Copynumber: 7.8 Consensus size: 43
7988153 AAGAATTTCA
* * * *
7988163 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATC-AG
* * * * *
7988206 TAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT-CAG
* * **
7988251 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATT-GCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATCAG
* * **
7988293 G-CCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGTAGA-TTAA-AA--TCAG
* * * * *
7988338 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAGCTG
1 GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATCAG
* * *
7988380 GTAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAAT-CAG
* * * **
7988426 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATT-GTATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTAAAATCAG
*
7988468 G-TCTTATCTCCCTGAGATTACAGTGGAATAGA
1 GATCTTATCTCCCTGAGATTACAGTGGAGTAGA
7988500 CTGAAGAATT
Statistics
Matches: 221, Mismatches: 55, Indels: 37
0.71 0.18 0.12
Matches are distributed among these distances:
41 51 0.23
42 9 0.04
43 8 0.04
44 114 0.52
45 7 0.03
46 32 0.14
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATCAG
Found at i:7988443 original size:175 final size:175
Alignment explanation
Indices: 7988152--7988524 Score: 683
Period size: 175 Copynumber: 2.1 Consensus size: 175
7988142 ACAGATCAGT
7988152 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
* *
7988217 CCTTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
66 CCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
7988282 GATTGCATCAGGCCTTATCTCCCTGAGATTACAGTGGAATAGACC
131 GATTGCATCAGGCCTTATCTCCCTGAGATTACAGTGGAATAGACC
*
7988327 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCT
1 GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
7988392 CCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
66 CCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
* * *
7988457 GATTGTATCAGGTCTTATCTCCCTGAGATTACAGTGGAATAGACT
131 GATTGCATCAGGCCTTATCTCCCTGAGATTACAGTGGAATAGACC
*
7988502 GAAGAATTTCAGACCTTATCTCC
1 GAAGAATTTCAGATCTTATCTCC
7988525 TCAGGCGGTG
Statistics
Matches: 191, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
175 191 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (175 bp):
GAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCT
CCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCA
GATTGCATCAGGCCTTATCTCCCTGAGATTACAGTGGAATAGACC
Found at i:7988774 original size:50 final size:50
Alignment explanation
Indices: 7988526--7988775 Score: 193
Period size: 50 Copynumber: 5.0 Consensus size: 50
7988516 CTTATCTCCT
* *
7988526 CAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC
1 CAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCC
* * ** * * * *
7988576 CTGACATTGCAGCT--AAAAGATTAAAGCTACAACAGCGAATCTTACTCCC
1 CAGGCGGTGCAG-TGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCC
* * *
7988625 CTGGCGGTGTAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCC
1 CAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCC
* ** * * * ** ** * *
7988675 CTA-ACATTGCAGT-TAATAAGATTAAAGCTACCGCAATGAATTTTACTTCC
1 C-AGGCGGTGCAGTGGAA-CAGATTAAAGCCACAACAGCGAATCTTGCTTCC
* **
7988725 CAGGCGGTGCAGTGGAACAGATTGAAGCCACAATGGCGAATCTTGCTTCC
1 CAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCC
7988775 C
1 C
7988776 CGACACCACA
Statistics
Matches: 146, Mismatches: 47, Indels: 14
0.71 0.23 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.27
50 102 0.70
51 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (50 bp):
CAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCTTGCTTCC
Found at i:7988801 original size:100 final size:99
Alignment explanation
Indices: 7988516--7988780 Score: 368
Period size: 100 Copynumber: 2.7 Consensus size: 99
7988506 AATTTCAGAC
*
7988516 CTTATCTCCTCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGAC
1 CTTA-CTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGAC
* *
7988581 ATTGCAGCTAAAAGATTAAAGCTACAACAGCGAAT
65 ATTGCAGTTAAAAGATTAAAGCTACAACAACGAAT
* * * *
7988616 CTTACTCCCCTGGCGGTGTAGTGGAACAGATTAAAGCCACAACAGTGAATCTTGCTTCCCTAACA
1 CTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGACA
** *
7988681 TTGCAGTTAATAAGATTAAAGCTACCGCAATGAAT
66 TTGCAGTTAA-AAGATTAAAGCTACAACAACGAAT
* * * * * *
7988716 TTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAATGGCGAATCTTGCTTCCCCGACA
1 CTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGACA
7988781 CCACAATTAA
Statistics
Matches: 144, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
99 65 0.45
100 79 0.55
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (99 bp):
CTTACTCCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCTGACA
TTGCAGTTAAAAGATTAAAGCTACAACAACGAAT
Found at i:7991806 original size:28 final size:28
Alignment explanation
Indices: 7991756--7991840 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 28
7991746 CACGACAGTT
* *
7991756 AAGAATAGCCCTTATGGCTAACTCT-AGA
1 AAGAATAGCCTTTGTGGCTAACTCTGA-A
*
7991784 ACGAATAGCCTTTGTGG-TGAACTCTGAA
1 AAGAATAGCCTTTGTGGCT-AACTCTGAA
* * *
7991812 AAGAATAGTCTTTGTTGCAAACTCTGAA
1 AAGAATAGCCTTTGTGGCTAACTCTGAA
7991840 A
1 A
7991841 GTTTGTGGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.02
28 45 0.96
29 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (28 bp):
AAGAATAGCCTTTGTGGCTAACTCTGAA
Found at i:7995017 original size:25 final size:27
Alignment explanation
Indices: 7994989--7995039 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
7994979 ATATTATTAA
7994989 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
7995014 TATAATATATTAATATGTTATAATAA
1 TATAATATATTAATATGTTATAATAA
7995040 ACATTAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 3 0.12
27 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:7995963 original size:43 final size:43
Alignment explanation
Indices: 7995902--7995985 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
7995892 ATTTTCGATA
7995902 TGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT
1 TGTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTT-GCATCGACT
7995945 TGTGTTTTCGTGTAAGACCCTGTCTGGGACAGTTGCATCGA
1 TGTGTTTTCGTGTAAGACCCTGTCTGGGACAGTTGCATCGA
7995986 TCTATAAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.90
44 3 0.08
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (43 bp):
TGTGTTTTCGTGTAAGACCCTGTCTGGGACAGTTGCATCGACT
Found at i:8002509 original size:81 final size:81
Alignment explanation
Indices: 8002407--8002564 Score: 264
Period size: 81 Copynumber: 2.0 Consensus size: 81
8002397 ATCATATCTT
*
8002407 ATAATAGAGACAGATGTTCAAACCCATACCTTACCAGACATTCCTGACAGTTCATGCCACATAAG
1 ATAATAGAGACAGAAGTTCAAACCCATACCTTACCAGACATTCCTGACAGTTCATGCCACATAAG
8002472 CCTAATAGAGCAGGTC
66 CCTAATAGAGCAGGTC
* * *
8002488 ATAATAGAGACATACAG-TCAAACCCATATCTTACCAGACATTCTTGACAGTTCATGCCACATAA
1 ATAATAGAGACAGA-AGTTCAAACCCATACCTTACCAGACATTCCTGACAGTTCATGCCACATAA
8002552 GCCTAATAGAGCA
65 GCCTAATAGAGCA
8002565 CGCCATAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
81 71 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (81 bp):
ATAATAGAGACAGAAGTTCAAACCCATACCTTACCAGACATTCCTGACAGTTCATGCCACATAAG
CCTAATAGAGCAGGTC
Found at i:8002762 original size:27 final size:27
Alignment explanation
Indices: 8002688--8002762 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
8002678 AATACACCAT
* *
8002688 AAAGGCAATCCATACAGAGTATGCCAC
1 AAAGGCAATTCATTCAGAGTATGCCAC
*
8002715 AAAGGCTATAT-ATAT-AGAGTATGCCAC
1 AAAGGCAAT-TCAT-TCAGAGTATGCCAC
*
8002742 AAAGGCAATTCATTCAAAGTA
1 AAAGGCAATTCATTCAGAGTA
8002763 CACCATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
AAAGGCAATTCATTCAGAGTATGCCAC
Found at i:8006654 original size:16 final size:16
Alignment explanation
Indices: 8006632--8006685 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
8006622 TAAATTAGAA
*
8006632 GAAAATTTA-AAAGAT
1 GAAAAATTAGAAAGAT
* *
8006647 GAAAAATTATAAGGAT
1 GAAAAATTAGAAAGAT
8006663 AGAAAAA-TAGAAAGAT
1 -GAAAAATTAGAAAGAT
8006679 GAAAAAT
1 GAAAAAT
8006686 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 14 0.44
16 12 0.38
17 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (16 bp):
GAAAAATTAGAAAGAT
Found at i:8011796 original size:19 final size:19
Alignment explanation
Indices: 8011772--8011810 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8011762 AGTTTTAGGC
8011772 ACAATGTCTCCTATATGTG
1 ACAATGTCTCCTATATGTG
8011791 ACAATGTCTCCTATATGTG
1 ACAATGTCTCCTATATGTG
8011810 A
1 A
8011811 TTGATCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (19 bp):
ACAATGTCTCCTATATGTG
Found at i:8013113 original size:37 final size:37
Alignment explanation
Indices: 8013081--8013166 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
8013071 ATTTAGTTTG
* * *
8013081 GACTGGTCATCTGTTGTTGTTTTAAAGGTTTAGCCTA
1 GACTGGTAACCTGTTGTTGTTTTAAAGATTTAGCCTA
