Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 175 of 325
Found at i:56830722 original size:31 final size:31
Alignment explanation
Indices: 56830684--56830747 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
56830674 CCTTTTCATA
* *
56830684 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
**
56830715 TTTCATATTTCATATTACTAGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
56830746 TT
1 TT
56830748 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:56831095 original size:23 final size:23
Alignment explanation
Indices: 56830962--56831132 Score: 216
Period size: 25 Copynumber: 7.1 Consensus size: 23
56830952 TCTAGCCTCT
* *
56830962 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56830985 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
** *
56831009 GTTATCGTAACTAGGGCATAAGCCC
1 -TT-TAATAACTGGGGCATAAGCCC
*
56831034 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
56831059 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
56831084 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56831107 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56831130 TTT
1 TTT
56831133 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
23 46 0.35
24 24 0.18
25 63 0.47
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:56831207 original size:20 final size:20
Alignment explanation
Indices: 56831179--56831249 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
56831169 GCATTTATGA
*
56831179 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56831199 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
56831219 ACATGTCATGTACATATCAT
1 ACATATCATGTGCATATCAT
56831239 ACATATCATGT
1 ACATATCATGT
56831250 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:56831232 original size:11 final size:11
Alignment explanation
Indices: 56831179--56831249 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 11
56831169 GCATTTATGA
*
56831179 ACATCTCATGT
1 ACATATCATGT
*
56831190 GCATATCA--T
1 ACATATCATGT
56831199 ACATATCATGT
1 ACATATCATGT
*
56831210 GCATATCA--T
1 ACATATCATGT
*
56831219 ACATGTCATGT
1 ACATATCATGT
56831230 ACATATCA--T
1 ACATATCATGT
56831239 ACATATCATGT
1 ACATATCATGT
56831250 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 24 0.51
11 23 0.49
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (11 bp):
ACATATCATGT
Found at i:56832544 original size:27 final size:27
Alignment explanation
Indices: 56832467--56832546 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
56832457 TCATACGGAA
56832467 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCATTTTAC
* *
56832492 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCATTTTAC
* *
56832519 CCTACAAGGGCT-TTACGGTCTTTTTAC
1 CATAC-AGGGCTATTACGGTCATTTTAC
56832546 C
1 C
56832547 TAATAGGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 8 0.18
26 5 0.11
27 27 0.60
28 5 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCATTTTAC
Found at i:56832827 original size:27 final size:27
Alignment explanation
Indices: 56832553--56833037 Score: 214
Period size: 27 Copynumber: 17.9 Consensus size: 27
56832543 TACCTAATAG
* * *
56832553 GGGTATTTTAGTCATTTCATACTAT-AA
1 GGGTATTTTAGTAATTTTATA-AATCAA
* * * * *
56832580 GGGTGTTTTGGTAAATCTACAAA-CTAA
1 GGGTATTTTAGTAATTTTATAAATC-AA
* *
56832607 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* *
56832634 TGGTATTTCTA-TAATTTTTAGAAAGTCAA
1 GGGTATTT-TAGTAA-TTTTATAAA-TCAA
* * * *
56832663 GGGTATTTTTGTAACTTTGTAAATCAG
1 GGGTATTTTAGTAATTTTATAAATCAA
* * **
56832690 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTAGTAATTTTATAAATCAA
** * * *
56832717 GGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
* *
56832744 GGGTATTTT-GATAATTTTACAAA-CTAG
1 GGGTATTTTAG-TAATTTTATAAATC-AA
* *
56832771 GGGTATTTTGGTAATTTTACAAA-CTAA
1 GGGTATTTTAGTAATTTTATAAATC-AA
* *
56832798 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
**** * *
56832825 GGGTAAAACAGTAATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** *
56832852 GGGTAAAATAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** * *
56832879 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
*** * * *
56832906 GGGTAAAACT-GTAATTCTGTAAATCGA
1 GGGT-ATTTTAGTAATTTTATAAATCAA
* * * *
56832933 GGGTACTTTGGTAATTTTACAAGTCGAA
1 GGGTATTTTAGTAATTTTATAAATC-AA
* * *
56832961 -GGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCAA
* * * *
56832987 GAGTATTTCAGTATTTTTACAAA-CTAA
1 GGGTATTTTAGTAATTTTATAAATC-AA
**
56833014 GGGTATTTCGGTAATTTTAGTAAA
1 GGGTATTTTAGTAATTTTA-TAAA
56833038 CTAAAGTATT
Statistics
Matches: 366, Mismatches: 75, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
26 7 0.02
27 319 0.87
28 27 0.07
29 13 0.04
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAATCAA
Found at i:56836804 original size:11 final size:10