8013118 GACTGGTAACCTGTTGTTGTTTTAAAGATTTAGCCTA
1 GACTGGTAACCTGTTGTTGTTTTAAAGATTTAGCCTA
*
8013155 GACTAGTAACCT
1 GACTGGTAACCT
8013167 TACATGTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (37 bp):
GACTGGTAACCTGTTGTTGTTTTAAAGATTTAGCCTA
Found at i:8013342 original size:27 final size:27
Alignment explanation
Indices: 8013312--8013368 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8013302 AAATGATTGT
* *
8013312 CTTTATGGAAATATATGAAAGGAATGC
1 CTTTATGGAAATATACGAAAGGAATAC
* * *
8013339 CTTTCTGGCATTATACGAAAGGAATAC
1 CTTTATGGAAATATACGAAAGGAATAC
8013366 CTT
1 CTT
8013369 CGTGGCAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (27 bp):
CTTTATGGAAATATACGAAAGGAATAC
Found at i:8013407 original size:27 final size:27
Alignment explanation
Indices: 8013356--8013422 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
8013346 GCATTATACG
* * *
8013356 AAAGGAATACCTTCGTGGCAGACTCTG
1 AAAGGAATGCCTTCGTGGCAAACTCTA
* * *
8013383 AAGGGAATGCCTTTGTGGGAAACTCTA
1 AAAGGAATGCCTTCGTGGCAAACTCTA
8013410 AAAGGAATGCCTT
1 AAAGGAATGCCTT
8013423 GATGGTGTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (27 bp):
AAAGGAATGCCTTCGTGGCAAACTCTA
Found at i:8029557 original size:41 final size:39
Alignment explanation
Indices: 8029500--8029576 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
8029490 TTATTAAGAA
*
8029500 TTATAAAAAATTATAAAAATCGTAAAAATATATATAAACTT
1 TTATAAAAAATTATAAAAATCATAAAAA-AT-TATAAACTT
**
8029541 TTATAAAATTTTATAAAAATCATAAAAAATTATAAA
1 TTATAAAAAATTATAAAAATCATAAAAAATTATAAA
8029577 ATGCATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 6 0.18
40 2 0.06
41 25 0.76
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (39 bp):
TTATAAAAAATTATAAAAATCATAAAAAATTATAAACTT
Found at i:8029588 original size:19 final size:19
Alignment explanation
Indices: 8029502--8029577 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 19
8029492 ATTAAGAATT
8029502 ATAAAAAATTATAAAAATC
1 ATAAAAAATTATAAAAATC
* ** *
8029521 GTAAAAATATATATAAACTTTT
1 ATAAAAA-AT-TATAAA-AATC
**
8029543 ATAAAATTTTATAAAAATC
1 ATAAAAAATTATAAAAATC
8029562 ATAAAAAATTATAAAA
1 ATAAAAAATTATAAAA
8029578 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
19 21 0.50
20 8 0.19
21 7 0.17
22 6 0.14
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATC
Found at i:8029772 original size:22 final size:20
Alignment explanation
Indices: 8029747--8029792 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8029737 AAAATACTTC
8029747 TTTTGGTACGATAATTTTATAA
1 TTTTGGTACG--AATTTTATAA
**
8029769 TTTTTTTACGAATTTTATAA
1 TTTTGGTACGAATTTTATAA
8029789 TTTT
1 TTTT
8029793 TTTACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTGGTACGAATTTTATAA
Found at i:8029794 original size:10 final size:10
Alignment explanation
Indices: 8029781--8029928 Score: 57
Period size: 10 Copynumber: 15.3 Consensus size: 10
8029771 TTTTTACGAA
8029781 TTTTATAATT
1 TTTTATAATT
*
8029791 TTTT-TACTT
1 TTTTATAATT
8029800 TTTTATAATT
1 TTTTATAATT
*
8029810 TTCTTACGAA--
1 TT-TTA-TAATT
**
8029820 -TTTATAAGA
1 TTTTATAATT
8029829 TTTTATAATT
1 TTTTATAATT
*
8029839 TTTTCT-ATAT
1 TTTTATAAT-T
* *
8029849 TTCTAT-ATA
1 TTTTATAATT
8029858 TTTTA-AATCT
1 TTTTATAAT-T
**
8029868 TTTTAGGA-T
1 TTTTATAATT
8029877 TTTTATAATT
1 TTTTATAATT
8029887 TTTT-TATATT
1 TTTTATA-ATT
* *
8029897 TTTAATAAAT
1 TTTTATAATT
*
8029907 TTTAAGT-ATT
1 TTTTA-TAATT
8029917 TTTTAT-ATT
1 TTTTATAATT
8029926 TTT
1 TTT
8029929 ATTAAAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.02
8 3 0.03
9 33 0.31
10 58 0.55
11 7 0.07
12 2 0.02
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8029794 original size:19 final size:20
Alignment explanation
Indices: 8029759--8029826 Score: 95
Period size: 19 Copynumber: 3.5 Consensus size: 20
8029749 TTGGTACGAT
8029759 AATTTTATAATTTTTTTACG
1 AATTTTATAATTTTTTTACG
8029779 AATTTTATAATTTTTTTAC-
1 AATTTTATAATTTTTTTACG
** *
8029798 TTTTTTATAATTTTCTTACG
1 AATTTTATAATTTTTTTACG
8029818 AA-TTTATAA
1 AATTTTATAA
8029827 GATTTTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 23 0.55
20 19 0.45
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (20 bp):
AATTTTATAATTTTTTTACG
Found at i:8029852 original size:39 final size:39
Alignment explanation
Indices: 8029761--8029842 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
8029751 GGTACGATAA
* * * *
8029761 TTTTATAATTTTTTTACGAATTTTATAATTTTTTTACTT
1 TTTTATAATTTTCTTACGAATTTTATAAATTTTATAATT
8029800 TTTTATAATTTTCTTACGAA-TTTATAAGATTTTATAATT
1 TTTTATAATTTTCTTACGAATTTTATAA-ATTTTATAATT
8029839 TTTT
1 TTTT
8029843 CTATATTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 7 0.18
39 31 0.82
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (39 bp):
TTTTATAATTTTCTTACGAATTTTATAAATTTTATAATT
Found at i:8029892 original size:20 final size:19
Alignment explanation
Indices: 8029761--8029900 Score: 81
Period size: 19 Copynumber: 7.3 Consensus size: 19
8029751 GGTACGATAA
*
8029761 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTTTTTA-GAT
**
8029781 TTTTATAATTTTTTTACTT
1 TTTTATAATTTTTTTAGAT
*
8029800 TTTTATAATTTTCTTACGA-
1 TTTTATAATTTTTTTA-GAT
* * *
8029819 ATTTATAAGATTTTATA-AT
1 TTTTATAA-TTTTTTTAGAT
* * * *
8029838 TTTT-TCTATATTTCTATAT
1 TTTTAT-AATTTTTTTAGAT
*
8029857 ATTTTA-AATCTTTTTAGGAT
1 -TTTTATAATTTTTTTA-GAT
*
8029877 TTTTATAATTTTTTTATAT
1 TTTTATAATTTTTTTAGAT
8029896 TTTTA
1 TTTTA
8029901 ATAAATTTTA
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
18 7 0.08
19 47 0.52
20 36 0.40
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTTAGAT
Found at i:8029909 original size:29 final size:30
Alignment explanation
Indices: 8029877--8029948 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
8029867 TTTTTAGGAT
8029877 TTTTATAATTTTTTTATATTTTTAAT-AAA
1 TTTTATAATTTTTTTATATTTTTAATAAAA
* *
8029906 TTTTA-AGTATTTTTTATATTTTTATTAAAA
1 TTTTATAAT-TTTTTTATATTTTTAATAAAA
* *
8029936 TTTAATAAATTTT
1 TTTTATAATTTTT
8029949 ATTTTTTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.06
29 21 0.60
30 11 0.31
31 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTTATAATTTTTTTATATTTTTAATAAAA
Found at i:8033315 original size:147 final size:147
Alignment explanation
Indices: 8033048--8033336 Score: 533
Period size: 147 Copynumber: 2.0 Consensus size: 147
8033038 TACGAACTTA
* *
8033048 ATTTATGGAGATGACATCCCAAAACAGCAATTTCAGATGTCACTGGAAATCAAAACGTTACAAAG
1 ATTTATGGAGATGACATCCCAAAACAGCAATTTCAGATATCACTAGAAATCAAAACGTTACAAAG
*
8033113 AACCTTCACCCTCACAATTTGACTGAACCCAACCATCCACCCGATTATATATATGTACTCTCATA
66 AACCTTCACCCTCACAATTTGACTGAACCCAACCATCCACCCCATTATATATATGTACTCTCATA
8033178 AATCAAATTGGAATTTG
131 AATCAAATTGGAATTTG
* *
8033195 ATTTATGGAGATGACATCCCAAAACAGCAATTTCAGATATCACTAGAAATCGAAACGTTACAAAT
1 ATTTATGGAGATGACATCCCAAAACAGCAATTTCAGATATCACTAGAAATCAAAACGTTACAAAG
8033260 AACCTTCACCCTCACAATTTGACTGAACCCAACCATCCACCCCATTATATATATGTACTCTCATA
66 AACCTTCACCCTCACAATTTGACTGAACCCAACCATCCACCCCATTATATATATGTACTCTCATA
8033325 AATCAAATTGGA
131 AATCAAATTGGA
8033337 TTTTTTTTTC
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 137 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (147 bp):
ATTTATGGAGATGACATCCCAAAACAGCAATTTCAGATATCACTAGAAATCAAAACGTTACAAAG
AACCTTCACCCTCACAATTTGACTGAACCCAACCATCCACCCCATTATATATATGTACTCTCATA
AATCAAATTGGAATTTG
Found at i:8034371 original size:22 final size:22
Alignment explanation
Indices: 8034324--8034371 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
8034314 TTTTTTTTTG
* *
8034324 TTGTTGTTGTTTTGTTACCATT
1 TTGTTGTTGTTTTGATACCATA
*
8034346 TTGTTGTTGTTTTGATATCATA
1 TTGTTGTTGTTTTGATACCATA
8034368 TTGT
1 TTGT
8034372 ACTATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (22 bp):
TTGTTGTTGTTTTGATACCATA
Found at i:8044790 original size:31 final size:33
Alignment explanation
Indices: 8044755--8044825 Score: 83
Period size: 35 Copynumber: 2.2 Consensus size: 33
8044745 ATTTTTTAAA
* *
8044755 CGGGCCTCT-TTTTTTTCCCAA-TCCCATATTT
1 CGGGCCTATATTTTTATCCCAACTCCCATATTT
*
8044786 CGGGCCTATATTTTTATCCGAACCCTCCCATATTT
1 CGGGCCTATATTTTTATCCCAA--CTCCCATATTT
8044821 CGGGC
1 CGGGC
8044826 GGGCCGTCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 8 0.24
32 10 0.30
35 15 0.45
ACGTcount: A:0.15, C:0.32, G:0.14, T:0.38
Consensus pattern (33 bp):
CGGGCCTATATTTTTATCCCAACTCCCATATTT
Found at i:8049918 original size:13 final size:13
Alignment explanation
Indices: 8049900--8049929 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8049890 TAATTTCACC
*
8049900 TATGATGTACTTT
1 TATGATGTACCTT
8049913 TATGATGTACCTT
1 TATGATGTACCTT
8049926 TATG
1 TATG
8049930 GCCTAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (13 bp):
TATGATGTACCTT
Found at i:8065604 original size:18 final size:18
Alignment explanation
Indices: 8065581--8065618 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8065571 TAGCTTGTGT
8065581 AATAGATCAAGTGATCTA
1 AATAGATCAAGTGATCTA
*
8065599 AATAGATTAAGTGATCTA
1 AATAGATCAAGTGATCTA
8065617 AA
1 AA
8065619 ATTGACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (18 bp):
AATAGATCAAGTGATCTA
Found at i:8074238 original size:11 final size:11
Alignment explanation
Indices: 8074224--8074267 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
8074214 AGATAAATAT
8074224 TATTTTATTAA
1 TATTTTATTAA
*
8074235 TATTTTAATGAGA
1 TATTTT-ATTA-A
*
8074248 TATTTTATTAT
1 TATTTTATTAA
8074259 TATTTTATT
1 TATTTTATT
8074268 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8074716 original size:39 final size:39
Alignment explanation
Indices: 8074672--8074746 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
8074662 AGAGGAAGAT
*
8074672 ATGGAAATATTGTAGAGAAAGGAAATGAGGGTGTTAGTG
1 ATGGAAATATTATAGAGAAAGGAAATGAGGGTGTTAGTG
8074711 ATGGAAATATTATAGAGAAAGGAAATGAGGGTGTTA
1 ATGGAAATATTATAGAGAAAGGAAATGAGGGTGTTA
8074747 TAAACTTGGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.25
Consensus pattern (39 bp):
ATGGAAATATTATAGAGAAAGGAAATGAGGGTGTTAGTG
Found at i:8075794 original size:44 final size:43
Alignment explanation
Indices: 8075741--8076334 Score: 516
Period size: 44 Copynumber: 13.7 Consensus size: 43
8075731 CACAAAGCTT
* *
8075741 TATCTCCCTGTTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
*
8075785 TACCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* * *
8075829 TATCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCA
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* *
8075873 TATCCCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
*
8075917 TATCTCCCTGGTCAGTAGTGGAATA----G--G--TG-AATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
* *
8075951 TATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
8075995 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
*
8076039 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* * ** *
8076083 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTA-ATCC
* * * ** * * ** *
8076127 TATCTCCCTAAG-CAGTACTGGAGCAGATCGAAGACGGTGAATCT
1 TATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* * * * ** * **** *
8076171 TATCTTCCCAAGGT-AGTA-AGGAAGCAAATTTAAGCCACT-AGCC
1 TATC-TCCC-TGGTCAGCAGTGGAA-TAGGTTGAAGATTGTAATCC
* * *
8076214 TTATCTCACTGGTCAACAGTGGAATAAGTTGAAGATTGTAAGTCC
1 -TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAA-TCC
8076259 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AATCC
* * *
8076303 TATCTCCCTAAG-CAACAGTGGAGTAGGTTGAA
1 TATCTCCCT-GGTCAGCAGTGGAATAGGTTGAA
8076335 AATTACAGAT
Statistics
Matches: 454, Mismatches: 69, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
34 26 0.06
35 2 0.00
36 2 0.00
38 2 0.00
40 2 0.00
42 5 0.01
43 17 0.04
44 371 0.82
45 27 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAATCC
Found at i:8075957 original size:34 final size:34
Alignment explanation
Indices: 8075914--8075978 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
8075904 AGATTGTAAG
* *
8075914 TCCTATCTCCCTGGTCAGTAGTGGAATAGGTGAA
1 TCCTATCTCCCTGATCAGCAGTGGAATAGGTGAA
8075948 TCCTATCTCCCTGATCAGCAGTGGAATAGGT
1 TCCTATCTCCCTGATCAGCAGTGGAATAGGT
8075979 TGAAGATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (34 bp):
TCCTATCTCCCTGATCAGCAGTGGAATAGGTGAA
Found at i:8076062 original size:166 final size:166
Alignment explanation
Indices: 8075788--8076110 Score: 524
Period size: 166 Copynumber: 1.9 Consensus size: 166
8075778 TAAGTCTTAC
* *
8075788 CTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCTCTGGTCAGCAGTGGAAT
1 CTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAAT
* *
8075853 AGGTTGAAGATTGTGAGTCATATCCCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
66 AGGTTGAAGATTGTGAATCATATCCCCCTGGCCAGCAGTGGAATAGGTTAAAGATTGTGAA-TCC
*
8075917 TATCTCCCTG-GTCAGTAGTGGAATAGGTGAATCCTAT
130 TATCTCCCTGAG-CAGCAGTGGAATAGGTGAATCCTAT
*
8075954 CTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAGTGGAAT
1 CTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAAT
* * *
8076019 AGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAATCCT
66 AGGTTGAAGATTGTGAATCATATCCCCCTGGCCAGCAGTGGAATAGGTTAAAGATTGTGAATCCT
*
8076084 ATCTCCCTGAGCAGCAGTGGAGTAGGT
131 ATCTCCCTGAGCAGCAGTGGAATAGGT
8076111 TGAAAATTAC
Statistics
Matches: 145, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
166 142 0.98
167 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (166 bp):
CTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAAT
AGGTTGAAGATTGTGAATCATATCCCCCTGGCCAGCAGTGGAATAGGTTAAAGATTGTGAATCCT
ATCTCCCTGAGCAGCAGTGGAATAGGTGAATCCTAT
Found at i:8076277 original size:220 final size:220
Alignment explanation
Indices: 8075995--8076500 Score: 815
Period size: 220 Copynumber: 2.3 Consensus size: 220
8075985 TTGTGAGTCC
8075995 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCCTGGTCAGCAGTG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTG
* *
8076059 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
65 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGA
* *
8076124 TCTTATCTCCCTAAGCAGTACTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTA
130 TCTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTA
8076189 AGGAAGCAA-ATTTAAGCCACTAGCCT
195 AGGAAG-AAGATTTAAGCCACTAGCCT
* * *
8076215 TATCTCACTGGTCAACAGTGGAATAAGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
*
8076280 AATAGGTTGAAGATTGTGAATCCTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGAT
66 AATAGGTTAAAGATTGTGAATCCTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGAT
* *
8076345 CTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAG
131 CTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAA
8076410 GGAAGAAGATTTAAGCCACTAGCCT
196 GGAAGAAGATTTAAGCCACTAGCCT
* * *
8076435 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGT-AGACCTTATTTCCCTGAG-CAGCAG
1 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC-TATCTCCCTG-GTCAGCAG
8076497 TGGA
63 TGGA
8076501 GGAAGTTGAA
Statistics
Matches: 265, Mismatches: 16, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
219 8 0.03
220 255 0.96
221 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (220 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGG
AATAGGTTAAAGATTGTGAATCCTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGAT
CTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGTAGTAA
GGAAGAAGATTTAAGCCACTAGCCT
Found at i:8076380 original size:88 final size:88
Alignment explanation
Indices: 8076288--8076556 Score: 219
Period size: 88 Copynumber: 3.1 Consensus size: 88
8076278 GGAATAGGTT
* * *
8076288 GAAGATTGTGAATCCTATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTC
1 GAAGATTGTGAATCCTATCTCCCTAAGCAGCAGTGGAGAAGGTTGAAAGTTACAGATCTTATCTC
*
8076353 CCTAAGCAGTAGTAGAGCAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
** * * * * * ** *
8076376 GAAGACAGTGAATCTTATCTTCCC-AAGGTAGTAG-GGAAGAAGATT-TAAGCCACTAG-CCTTA
1 GAAGATTGTGAATCCTATC-TCCCTAA-GCAGCAGTGG-AGAAGGTTGAAAGTTAC-AGATCTTA
* * * * *
8076437 TCTCCCTGAGCAGCAGTGGAGTAGGTT
62 TCTCCCTAAGCAGTAGTGGAGCAGATC
* *
8076464 GAAGATTGT-AGA-CCTTATTTCCCTGAGCAGCAGTGGAGGAA-GTTGAAAGTTACAGATCTTAT
1 GAAGATTGTGA-ATCC-TATCTCCCTAAGCAGCAGTGGA-GAAGGTTGAAAGTTACAGATCTTAT
**
8076526 CTCCCTAAGTGGTAGTGGAGCAGATC
63 CTCCCTAAGCAGTAGTGGAGCAGATC
8076552 GAAGA
1 GAAGA
8076557 CGGCGGATTA
Statistics
Matches: 132, Mismatches: 38, Indels: 22
0.69 0.20 0.11
Matches are distributed among these distances:
87 16 0.12
88 100 0.76
89 16 0.12
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (88 bp):
GAAGATTGTGAATCCTATCTCCCTAAGCAGCAGTGGAGAAGGTTGAAAGTTACAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATC
Found at i:8076480 original size:44 final size:44
Alignment explanation
Indices: 8075951--8076510 Score: 217
Period size: 44 Copynumber: 12.7 Consensus size: 44
8075941 AGGTGAATCC
* * *
8075951 TATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC-
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGT-AGACCT
*
8075995 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGT-GAATCC-
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAG-A-CCT
* *
8076039 TATCTCCCTG-GTCAGCAGTGGAATAGGTTAAAGATTGT-GAATCC-
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAG-A-CCT
* ** *
8076083 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
* * * * * * ** *
8076127 TATCTCCCTAAGCAGTACTGGAGCAGATCGAAGACGGT-GAATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG-ACCT
* * * ** * ****
8076171 TATCTTCCC-AAG--GTAGTAAGGAAGCAAATTTAAGCCACTAG-CCT
1 TATC-TCCCTGAGCAGCAGT--GG-AGTAGGTTGAAGATTGTAGACCT
* * * * *
8076215 TATCTCACTG-GTCAACAGTGGAATAAGTTGAAGATTGTAAGTCC-
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGT-AGACCT
*
8076259 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGT-GAATCC-
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAGATTGTAG-A-CCT
* * * ** *