Alignment explanation
Indices: 56836774--56836808 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
56836764 TGATGAATTA
56836774 TAAATTATGT
1 TAAATTATGT
56836784 T-AATTATGT
1 TAAATTATGT
56836793 TAAATGTATGT
1 TAAAT-TATGT
56836804 TAAAT
1 TAAAT
56836809 ATTTGTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
10 4 0.17
11 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (10 bp):
TAAATTATGT
Found at i:56838414 original size:28 final size:28
Alignment explanation
Indices: 56838382--56838450 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
56838372 TAGTAAGTCT
56838382 GCACACTTAGTGCT-TA-ATAGTCAAACTC
1 GCACACTTAGTGCTATACA-A-TCAAACTC
* *
56838410 GCACACTTAGTGCTATACAATTAAACTT
1 GCACACTTAGTGCTATACAATCAAACTC
56838438 GCACACTTAGTGC
1 GCACACTTAGTGC
56838451 CAATCTCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 33 0.89
29 3 0.08
30 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (28 bp):
GCACACTTAGTGCTATACAATCAAACTC
Found at i:56843218 original size:39 final size:40
Alignment explanation
Indices: 56843173--56843396 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
56843163 GCTCCTCGTT
* * * *
56843173 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56843213 C-AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56843251 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56843291 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
56843331 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56843372 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56843397 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 24 0.15
39 22 0.14
40 95 0.61
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56843405 original size:41 final size:41
Alignment explanation
Indices: 56843328--56843405 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56843318 CTTGTATCTC
* * *
56843328 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56843369 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56843406 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56851155 original size:39 final size:40
Alignment explanation
Indices: 56851110--56851334 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
56851100 GCTCCTCGTT
* * * *
56851110 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
56851150 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
56851189 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56851229 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
56851269 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
56851310 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56851335 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 105 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56851343 original size:41 final size:41
Alignment explanation
Indices: 56851266--56851343 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56851256 CTTGTATCTC
* * *
56851266 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56851307 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56851344 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56856774 original size:22 final size:22
Alignment explanation
Indices: 56856746--56856794 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
56856736 ATACTCATAT
*
56856746 TAAAATAGATTCTTTTCAAGCC
1 TAAAATAGATTCTTTTCAACCC
*
56856768 TAAAATAGATTCTTTTCATCCC
1 TAAAATAGATTCTTTTCAACCC
56856790 TAAAA
1 TAAAA
56856795 AAAATCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (22 bp):
TAAAATAGATTCTTTTCAACCC
Found at i:56856804 original size:23 final size:22
Alignment explanation
Indices: 56856754--56856805 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
56856744 ATTAAAATAG
* * *
56856754 ATTCTTTTCAAGCCTAAAATAG
1 ATTCTTTTCAACCCTAAAAAAA
*
56856776 ATTCTTTTCATCCCTAAAAAAA
1 ATTCTTTTCAACCCTAAAAAAA
56856798 ATCTCTTT
1 AT-TCTTT
56856806 GGTGCTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTCTTTTCAACCCTAAAAAAA
Found at i:56863573 original size:43 final size:43
Alignment explanation
Indices: 56863510--56863605 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
56863500 ACTGACTTGG
*
56863510 TCACACGGCCGACAACATGCCCATGTGCCAGCCCGTGTGCCAC
1 TCACACGGCCGACAACATGCCCATATGCCAGCCCGTGTGCCAC
*
56863553 TTACACGGCCGACAACATGCCCATATGCCAGCCCGTGTGCCAC
1 TCACACGGCCGACAACATGCCCATATGCCAGCCCGTGTGCCAC
56863596 TCACACGGCC
1 TCACACGGCC
56863606 AGTAGACACA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.15
Consensus pattern (43 bp):
TCACACGGCCGACAACATGCCCATATGCCAGCCCGTGTGCCAC
Found at i:56864432 original size:17 final size:17
Alignment explanation
Indices: 56864412--56864462 Score: 65
Period size: 15 Copynumber: 3.2 Consensus size: 17
56864402 CTCATTTGAT
56864412 CATAATAATAATTCATA
1 CATAATAATAATTCATA
*
56864429 CAT-AT-ATCATTC-T-
1 CATAATAATAATTCATA
56864442 CATAATAATAATTCATA
1 CATAATAATAATTCATA
56864459 CATA
1 CATA
56864463 TATCATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.11
14 3 0.11
15 12 0.43
16 3 0.11
17 7 0.25
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (17 bp):
CATAATAATAATTCATA
Found at i:56864445 original size:13 final size:15
Alignment explanation
Indices: 56864422--56864468 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
56864412 CATAATAATA
56864422 ATTCATACATATATC
1 ATTCATACATATATC
*
56864437 ATTC-T-CATAATAATA
1 ATTCATACAT-AT-ATC
56864452 ATTCATACATATATC
1 ATTCATACATATATC
56864467 AT
1 AT
56864469 ATGTGCACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 14 0.54
16 3 0.12
17 3 0.12
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCATACATATATC
Found at i:56864445 original size:30 final size:30
Alignment explanation
Indices: 56864411--56864468 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
56864401 GCTCATTTGA
56864411 TCATAATAATAATTCATACATATATCATTC
1 TCATAATAATAATTCATACATATATCATTC
56864441 TCATAATAATAATTCATACATATATCAT
1 TCATAATAATAATTCATACATATATCAT
56864469 ATGTGCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (30 bp):
TCATAATAATAATTCATACATATATCATTC
Found at i:56865984 original size:53 final size:54
Alignment explanation
Indices: 56865904--56866110 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
56865894 TTCCTTTTTA
* * *
56865904 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * * * *
56865957 AACTCACCATTGCTATGCCTTGGCATGGTCTCACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * *
56866011 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCGTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
56866066 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56866111 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 38 0.32
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56867459 original size:42 final size:42
Alignment explanation
Indices: 56867350--56867462 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
56867340 AGATCGTACA
** * *
56867350 ATGCCAATGTCCCAGATGTGGTTTTACATGTAACCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGAAACCAAATATCG
* *
56867393 ATGCCACTGTCCCAAACA-GAGTCTTACATGAAATCAAATAT-G
1 ATGCCA-TGTCCCAGACATG-GTCTTACATGAAACCAAATATCG
*
56867435 ATGCCGATGTCCCAGGCATGGTCTTACA
1 ATGCC-ATGTCCCAGACATGGTCTTACA
56867463 CATAAATCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAACCAAATATCG
Found at i:56876903 original size:48 final size:49
Alignment explanation
Indices: 56876842--56876980 Score: 201
Period size: 48 Copynumber: 2.9 Consensus size: 49
56876832 ATGATGTCGC
* * *
56876842 ATATCGATGCCAATGCCATATCCCAGATAAGGTCTTACATAGG-ATCAA
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGAATCAA
* * * *
56876890 ATATCGATTCCAATGCGATGTCCCGGACATGGTCTTACAT-GGAATCAC
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGAATCAA
56876938 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGG
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGG
56876981 TCACACATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.03
48 75 0.95
49 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (49 bp):
ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGAATCAA
Found at i:56878542 original size:47 final size:46
Alignment explanation
Indices: 56878425--56878597 Score: 178
Period size: 45 Copynumber: 3.8 Consensus size: 46
56878415 GGATGGTTGA
*
56878425 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
56878472 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* * * *
56878515 AGGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
56878565 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
56878598 TAGGGGCGGG
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 28 0.26
47 29 0.27
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:56885999 original size:46 final size:46
Alignment explanation
Indices: 56885949--56886075 Score: 200
Period size: 47 Copynumber: 2.7 Consensus size: 46
56885939 TGGTTGAGCA
*
56885949 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56885995 TCCGAACTCGTTGAGTTGAGTCCGAAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCG-AGTTCACTTATGGATGCAAACG
* *
56886042 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56886076 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
46 33 0.45
47 41 0.55
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56888598 original size:17 final size:17
Alignment explanation
Indices: 56888576--56888612 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
56888566 CAATGATATA
56888576 AAATAAATAACG-AAAAT
1 AAATAAAT-ACGAAAAAT
56888593 AAATAAATACGAAAAAT
1 AAATAAATACGAAAAAT
56888610 AAA
1 AAA
56888613 AAAAGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAAATACGAAAAAT
Found at i:56891440 original size:32 final size:32
Alignment explanation
Indices: 56891401--56891464 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
56891391 GAAAAATATC
*
56891401 TCAATTTGATTTTATTCTAATCAAATTGATTT
1 TCAATTTGATTTGATTCTAATCAAATTGATTT
* *
56891433 TCAATTTGATTTGATTTTATTCAAATTGATTT
1 TCAATTTGATTTGATTCTAATCAAATTGATTT
56891465 AAAAGCTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (32 bp):
TCAATTTGATTTGATTCTAATCAAATTGATTT
Found at i:56891986 original size:48 final size:49
Alignment explanation
Indices: 56891876--56891986 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 49
56891866 AATATGATGT
* * * *
56891876 TTTAAATAAATATAAATATTTATTTAATTTGTTTTGTTTAGATGTGGTGT
1 TTTAAATAAATATAAATATTTATTTAATTTGATTTGTTCAGATCTGGT-A
* *
56891926 TTTACATAAATATAAATATTT-TTT-ATATT-ATTTGTTCAGATCTTGTA
1 TTTAAATAAATATAAATATTTATTTAAT-TTGATTTGTTCAGATCTGGTA
56891973 TTTAATATAAATAT
1 TTTAA-ATAAATAT
56891987 TTATAATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
47 4 0.08
48 23 0.44
49 5 0.10
50 20 0.38
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (49 bp):
TTTAAATAAATATAAATATTTATTTAATTTGATTTGTTCAGATCTGGTA
Found at i:56892301 original size:82 final size:82
Alignment explanation
Indices: 56892215--56892543 Score: 380
Period size: 82 Copynumber: 4.1 Consensus size: 82
56892205 ACAGTTTCAA
* * * * *
56892215 GATTTATTCCCGCCATTTAACAGATTTTATTCAATGTTGATTTTATTTCCAAACGAGAGTTAATT
1 GATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATT
* * *
56892280 GAATAATTATATTTCAG
66 AAATAATTCTATTTCGG
* * * * ** *
56892297 GATTTATTCCAGCCGTTTAATAGATTTTATTCGATTTTAATTTTGTTTCCAAATGAGAATTAATT
1 GATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATT
56892362 AAATAATTCTATTTCGG
66 AAATAATTCTATTTCGG
* ** * * *
56892379 GATTTATTCCCACTGTTTAACA-A-ATT-TT--ATTTTGATTTTTTTTCCAAACAAGATTTAATC
1 GATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATT
* *
56892439 AAACAATTCTGTTTCGG
66 AAATAATTCTATTTCGG
* *
56892456 GATTTATTCCCGTCATTTAACAGATTTTATTTGATTTTGATTTTGTTTCCAAACAAGATTTAATT
1 GATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATT
* *
56892521 AAATAATTTTGTTTCGG
66 AAATAATTCTATTTCGG
56892538 GATTTA
1 GATTTA
56892544 ATTTTGTCGT
Statistics
Matches: 208, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
77 59 0.28
78 1 0.00
79 4 0.02
80 4 0.02
81 1 0.00
82 139 0.67
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (82 bp):
GATTTATTCCCGCCATTTAACAGATTTTATTCGATTTTGATTTTGTTTCCAAACAAGATTTAATT
AAATAATTCTATTTCGG
Found at i:56892475 original size:159 final size:159
Alignment explanation
Indices: 56892251--56892543 Score: 406
Period size: 159 Copynumber: 1.8 Consensus size: 159
56892241 TTATTCAATG
* ** * *
56892251 TTGATTTTATTTCCAAACGAGAGTTAATTGAATAATTATATTTCAGGATTTATTCCAGCCGTTTA
1 TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
* **
56892316 ATAGATTTTATTCGATTTTAATTTTGTTTCCAAATGAGAATTAATTAAATAATTCTATTTCGGGA
66 ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
56892381 TTTATTCCCACTGTTTAACAAATTTTATT
131 TTTATTCCCACTGTTTAACAAATTTTATT
* * * * * * *
56892410 TTGATTTTTTTTCCAAACAAGATTTAATCAAACAATTCTGTTTCGGGATTTATTCCCGTCATTTA
1 TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
* * * * *
56892475 ACAGATTTTATTTGATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGA
66 ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
56892540 TTTA
131 TTTA
56892544 ATTTTGTCGT
Statistics
Matches: 114, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
159 114 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (159 bp):
TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
TTTATTCCCACTGTTTAACAAATTTTATT
Found at i:56892560 original size:159 final size:159
Alignment explanation
Indices: 56892251--56892581 Score: 394
Period size: 159 Copynumber: 2.1 Consensus size: 159
56892241 TTATTCAATG
* ** * *
56892251 TTGATTTTATTTCCAAACGAGAGTTAATTGAATAATTATATTTCAGGATTTATTCCAGCCGTTTA
1 TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
* **
56892316 ATAGATTTTATTCGATTTTAATTTTGTTTCCAAATGAGAATTAATTAAATAATTCTATTTCGGGA
66 ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
* * *
56892381 TTTATTCCCACTGTTTAACAAATTTTATT
131 TTTATTCCCACTGTTCAACAAAATTGATT
* * * * * * *
56892410 TTGATTTTTTTTCCAAACAAGATTTAATCAAACAATTCTGTTTCGGGATTTATTCCCGTCATTTA
1 TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
* * * * *
56892475 ACAGATTTTATTTGATTTTGATTTTGTTTCCAAACAAGATTTAATTAAATAATTTTGTTTCGGGA
66 ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
****
56892540 TTTAATTTTGTC-GTTCAACAAAATTGATT
131 TTT-ATTCCCACTGTTCAACAAAATTGATT
*
56892569 TTGATTTTGTTTC
1 TTGATTTTATTTC
56892582 AGAATTTTAA
Statistics
Matches: 143, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
159 139 0.97
160 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (159 bp):