8076303 TATCTCCCTAAGCAACAGTGGAGTAGGTTGAAAATTACAGATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
* * * * * * ** *
8076347 TATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGT-GAATCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAG-ACCT
* * * * * * ****
8076391 TATCTTCCC-AAGGTAGTAG-GGAAGAAGATTTAAGCCACTAG-CCT
1 TATC-TCCCTGA-GCAGCAGTGG-AGTAGGTTGAAGATTGTAGACCT
8076435 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
* * *
8076479 TATTTCCCTGAGCAGCAGTGGAGGAAGTTGAA
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
8076511 AGTTACAGAT
Statistics
Matches: 402, Mismatches: 83, Indels: 62
0.73 0.15 0.11
Matches are distributed among these distances:
42 6 0.01
43 38 0.09
44 310 0.77
45 43 0.11
46 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCT
Found at i:8076525 original size:44 final size:44
Alignment explanation
Indices: 8076432--8076531 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
8076422 AAGCCACTAG
* * **
8076432 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGGAAGTTGAAGATTACAGA
*
8076476 CCTTATTTCCCTGAGCAGCAGTGGAGGAAGTTGAA-AGTTACAGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGGAAGTTGAAGA-TTACAGA
*
8076520 TCTTATCTCCCT
1 CCTTATCTCCCT
8076532 AAGTGGTAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.02
44 47 0.98
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (44 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGGAAGTTGAAGATTACAGA
Found at i:8076675 original size:44 final size:45
Alignment explanation
Indices: 8076609--8076770 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 45
8076599 AGCCACTAGC
** * * * *
8076609 CTTATCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAGAT
* *** **
8076653 TTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAAGCCAGTA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAGAT
* *
8076696 CCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAATAATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAGAT
* * *
8076740 CTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
8076771 CGTATCGGGT
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 16 0.17
44 77 0.83
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAACAGAT
Found at i:8076675 original size:176 final size:176
Alignment explanation
Indices: 8076259--8076677 Score: 540
Period size: 176 Copynumber: 2.4 Consensus size: 176
8076249 TTGTAAGTCC
* * ** *
8076259 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATT-GTGAATCC-TATCTCCCTAAGCAACAG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACAG-A-CCTTATCTCCCTAAGCAGCAG
* * *
8076321 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTG
63 TGGAGGAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCG
8076386 AATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
128 AATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* ** * *
8076435 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATTTCCCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
* ** * * *
8076500 AGGAAGTTGAAAGTTACAGATCTTATCTCCCTAAGTGGTAGTGGAGCAGATCGAAGACGGCGGAT
66 AGGAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCGAAT
* *
8076565 -TATATCTTCCCAAGTTAGTAGGGAAGCAGATTTAAGCCACTAGCCT
131 CT-TATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* ** **
8076611 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATTTTATCTCCCTAAGTTGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
8076676 AG
66 AG
8076678 CAGATTGAAG
Statistics
Matches: 212, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
175 3 0.01
176 207 0.98
177 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
AGGAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGCGAAT
CTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
Found at i:8076707 original size:87 final size:88
Alignment explanation
Indices: 8076589--8076770 Score: 199
Period size: 87 Copynumber: 2.1 Consensus size: 88
8076579 TTAGTAGGGA
* * * * *
8076589 AGCAGATTTAAGCCACTAGCCTTATCTCCCTG-AGCAGTAGTGGAGTAGGTTGAAAATTACAGAT
1 AGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGCAGCAGTGGAGCAGATT-AAAATAACAGAT
* *
8076653 TTTATCTCCCT-AAGTTGCAGTGG
65 CTTATCTCCCTGAAGTTGCAGTAG
* * ** *
8076676 AGCAGATTGAAGCCAGTAATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATAATAGAT
1 AGCAGATTGAAGCCACT-AGCCTTATCTCCCTGAAGCAGCAGTGGAGCAGATTAAAATAACAGAT
*
8076740 CTTATCTCTCTGAAGTTGCAGTAG
65 CTTATCTCCCTGAAGTTGCAGTAG
*
8076764 AGTAGAT
1 AGCAGAT
8076771 CGTATCGGGT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
87 44 0.56
88 34 0.44
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (88 bp):
AGCAGATTGAAGCCACTAGCCTTATCTCCCTGAAGCAGCAGTGGAGCAGATTAAAATAACAGATC
TTATCTCCCTGAAGTTGCAGTAG
Found at i:8076721 original size:176 final size:175
Alignment explanation
Indices: 8076259--8076726 Score: 500
Period size: 176 Copynumber: 2.7 Consensus size: 175
8076249 TTGTAAGTCC
* * ** *
8076259 TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATT-GTGAATCC-TATCTCCCTAAGCAACAG
1 TATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACAG-A-CCTTATCTCCCTAAGCAGCAG
* * * * ** * * *
8076321 TGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACAGTG
63 TGGAGCAAGTTG-AAAGTACAGATCCTATCTCCCTAAGTGGCAGTGGAGCAGATCGAAGACAGCG
8076386 AATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
127 AATCTTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* ** * *
8076435 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGACCTTATTTCCCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
* * * * *
8076500 AGGAAGTTGAAAGTTACAGATCTTATCTCCCTAAGTGGTAGTGGAGCAGATCGAAGACGGCGGAT
66 AGCAAGTTGAAAG-TACAGATCCTATCTCCCTAAGTGGCAGTGGAGCAGATCGAAGACAGCGAAT
* *
8076565 -TATATCTTCCCAAGTTAGTAGGGAAGCAGATTTAAGCCACTAGCCT
130 CT-TATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
* ** **
8076611 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATTTTATCTCCCTAAGTTGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
* *
8076676 AGC-AGATTG-AAG-CCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT
66 AGCAAG-TTGAAAGTACAG--ATCCTATCTCCCT-AAGTGGCAGTGGAGCAGAT
8076727 TAAAATAATA
Statistics
Matches: 251, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
173 3 0.01
175 23 0.09
176 223 0.89
177 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (175 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGCAGCAGTGG
AGCAAGTTGAAAGTACAGATCCTATCTCCCTAAGTGGCAGTGGAGCAGATCGAAGACAGCGAATC
TTATCTTCCCAAGGTAGTAGGGAAGAAGATTTAAGCCACTAGCCT
Found at i:8077347 original size:21 final size:21
Alignment explanation
Indices: 8077322--8077397 Score: 138
Period size: 21 Copynumber: 3.7 Consensus size: 21
8077312 ATCTTCAAGG
8077322 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
8077343 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
8077364 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
8077383 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
8077398 AGATATGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.27
21 40 0.73
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:8077419 original size:23 final size:22
Alignment explanation
Indices: 8077321--8077420 Score: 88
Period size: 21 Copynumber: 4.7 Consensus size: 22
8077311 AATCTTCAAG
*
8077321 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
*
8077343 -ATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
8077364 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
8077382 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
8077404 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
8077421 GATTTAATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.03
19 15 0.21
21 33 0.47
22 8 0.11
23 12 0.17
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:8077752 original size:23 final size:23
Alignment explanation
Indices: 8077708--8077752 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8077698 TCTTATTTTG
* *
8077708 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
8077731 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
8077753 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:8078226 original size:23 final size:22
Alignment explanation
Indices: 8078200--8078243 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
8078190 ATAATTCACA
*
8078200 TACATATATATTTTTCTTATATG
1 TACATATATATATTT-TTATATG
8078223 TACATATATATATTTTTATAT
1 TACATATATATATTTTTATAT
8078244 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (22 bp):
TACATATATATATTTTTATATG
Found at i:8078227 original size:27 final size:25
Alignment explanation
Indices: 8078174--8078239 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 25
8078164 TAAAATATGT
*
8078174 ATATTTATATTTTTTTATAATTCAC
1 ATATATATATTTTTTTATAATTCAC
8078199 ATACATATATATTTTTCTTAT-ATGT-AC
1 AT--ATATATATTTTT-TTATAAT-TCAC
8078226 ATATATATATTTTT
1 ATATATATATTTTT
8078240 ATATTTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 14 0.39
27 17 0.47
28 5 0.14
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATATATATTTTTTTATAATTCAC
Found at i:8080424 original size:49 final size:48
Alignment explanation
Indices: 8080300--8080444 Score: 173
Period size: 49 Copynumber: 3.0 Consensus size: 48
8080290 GTGGCATGAA
** * *
8080300 ACTTGAACCTGTGACTGCATAACCACCGCCAACTGGAGGCCCGAGTTAT
1 ACTTGAACCCATGACTGCATAACCACTGTCAACTGGA-GCCCGAGTTAT
* *
8080349 ACTTGAACCCATGATTGCATAACCACTGTCAACTAGGAGCCCTAGTTAT
1 ACTTGAACCCATGACTGCATAACCACTGTCAACT-GGAGCCCGAGTTAT
** * *
8080398 ACTTGAACCCATGACTATATAACCACTGTGAACTGGGAGCTCGAGTT
1 ACTTGAACCCATGACTGCATAACCACTGTCAACT-GGAGCCCGAGTT
8080445 GCAATGTAAC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 79 0.96
50 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (48 bp):
ACTTGAACCCATGACTGCATAACCACTGTCAACTGGAGCCCGAGTTAT
Found at i:8080932 original size:28 final size:28
Alignment explanation
Indices: 8080878--8080932 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
8080868 TGTTCACTTC
* ***
8080878 TCCCAGATTGGTACTTATGGTTCTTTTG
1 TCCCAGATTGGTACTCAAACTTCTTTTG
*
8080906 TCCCAGATTGGTACTCAAACTTTTTTT
1 TCCCAGATTGGTACTCAAACTTCTTTT
8080933 CTGTCCAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (28 bp):
TCCCAGATTGGTACTCAAACTTCTTTTG
Found at i:8081800 original size:34 final size:35
Alignment explanation
Indices: 8081756--8081822 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
8081746 CAGTAAAATA
*
8081756 TTTTCCGTAAAATAATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
* * *
8081790 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACGGGAAAATATTTT
8081823 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACGGGAAAATATTTTAC
Found at i:8083476 original size:8 final size:8
Alignment explanation
Indices: 8083463--8083487 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8083453 AGAAGCATGG
8083463 TATGGGTT
1 TATGGGTT
8083471 TATGGGTT
1 TATGGGTT
8083479 TATGGGTT
1 TATGGGTT
8083487 T
1 T
8083488 TGGTTATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.36, T:0.52
Consensus pattern (8 bp):
TATGGGTT
Found at i:8083651 original size:23 final size:24
Alignment explanation
Indices: 8083625--8083672 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
8083615 AAAAGAAAGT
8083625 TTAAAGAACATAAAA-GAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
** *
8083648 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
8083672 T
1 T
8083673 ATGAGGATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (24 bp):
TTAAAGAACATAAAACGAAAAAAA
Found at i:8092767 original size:2 final size:2
Alignment explanation
Indices: 8092762--8092813 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
8092752 ACAAAGTACA
8092762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8092804 AT AT AT AT AT
1 AT AT AT AT AT
8092814 TCACTAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8093020 original size:11 final size:11
Alignment explanation
Indices: 8093006--8093048 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8092996 TTTTGCTGCT
8093006 ATTTTGCTATC
1 ATTTTGCTATC
* * *
8093017 ATTTTACTGTT
1 ATTTTGCTATC
*
8093028 GTTTTGCTATC
1 ATTTTGCTATC
8093039 ATTTTGCTAT
1 ATTTTGCTAT
8093049 TATATTATTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (11 bp):
ATTTTGCTATC
Found at i:8103965 original size:7 final size:7
Alignment explanation
Indices: 8103941--8103986 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
8103931 GATCATAGAT
8103941 CTTAAAC
1 CTTAAAC
* *
8103948 TTTAAAT
1 CTTAAAC
*
8103955 CTTGAAC
1 CTTAAAC
*
8103962 CTTGAAC
1 CTTAAAC
8103969 CTTAAAC
1 CTTAAAC
8103976 CTTAAAC
1 CTTAAAC
8103983 CTTA
1 CTTA
8103987 TACTTTGGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (7 bp):
CTTAAAC
Found at i:8104081 original size:7 final size:7
Alignment explanation
Indices: 8104043--8104093 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
8104033 CTAGGCCATG
8104043 GACCTT-
1 GACCTTA
*
8104049 GACTTTA
1 GACCTTA
*
8104056 GACCCTA
1 GACCTTA
*
8104063 AACCTTTA
1 GACC-TTA
8104071 -ACCTTA
1 GACCTTA
8104077 GACCTTA
1 GACCTTA
8104084 GACCTTA
1 GACCTTA
8104091 GAC
1 GAC
8104094 TCAGGACCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 8 0.22
7 27 0.73
8 2 0.05
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (7 bp):
GACCTTA
Found at i:8104193 original size:29 final size:29
Alignment explanation
Indices: 8104147--8104203 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
8104137 CTGGGTCCAT
* *
8104147 GGTTCAAGGTTTAGGATTCAAGATTTTAA
1 GGTTCAAGGTCTAAGATTCAAGATTTTAA
*
8104176 GGTTTAAGGTCTAAGATTCAAGATTTTA
1 GGTTCAAGGTCTAAGATTCAAGATTTTA
8104204 GAGTCCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (29 bp):
GGTTCAAGGTCTAAGATTCAAGATTTTAA
Found at i:8104213 original size:29 final size:28
Alignment explanation
Indices: 8104151--8104222 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
8104141 GTCCATGGTT
* *
8104151 CAAGGTTTAGGATTCAAGATTTTAAGGTT
1 CAAGG-TTAAGATTCAAGATTTTAAGGTC
*
8104180 TAAGGTCTAAGATTCAAGATTTT-AGAGTC
1 CAAGGT-TAAGATTCAAGATTTTAAG-GTC
*
8104209 CAAGGTTTAGATTC
1 CAAGGTTAAGATTC
8104223 TAGGGTCCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.28
29 26 0.72
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (28 bp):
CAAGGTTAAGATTCAAGATTTTAAGGTC
Found at i:8104220 original size:21 final size:21
Alignment explanation
Indices: 8104196--8104236 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8104186 CTAAGATTCA
*
8104196 AGATTTTAGAGTCCAAGGTTT
1 AGATTCTAGAGTCCAAGGTTT
*
8104217 AGATTCTAGGGTCCAAGGTT
1 AGATTCTAGAGTCCAAGGTT
8104237 CAAGGTATGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (21 bp):
AGATTCTAGAGTCCAAGGTTT
Found at i:8109257 original size:32 final size:32
Alignment explanation
Indices: 8109221--8109285 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8109211 CTCTTTGCAA
8109221 TTTAGTCCTTAGATTAGCATATTTAATTTTCC
1 TTTAGTCCTTAGATTAGCATATTTAATTTTCC
8109253 TTTAGTCCTTAGATTAGCATATTTAATTTTCC
1 TTTAGTCCTTAGATTAGCATATTTAATTTTCC
8109285 T
1 T
8109286 ATCATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (32 bp):
TTTAGTCCTTAGATTAGCATATTTAATTTTCC
Found at i:8115306 original size:13 final size:13
Alignment explanation
Indices: 8115288--8115313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8115278 CTAGTTTCCG
8115288 TTGTTTCATTTTT
1 TTGTTTCATTTTT
8115301 TTGTTTCATTTTT
1 TTGTTTCATTTTT
8115314 ATTTATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
TTGTTTCATTTTT
Found at i:8115523 original size:21 final size:21
Alignment explanation
Indices: 8115498--8115547 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
8115488 TACTCTTTTT
8115498 TTATTTCATTCATTA-TT-ATTA
1 TTATTT-A-TCATTATTTAATTA
8115519 TTATTTATCATTATTTAATTA
1 TTATTTATCATTATTTAATTA
*
8115540 TTACTTAT
1 TTATTTAT
8115548 TCTTCTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
21 17 0.65
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTATCATTATTTAATTA
Found at i:8125713 original size:20 final size:20
Alignment explanation
Indices: 8125690--8125732 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8125680 AACTATTTAA
** *
8125690 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
8125710 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
8125730 ATA
1 ATA
8125733 TGCTTCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:8126216 original size:14 final size:15
Alignment explanation
Indices: 8126197--8126225 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8126187 TGTGGAAATG
8126197 TGTTTTTTT-TTTTT
1 TGTTTTTTTGTTTTT
8126211 TGTTTTTTTGTTTTT
1 TGTTTTTTTGTTTTT
8126226 ACTGTGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TGTTTTTTTGTTTTT
Found at i:8126481 original size:22 final size:22
Alignment explanation
Indices: 8126439--8126481 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8126429 CCCCTTATAG
* *
8126439 CCTTCTCTTTCTCTCTCCATCT
1 CCTTCTCCTTCTCTCTACATCT
8126461 CCTTCTTCCTTCTCT-TACATC
1 CCTTC-TCCTTCTCTCTACATC
8126482 AAGCTATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.07, C:0.44, G:0.00, T:0.49
Consensus pattern (22 bp):
CCTTCTCCTTCTCTCTACATCT
Found at i:8129739 original size:3 final size:3
Alignment explanation
Indices: 8129731--8129765 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8129721 CTGCAGACTA
* *
8129731 ATT ATT ATT ATT ATT GTT GTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8129766 AGAAGAGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8136245 original size:108 final size:108
Alignment explanation
Indices: 8136056--8136271 Score: 389
Period size: 108 Copynumber: 2.0 Consensus size: 108
8136046 CATACCTAAG
* *
8136056 CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACATAACATATCATTTTCTCT
1 CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACACAACATATCATTTTCTCC
8136121 ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
66 ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
*
8136164 CTTACAATTATCATTCCATAACCAAGCAT-AATTCAAAGCATATCACACAACATATCATTTTTTC
1 CTTACAATTATCATTCCATAACCAAGCATCAA-TCAAAGCATATCACACAACATATCATTTTCTC
8136228 CACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
65 CACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
8136272 AACAACATGG
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 2 0.02
108 102 0.98
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.30
Consensus pattern (108 bp):
CTTACAATTATCATTCCATAACCAAGCATCAATCAAAGCATATCACACAACATATCATTTTCTCC
ACCATTAAACATTAAACATATGATCTAAGCTACCTAGCAAAAT
Found at i:8139199 original size:16 final size:19
Alignment explanation
Indices: 8139151--8139206 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
8139141 TTTAGTCATA
8139151 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
8139171 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
8139189 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
8139207 TTCAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:8139232 original size:13 final size:14
Alignment explanation
Indices: 8139216--8139257 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
8139206 TTTCAATTTT
8139216 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
8139229 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
8139244 ATTTTAAATAATAT
1 ATTTT-AATAATAT
8139258 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:8139242 original size:16 final size:16
Alignment explanation
Indices: 8139220--8139256 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8139210 AATTTTATTT
8139220 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
8139237 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
8139252 TAATA
1 TAATA
8139257 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:8147088 original size:24 final size:24
Alignment explanation
Indices: 8147061--8147107 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8147051 AATAATTTAA
*
8147061 TAAA-TAAAAATAAAATTCTAAAAC
1 TAAACTAAAAAT-AAAGTCTAAAAC
*
8147085 TAAACTAAAACTAAAGTCTAAAA
1 TAAACTAAAAATAAAGTCTAAAA
8147108 GTCTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAACTAAAAATAAAGTCTAAAAC
Found at i:8147171 original size:27 final size:27
Alignment explanation
Indices: 8147139--8147208 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
8147129 GTAGGGATTC
*
8147139 AATTCGGTTAATTCAGGTAATTCGGGT
1 AATTCGGTTAATTCAGGTAATTCGAGT
* *
8147166 AATTCGGTTAATTCGGGTAATTCGATT
1 AATTCGGTTAATTCAGGTAATTCGAGT
*
8147193 AATGCGGTTAATTCAG
1 AATTCGGTTAATTCAG
8147209 TTAACCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.37
Consensus pattern (27 bp):
AATTCGGTTAATTCAGGTAATTCGAGT
Found at i:8147195 original size:9 final size:9
Alignment explanation
Indices: 8147139--8147212 Score: 87
Period size: 9 Copynumber: 8.2 Consensus size: 9
8147129 GTAGGGATTC
8147139 AATTCGGTT
1 AATTCGGTT
8147148 AATTCAGG-T
1 AATTC-GGTT
*
8147157 AATTCGGGT
1 AATTCGGTT
8147166 AATTCGGTT
1 AATTCGGTT
*
8147175 AATTCGGGT
1 AATTCGGTT
*
8147184 AATTCGATT
1 AATTCGGTT
*
8147193 AATGCGGTT
1 AATTCGGTT
*
8147202 AATTCAGTT
1 AATTCGGTT
8147211 AA
1 AA
8147213 CCGACCGAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8154499 original size:17 final size:17
Alignment explanation
Indices: 8154477--8154509 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8154467 ATTTTATAAA
8154477 ATAATATTTTAATTAAG
1 ATAATATTTTAATTAAG
*
8154494 ATAATATTTTATTTAA
1 ATAATATTTTAATTAA
8154510 TAAATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATAATATTTTAATTAAG
Found at i:8156888 original size:47 final size:47
Alignment explanation
Indices: 8156851--8157002 Score: 252
Period size: 47 Copynumber: 3.3 Consensus size: 47
8156841 ATAAAACAGT
*
8156851 TTGGGCAGCATTTAAGCATCAAAATTGGACACCATATATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAA
*
8156898 TTGGGCAGCATTTAGGCATCAAAATTGGACAACATATATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAA
* *
8156945 TTGGGCAACATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAA
1 TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAA
*
8156991 TTGGACAGCATT
1 TTGGGCAGCATT
8157003 ATGTAACAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 21 0.21
47 77 0.79
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (47 bp):
TTGGGCAGCATTTAAGCATCAAAATTGGACAACATATATGTAACAAA
Found at i:8157038 original size:46 final size:47
Alignment explanation
Indices: 8156966--8157249 Score: 443
Period size: 46 Copynumber: 6.1 Consensus size: 47
8156956 TTAAGCATCA
* * *
8156966 AAATTGGACAGCA-TTATGTAAC-AAATTGGACAGCAT-TATGTAAC
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
* *
8157010 AAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAAT
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
*
8157057 AAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAAC
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
* *
8157103 AAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAAT
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
*
8157150 AAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAAC
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
*
8157196 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAT
1 AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
8157243 AAATTGG
1 AAATTGG
8157250 TTTCAACTCA
Statistics
Matches: 219, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
44 11 0.05
45 7 0.03
46 101 0.46
47 100 0.46
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (47 bp):
AAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAAC
Found at i:8157085 original size:93 final size:93
Alignment explanation
Indices: 8156988--8157249 Score: 515
Period size: 93 Copynumber: 2.8 Consensus size: 93
8156978 ATTATGTAAC
8156988 AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
8157053 TAATAAATTGGGCAGCATTTAAGCATCA
66 TAATAAATTGGGCAGCATTTAAGCATCA
8157081 AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
8157146 TAATAAATTGGGCAGCATTTAAGCATCA
66 TAATAAATTGGGCAGCATTTAAGCATCA
*
8157174 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATG
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
8157239 TAATAAATTGG
66 TAATAAATTGG
8157250 TTTCAACTCA
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 168 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (93 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATATG
TAATAAATTGGGCAGCATTTAAGCATCA
Found at i:8157089 original size:115 final size:116
Alignment explanation
Indices: 8156872--8157114 Score: 416
Period size: 115 Copynumber: 2.1 Consensus size: 116
8156862 TTAAGCATCA
*
8156872 AAATTGGACACCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATATAT
1 AAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATATAT
8156937 GTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAGCATTATGTAAC
66 GTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAGCATTATGTAAC
* * *
8156988 AAATTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATGCATCAAAATTGGACAGCATATAT
1 AAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATATAT
* *
8157052 GTAATAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAAC
66 GTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAGCATTATGTAAC
*
8157103 AAATTGGGCAGC
1 AAATTGGACAGC
8157115 TTTTATGCAT
Statistics
Matches: 120, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 107 0.89
116 13 0.11
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (116 bp):
AAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAACATATAT
GTAACAAATTGGGCAACATTTAAGCATCAAAATTGGACAGCATTATGTAAC
Found at i:8163693 original size:46 final size:40
Alignment explanation
Indices: 8163595--8164058 Score: 439
Period size: 37 Copynumber: 11.4 Consensus size: 40
8163585 NNNNNNNNNC
8163595 TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGT-G-TA-G--ACCACTTATCACT
*
8163639 TTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGT-G-T--AG--ACCACTTATCACT
*
8163685 TTATCACTTGATCAGATAA--GTGTAG-CCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
*
8163722 TTGTCTCTTGATCAGATAA--GTGTA-ACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
**
8163759 TTGTTTCTTGATCAGATAA--GTGTAG-CCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
*
8163796 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGT-G-T--AG--ACCACTTATCACT
*
8163842 TTGTCTCTTGATCAGATAAGT-T-TAG--CACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
8163878 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGT-G-T--AG--ACCACTTATCACT
*
8163924 TTGTCTCTTGATCAGATAAGT-T-TAG--CACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
8163960 TTGTCACTTGATCAGATAA--GTGTA-ACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