TTGATTTTATTTCCAAACAAGAGTTAATCAAACAATTATATTTCAGGATTTATTCCAGCCATTTA
ACAGATTTTATTCGATTTTAATTTTGTTTCCAAACAAGAATTAATTAAATAATTCTATTTCGGGA
TTTATTCCCACTGTTCAACAAAATTGATT
Found at i:56893422 original size:36 final size:36
Alignment explanation
Indices: 56893382--56893457 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
56893372 GTGGAAACTT
56893382 AATGCAATATCTATAAAATCAAAAAATATGAATAAG
1 AATGCAATATCTATAAAATCAAAAAATATGAATAAG
* *
56893418 AATGCAATCTCTATAAAATCAAAAACTATGAATAAG
1 AATGCAATATCTATAAAATCAAAAAATATGAATAAG
56893454 AATG
1 AATG
56893458 TTTTTTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (36 bp):
AATGCAATATCTATAAAATCAAAAAATATGAATAAG
Found at i:56895670 original size:27 final size:27
Alignment explanation
Indices: 56895616--56895726 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
56895606 AGCATGGCTG
* **
56895616 CCAGAACAGATAA-TGTGACAGATTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
56895642 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
56895669 CCAGAACAAAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
56895696 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
56895723 CCAG
1 CCAG
56895727 GATGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:56899638 original size:8 final size:8
Alignment explanation
Indices: 56899622--56899668 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
56899612 CAAAATATCA
56899622 GCTTTTCG
1 GCTTTTCG
*
56899630 GCATTTCG
1 GCTTTTCG
56899638 GCTTTTCG
1 GCTTTTCG
* *
56899646 ACATTTCG
1 GCTTTTCG
56899654 GCTTTTCG
1 GCTTTTCG
56899662 GCTTTTC
1 GCTTTTC
56899669 CCGATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.06, C:0.26, G:0.21, T:0.47
Consensus pattern (8 bp):
GCTTTTCG
Found at i:56899643 original size:16 final size:16
Alignment explanation
Indices: 56899622--56899668 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
56899612 CAAAATATCA
56899622 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
*
56899638 GCTTTTCGACATTTCG
1 GCTTTTCGGCATTTCG
*
56899654 GCTTTTCGGCTTTTC
1 GCTTTTCGGCATTTC
56899669 CCGATCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.06, C:0.26, G:0.21, T:0.47
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:56905506 original size:40 final size:40
Alignment explanation
Indices: 56905449--56905670 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
56905439 TATTCGAATG
* *
56905449 ATATCCGGGCTATGTCCCGAAGACATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
56905489 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
56905529 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
** *
56905569 ATATATGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
56905609 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
56905649 ATATAC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56905671 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 14 0.09
40 147 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:56913796 original size:3 final size:3
Alignment explanation
Indices: 56913788--56913814 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
56913778 CTTTTTCTTC
56913788 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
56913815 TTAAGAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56915056 original size:21 final size:21
Alignment explanation
Indices: 56915016--56915057 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
56915006 AAGAAAGGAA
* *
56915016 ATAATAAAAGAAATACAAAGG
1 ATAATAAAAGAAAAAAAAAGG
56915037 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
56915058 GGTTATTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:56916567 original size:28 final size:28
Alignment explanation
Indices: 56916502--56916652 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
56916492 GAGATTGGCG
* * * *
56916502 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
56916531 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56916559 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56916587 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56916615 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56916642 CTGAGTGTGCG
1 CTAAGTGTGCG
56916653 GACTTAATAT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.21
28 76 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:56922223 original size:26 final size:27
Alignment explanation
Indices: 56922187--56922239 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56922177 TGTCAGCTAG
* *
56922187 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
56922213 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
56922240 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:56924116 original size:45 final size:45
Alignment explanation
Indices: 56924060--56924293 Score: 305
Period size: 45 Copynumber: 5.2 Consensus size: 45