*
8163997 TTGTCACTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACT
1 TTGTCACTTGATCAGATAAGTGT-G-T---A-GACCACTTATCACT
8164043 TTGTCACTTGATCAGA
1 TTGTCACTTGATCAGA
8164059 AGTACTCAAA
Statistics
Matches: 373, Mismatches: 10, Indels: 72
0.82 0.02 0.16
Matches are distributed among these distances:
35 1 0.00
36 62 0.17
37 130 0.35
39 4 0.01
40 9 0.02
41 2 0.01
42 5 0.01
43 3 0.01
44 7 0.02
45 23 0.06
46 126 0.34
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (40 bp):
TTGTCACTTGATCAGATAAGTGTGTAGACCACTTATCACT
Found at i:8163769 original size:74 final size:79
Alignment explanation
Indices: 8163627--8164022 Score: 519
Period size: 82 Copynumber: 5.0 Consensus size: 79
8163617 AGCTAGGCTA
* * *
8163627 CCACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCT-AA-C-ACCACTTATCACTTTGTCTC
8163692 TTGATCAGATAAGTGTAG
62 TTGATCAGATAAGTGTAG
* *
8163710 CCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-A-ACCACTTATCACTTTGTTTCTTGA
1 CCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAACACCACTTATCACTTTGTCTCTTGA
8163770 TCAGATAAGTGTAG
66 TCAGATAAGTGTAG
*
8163784 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCT-AA-C-ACCACTTATCACTTTGTCTC
*
8163849 TTGATCAGATAAGTTTAG
62 TTGATCAGATAAGTGTAG
8163867 -CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGATAAG-GTAGCT-AA-C-ACCACTTATCACTTTGTCTC
*
8163931 TTGATCAGATAAGTTTAG
62 TTGATCAGATAAGTGTAG
*
8163949 -CACTTATCACTTTGTCACTTGATCAGATAA-GT-G-T-A-ACCACTTATCACTTTGTCACTTGA
1 CCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAACACCACTTATCACTTTGTCTCTTGA
8164008 TCAGATAAGTGTAG
66 TCAGATAAGTGTAG
8164022 C
1 C
8164023 TAAAACTACC
Statistics
Matches: 293, Mismatches: 10, Indels: 29
0.88 0.03 0.09
Matches are distributed among these distances:
73 36 0.12
74 66 0.23
76 3 0.01
77 2 0.01
78 2 0.01
79 2 0.01
80 4 0.01
81 2 0.01
82 111 0.38
83 65 0.22
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (79 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGGTAGCTAACACCACTTATCACTTTGTCTCTTGA
TCAGATAAGTGTAG
Found at i:8163871 original size:36 final size:36
Alignment explanation
Indices: 8163831--8164022 Score: 240
Period size: 36 Copynumber: 5.0 Consensus size: 36
8163821 CTAAAGCTAC
*
8163831 CACTTATCACTTTGTCTCTTGATCAGATAAGTTTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTTTAG
8163867 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGT-T---T--AG
*
8163909 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTTTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTTTAG
* *
8163949 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGT-TTAG
*
8163986 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTTTAG
8164022 C
1 C
8164023 TAAAACTACC
Statistics
Matches: 137, Mismatches: 8, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
36 64 0.47
37 35 0.26
40 3 0.02
42 3 0.02
45 1 0.01
46 31 0.23
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTTTAG
Found at i:8166506 original size:21 final size:21
Alignment explanation
Indices: 8166465--8166507 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8166455 CAAAAGCCTG
* *
8166465 AAAGCTAAACAGAAGCTCATA
1 AAAGCTAAACAGAAACCCATA
*
8166486 AAAGCTAAATAGAAACCCATA
1 AAAGCTAAACAGAAACCCATA
8166507 A
1 A
8166508 GGGTTGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAGCTAAACAGAAACCCATA
Found at i:8166520 original size:21 final size:21
Alignment explanation
Indices: 8166472--8166626 Score: 112
Period size: 21 Copynumber: 7.4 Consensus size: 21
8166462 CTGAAAGCTA
* * * *
8166472 AACAGAAGCTCATAAAAGCTA
1 AACAGAAACTCATAAGAGTTG
* * *
8166493 AATAGAAACCCATAAGGGTTG
1 AACAGAAACTCATAAGAGTTG
* **
8166514 AACAGAAGCTTGTAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
*
8166535 AACAGAAACTCAAAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* * *
8166556 AAAAGAAGCTCGTAAGAGTTG
1 AACAGAAACTCATAAGAGTTG
* * *
8166577 AACAGAAACTCGTATGAGTTA
1 AACAGAAACTCATAAGAGTTG
* * * * *
8166598 AAAAGAAGCTCGTAAGAGCTA
1 AACAGAAACTCATAAGAGTTG
8166619 AACAGAAA
1 AACAGAAA
8166627 GTAAAACACG
Statistics
Matches: 103, Mismatches: 31, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 103 1.00
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (21 bp):
AACAGAAACTCATAAGAGTTG
Found at i:8166542 original size:42 final size:42
Alignment explanation
Indices: 8166496--8166626 Score: 172
Period size: 42 Copynumber: 3.1 Consensus size: 42
8166486 AAAGCTAAAT
* * * *
8166496 AGAAACCCATAAGGGTTGAACAGAAGCTTGTAAGAGTTGAAC
1 AGAAACTCATAAGAGTTGAAAAGAAGCTCGTAAGAGTTGAAC
*
8166538 AGAAACTCAAAAGAGTTGAAAAGAAGCTCGTAAGAGTTGAAC
1 AGAAACTCATAAGAGTTGAAAAGAAGCTCGTAAGAGTTGAAC
* * * * *
8166580 AGAAACTCGTATGAGTTAAAAAGAAGCTCGTAAGAGCTAAAC
1 AGAAACTCATAAGAGTTGAAAAGAAGCTCGTAAGAGTTGAAC
8166622 AGAAA
1 AGAAA
8166627 GTAAAACACG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 78 1.00
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.18
Consensus pattern (42 bp):
AGAAACTCATAAGAGTTGAAAAGAAGCTCGTAAGAGTTGAAC
Found at i:8168183 original size:25 final size:25
Alignment explanation
Indices: 8168101--8168183 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
8168091 CCTTCTCTCA
* **
8168101 AGCCATATAA-TGGAAAGCTCATGTG
1 AGCCATATAACAGG-AAGCTCATAAG
* * **
8168126 AGCCATATAACGGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATAAG
* *
8168151 GGCTATATAACAGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATAAG
8168176 AGCCATAT
1 AGCCATAT
8168184 TTGGGAAGCT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
25 43 0.96
26 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATAAG
Found at i:8168254 original size:72 final size:73
Alignment explanation
Indices: 8168178--8168315 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 73
8168168 CTCATAAGAG
* * * *
8168178 CCATAT-TTGGGAAGCTCATGCGAGTCAAAAACGGGTAGCTCCGAAGAGCCATTAA-CGGGAAGC
1 CCATATATCGGGAAGCTCAAGCGAG-CAAAAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAGC
8168241 TCCAGATAT
65 TCCAGATAT
* * * * *
8168250 CCATATATCGGGAAGTTCAAGCGAGCCATATCGGGAAGCTCCGGAGAGCCATTAATCAGGAAGCT
1 CCATATATCGGGAAGCTCAAGCGAGCAAAAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAGCT
8168315 C
66 C
8168316 ACAAAGAGCC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
72 31 0.56
73 24 0.44
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (73 bp):
CCATATATCGGGAAGCTCAAGCGAGCAAAAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAGCT
CCAGATAT
Found at i:8168314 original size:25 final size:25
Alignment explanation
Indices: 8168209--8168341 Score: 105
Period size: 25 Copynumber: 5.4 Consensus size: 25
8168199 GAGTCAAAAA
*
8168209 CGGGTAGCTCC-GAAGAGCCATTAA-
1 CGGGAAGCTCCAG-AGAGCCATTAAT
* *
8168233 CGGGAAGCTCCAGATATCCA-TATAT
1 CGGGAAGCTCCAGAGAGCCATTA-AT
* * *
8168258 CGGGAAGTTCAAGCGAGCCA-T-AT
1 CGGGAAGCTCCAGAGAGCCATTAAT
*
8168281 CGGGAAGCTCCGGAGAGCCATTAAT
1 CGGGAAGCTCCAGAGAGCCATTAAT
* * *
8168306 CAGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTC-CAGAGAGCCATTAAT
*
8168332 CGTGAAGCTC
1 CGGGAAGCTC
8168342 ACAAAGAGTC
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
23 20 0.24
24 17 0.20
25 28 0.33
26 20 0.24
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCCAGAGAGCCATTAAT
Found at i:8168330 original size:26 final size:26
Alignment explanation
Indices: 8168294--8168349 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
8168284 GAAGCTCCGG
8168294 AGAGCCATTAATCAG-GAAGCTCACAA
1 AGAGCCATTAATC-GTGAAGCTCACAA
*
8168320 AGAGCCTTTAATCGTGAAGCTCACAA
1 AGAGCCATTAATCGTGAAGCTCACAA
8168346 AGAG
1 AGAG
8168350 TCATATAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGTGAAGCTCACAA
Found at i:8174940 original size:23 final size:23
Alignment explanation
Indices: 8174914--8174970 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
8174904 AATAATATAT
*
8174914 ATATAAATATGAGAAAAAAATAA
1 ATATAAATATAAGAAAAAAATAA
** * *
8174937 ATATGTATATAAGAAAACAATGA
1 ATATAAATATAAGAAAAAAATAA
*
8174960 ATATACATATA
1 ATATAAATATA
8174971 TATATAAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (23 bp):
ATATAAATATAAGAAAAAAATAA
Found at i:8176593 original size:44 final size:43
Alignment explanation
Indices: 8176532--8176661 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 43
8176522 ACCCGATGCG
* * *
8176532 ATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGAT-TTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT-TAT-ATCTTTA
* *
8176576 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATATGCTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATAT-CTTTA
*
8176620 ATCTGCTCCACTACAACTTCA-AGGAGATAAGATTTATATCTT
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGA-TTATATCTT
8176662 CGATCTACTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 64 0.86
45 6 0.08
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATTATATCTTTA
Found at i:8176815 original size:88 final size:88
Alignment explanation
Indices: 8176658--8177795 Score: 634
Period size: 88 Copynumber: 13.2 Consensus size: 88
8176648 AAGATTTATA
* * * * * * * *
8176658 TCTTCGATCTACTTCATGCCAATACATGAAGACAATATATGTCATCTTTGATCTACTTCACGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
*
8176723 ATACATGAAGACAAGATCTGCTA
66 ATACATGAAGACAAGATCTGCTT
* * * * * *
8176746 CCTTTGATCTACTTCATGCCGATACATGAAGACAAGATCTTTTACCCTTGATCTACTTCATGCTG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
* * *
8176811 ATACATGAAGATAAGATCAGTTT
66 ATACATGAAGACAAGATCTGCTT
*
8176834 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTACCTTTGATCTACTTCATGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
8176899 ATACATGAAGACAAGAT-T-CATTT
66 ATACATGAAGACAAGATCTGC--TT
* *
8176922 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATATTCTACCTTTGATCTACTTCATGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
* * *
8176987 ATACATGAAGACAATATATGTTT
66 ATACATGAAGACAAGATCTGCTT
* * * *
8177010 TCTTCTATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTACCTTTGATCTACTTCACGCCG
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
*
8177075 ATACATAAAGACAAGATCTGCTT
66 ATACATGAAGACAAGATCTGCTT
* * *** *** * ** * * *
8177098 TCTTCGATCTACTTTGC-CACCAGTATGGGAAGACAAGATCTGCAATCTTCAATCCACTTCGTAA
1 TCTTCGATCTAC-TT-CACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCAT-G
* * * * * *
8177162 CCAATATAGGAAGACAGGATTTACTT
63 CCGATACATGAAGACAAGATCTGCTT
* * *
8177188 TCTTCGATATACTTCAAGCCAATACATGAAGACAAGAT-TTGCTT-TCTTTGATCTACTT--TGC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTT--TTACCTTTGATCTACTTCATGC
* *
8177249 C-ACCAATATGGGAAGACAAGA-------
64 CGA--TACAT--GAAGACAAGATCTGCTT
* * * * * ** * * * * *
8177270 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCCACTTCGCTAC
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTC-ATGC
* * * * *
8177334 CAATCCAGGAAGACAGGATTTGCTT
64 CGATACATGAAGACAAGATCTGCTT
* * ***
8177359 TCTTCGATCTACTTCACGCCAATATATGAAGACAAGATCTACTTTA--TTTGATCTAATTCGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT--TTTACCTTTGATCTACTTC-ATG
* ***
8177422 CCAATATGGGAAGACAAGA-------
63 CCGATACATGAAGACAAGATCTGCTT
* * * * * ** * * * *
8177441 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCA
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCC
*
8177505 AATACATGAAGACAAGATCTGCTT
65 GATACATGAAGACAAGATCTGCTT
* * * *** * * * *
8177529 TCCTCGATCTACTTCGCCACCAATATGGGAAGACAAAATC--TT--C---GATCCACTTCCTACC
1 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCC
* * * * *
8177587 AATATAGGAAGACAGGATCTGCTA
65 GATACATGAAGACAAGATCTGCTT
* * ***
8177611 TCTTCGATCTACTTCACACCAATACATGAAGACAAGATCTGCTTT-CC-TCGATCTACTTCGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCT--TTTACCTTTGATCTACTTC-ATG
* ***
8177674 CCAATATGGGAAGACAAGA-------
63 CCGATACATGAAGACAAGATCTGCTT
* * * * * ** * * *
8177693 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTAGATCTACTTCACGCC
1 TCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCC
*
8177757 AATACATGAAGACAAGATCTGCTT
65 GATACATGAAGACAAGATCTGCTT
8177781 TCTTCGATCTACTTC
1 TCTTCGATCTACTTC
8177796 GCCACCAGTA
Statistics
Matches: 828, Mismatches: 161, Indels: 122
0.75 0.14 0.11
Matches are distributed among these distances:
80 3 0.00
81 56 0.07
82 185 0.22
83 1 0.00
84 1 0.00
85 7 0.01
86 4 0.00
87 5 0.01
88 357 0.43
89 174 0.21
90 33 0.04
91 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTTTTACCTTTGATCTACTTCATGCCG
ATACATGAAGACAAGATCTGCTT
Found at i:8177213 original size:134 final size:126
Alignment explanation
Indices: 8177063--8177398 Score: 372
Period size: 134 Copynumber: 2.6 Consensus size: 126
8177053 ACCTTTGATC
* * * * *
8177063 TACTTCACGCCGATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAGTATGGGA
1 TACTTCAAGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTTGCCACCAATATGGGA
* * *
8177128 AGACAAGATCTGCAATCTTCAATCCACTTCGTAACCAATATAGGAAGACAGGATTTACTTTCTTC
66 AGAC-A-A---G--ATCTTCAATCCACTTCCT-ACCAATATAGGAAGACAGGATCTACTATCTTC
8177193 GATA
123 GATA
*
8177197 TACTTCAAGCCAATACATGAAGACAAGATTTGCTTTCTTTGATCTACTTTGCCACCAATATGGGA
1 TACTTCAAGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTTGCCACCAATATGGGA
* * *
8177262 AGACAAGATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATC
66 AGACAAGATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTACTATCTTCGATA
* * * * * * *
8177323 CACTTCGCTA-CCAATCCAGGAAGACAGGATTTGCTTTCTTCGATCTAC-TT-CACGCCAATATA
1 TACTT--CAAGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTTGC-CACCAATATG
*
8177385 TGAAGACAAGATCT
63 GGAAGACAAGATCT
8177399 ACTTTATTTG
Statistics
Matches: 178, Mismatches: 21, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
125 1 0.01
126 59 0.33
127 50 0.28
128 2 0.01
129 1 0.01
132 1 0.01
133 1 0.01
134 63 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (126 bp):
TACTTCAAGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTTGCCACCAATATGGGA
AGACAAGATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTACTATCTTCGATA
Found at i:8177227 original size:44 final size:43
Alignment explanation
Indices: 8176648--8177795 Score: 561
Period size: 44 Copynumber: 26.6 Consensus size: 43
8176638 TCAAGGAGAT
* * *
8176648 AAGATTTATATCTTCGATCTACTTCATGCCAATACATGAAGAC
1 AAGATTTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * *
8176691 AATATATGTC-ATCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGAT-T-TCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* ** * * *
8176735 AAGATCTGCTACCTTTGATCTACTTCATGCCGATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * ** *
8176779 AAGATCTT-TTACCCTT-GATCTACTTCATGCTGATACATGAAGAT
1 AAGAT-TTCTT--TCTTCGATCTACTTCACGCCAATACATGAAGAC
*
8176823 AAGATCAGT-TTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGAT--TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
** * * *
8176867 AAGATCTTCTACCTTTGATCTACTTCATGCCGATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
8176911 AAGA-TTCATTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATTTC--TTTCTTCGATCTACTTCACGCCAATACATGAAGAC
** * * *
8176955 AAGATATTCTACCTTTGATCTACTTCATGCCGATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * *
8176999 AATATATGT-TTTCTTCTATCTACTTCACGCCAGTACATGAAGAC
1 AAGAT-T-TCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * * *
8177043 AAGATCTGTTACCTTTGATCTACTTCACGCCGATACATAAAGAC
1 AAGATTTCTT-TCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * ***
8177087 AAGATCTGCTTTCTTCGATCTACTTTGC-CACCAGTATGGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTAC-TT-CACGCCAATACATGAAGAC
* ** * * * * *
8177132 AAGATCTGCAATCTTCAATCCACTTCGTA-ACCAATATAGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTC--ACGCCAATACATGAAGAC
* * *
8177177 AGGATTTACTTTCTTCGATATACTTCAAGCCAATACATGAAGAC
1 AAGATTT-CTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * ***
8177221 AAGATTTGCTTTCTTTGATCTACTTTGC-CACCAATATGGGAAGAC
1 AAGATTT-CTTTCTTCGATCTAC-TT-CACGCCAATACATGAAGAC
* * * *
8177266 AAGA------TCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATTTCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* * * * * * * *
8177303 AGGATCTGCTATCTTCGATCCACTTCGCTACCAATCCAGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* *
8177348 AGGATTTGCTTTCTTCGATCTACTTCACGCCAATATATGAAGAC
1 AAGATTT-CTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * * * ***
8177392 AAGATCTACTTTATTTGATCTAATTCGCCACCAATATGGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGAC
* * * *
8177437 AAGA------TCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATTTCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* * * *
8177474 AGGATCTGCTATCTTCGATCTACTTCACGCAAATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * ***
8177518 AAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGAC
* * * * *
8177563 AA-A-----ATCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATTTCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* * * *
8177600 AGGATCTGCTATCTTCGATCTACTTCACACCAATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * ***
8177644 AAGATCTGCTTTCCTCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTC-ACGCCAATACATGAAGAC
* * * *
8177689 AAGA------TCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATTTCTTTCTTCGATCTACTTCAC-GCCAATACATGAAGAC
* * * *
8177726 AGGATCTGCTATCTTAGATCTACTTCACGCCAATACATGAAGAC
1 AAGAT-TTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
*
8177770 AAGATCTGCTTTCTTCGATCTACTTC
1 AAGAT-TTCTTTCTTCGATCTACTTC
8177796 GCCACCAGTA
Statistics
Matches: 878, Mismatches: 161, Indels: 131
0.75 0.14 0.11
Matches are distributed among these distances:
36 5 0.01
37 72 0.08
38 48 0.05
42 4 0.00
43 14 0.02
44 547 0.62
45 183 0.21
46 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
AAGATTTCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
Done.