56924050 CGGGCTTCGG
56924060 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
56924105 GCCTAGTAGGCTATGATGCCGGTGTAATACTATTCAGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * * *
56924150 GCCTAGCAGGTTATGATGCCGATGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * * *
56924195 GCCTAGCAGGCTTTAATGCCGGTGAGATACTATTCAGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-GA
* *
56924240 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TATT-GGGCC-TCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAAT-ACTATTCGGGCCTTTGA
56924283 GCCTAGCAGGC
1 GCCTAGCAGGC
56924294 GAAATGCCGA
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
43 13 0.08
44 7 0.04
45 145 0.87
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:56927339 original size:15 final size:15
Alignment explanation
Indices: 56927319--56927383 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
56927309 GTATCTTGGG
56927319 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
56927334 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
56927349 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
56927364 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56927378 TTTCTT
1 TTTCTT
56927384 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 14 0.33
15 23 0.53
16 6 0.14
ACGTcount: A:0.11, C:0.14, G:0.12, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56928802 original size:49 final size:50
Alignment explanation
Indices: 56928681--56928816 Score: 186
Period size: 49 Copynumber: 2.7 Consensus size: 50
56928671 AGCAAAAGGG
** *
56928681 GTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGATGGTGAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTGAGGTCACAT
* * *
56928731 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-TGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TGGTGAGGTCACAT
*
56928780 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT
56928817 AGCTTCGGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 40 0.52
50 35 0.45
51 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTGAGGTCACAT
Found at i:56935592 original size:47 final size:47
Alignment explanation
Indices: 56935538--56935809 Score: 418
Period size: 47 Copynumber: 5.7 Consensus size: 47
56935528 TTAGGATTCT
* * * * *
56935538 ATGTGATGGATGTGAAAATGCATATATGAGATAATGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
56935585 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCATAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56935632 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
56935681 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
56935728 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
56935775 ACGTGATGGATGTGAAAGTGTATAAATATGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56935810 TCCCGAAGAG
Statistics
Matches: 210, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 164 0.78
49 46 0.22
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:56935673 original size:96 final size:94
Alignment explanation
Indices: 56935538--56935809 Score: 418
Period size: 96 Copynumber: 2.9 Consensus size: 94
56935528 TTAGGATTCT
* * * * *
56935538 ATGTGATGGATGTGAAAATGCATATATGAGATAATGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
56935603 TGTATATATGTGATAAGGCATAATGGCCG
66 TGTATATATGTGATAAGGCATAATGGCCG
56935632 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
56935697 AGTGTATATATGTGATAAGGCCTAATGGCCG
64 AGTGTATATATGTGATAAGGCATAATGGCCG
* * * *
56935728 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
56935793 TGTATAAATATGATAAG
66 TGTATATATGTGATAAG
56935810 TCCCGAAGAG
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
94 74 0.45
96 90 0.55
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCATAATGGCCG
Found at i:56935685 original size:143 final size:143
Alignment explanation
Indices: 56935538--56935804 Score: 435
Period size: 143 Copynumber: 1.9 Consensus size: 143
56935528 TTAGGATTCT
* *
56935538 ATGTGATGGATGTGAAAATGCATATATGAGATAATGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * *
56935603 TGTATATATGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCATAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATGTGATAA
56935668 GGCCTAATGGCCG
131 GGCCTAATGGCCG
* * *
56935681 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
56935746 TGTATATATGTGATAAGGCCTAATAGCCAACGTGATGGATGTGAAAGTGTATAAATATG
66 TGTATATATGTGATAAGGCATAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATG
56935805 ATAAGTCCCG
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 113 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (143 bp):
ATGTGATGAATGTGAAAATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCATAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATGTGATAA
GGCCTAATGGCCG
Found at i:56937240 original size:40 final size:40
Alignment explanation
Indices: 56937185--56937496 Score: 534
Period size: 40 Copynumber: 7.8 Consensus size: 40
56937175 GAGAATTGAG
56937185 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56937225 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56937265 AATGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
56937305 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56937345 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56937385 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
56937425 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56937465 AGTGTTATATCTGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
56937497 ATCATGCTGG
Statistics
Matches: 258, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:56937713 original size:25 final size:25
Alignment explanation
Indices: 56937672--56937723 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
56937662 TGTGTATTAA
56937672 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
56937697 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
56937722 TG
1 TG
56937724 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:56941451 original size:25 final size:25
Alignment explanation
Indices: 56941423--56941501 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
56941413 CTAATGGCCG
56941423 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
56941448 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
56941470 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
56941495 ATGTGAT
1 ATGTGAT
56941502 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:56941557 original size:46 final size:47
Alignment explanation
Indices: 56941376--56941643 Score: 456
Period size: 47 Copynumber: 5.8 Consensus size: 47
56941366 ATTTAGGATT
56941376 CGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
56941421 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
56941468 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
56941515 CGATGTGATGAATGTGAAAGT-TATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
56941561 CGATGTGATGAATGTGAAAGTGTATATATGTG-TAAGGGCC-AATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTAATGGC
* * * *
56941607 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56941644 TCCCGAAGGG
Statistics
Matches: 214, Mismatches: 4, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
45 28 0.13
46 84 0.39
47 102 0.48
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:56941578 original size:93 final size:94
Alignment explanation
Indices: 56941376--56941643 Score: 456
Period size: 93 Copynumber: 2.9 Consensus size: 94
56941366 ATTTAGGATT
56941376 CGATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56941439 AGTGTATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
56941468 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
56941533 AGT-TATATATGTGATAAGGCCTAATGGC
66 AGTGTATATATGTGATAAGGCCTAATGGC
* * *
56941561 CGATGTGATGAATGTGAAAGTGTATATATGTG-TAAGGGCC-AATGGCCAACGTGATGGATGTGA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GGCCTAATGGCCGATGTGATGAATGTGA
*
56941624 AAGTGTATAAATGTGATAAG
65 AAGTGTATATATGTGATAAG
56941644 TCCCGAAGGG
Statistics
Matches: 168, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
92 55 0.33
93 75 0.45
94 38 0.23
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:56944250 original size:139 final size:142
Alignment explanation
Indices: 56944000--56944497 Score: 796
Period size: 139 Copynumber: 3.5 Consensus size: 142
56943990 CCCTTCGGGA
* * * * *
56944000 CTTATCACAT-T-TATACAC-TTCACATCCATCACGTTGGCCATTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA-
*
56944062 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
56944127 TC-GCCATTAGGC
130 TCGGCCATTAGGC
56944139 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGG-CTTATCACATATAT-A
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAA
*
56944202 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCAT-ACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
56944266 CGGCCATTAGGC
131 CGGCCATTAGGC
*
56944278 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT
* *
56944343 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 A-ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
56944408 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
*
56944423 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA-
56944488 AC-TTCACATT
65 ACTTTCACATT
56944498 ACCAACCCTT
Statistics
Matches: 336, Mismatches: 13, Indels: 17
0.92 0.04 0.05
Matches are distributed among these distances:
138 5 0.01
139 126 0.38
140 9 0.03
141 19 0.06
142 38 0.11
143 10 0.03
144 58 0.17
145 71 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:56944332 original size:49 final size:47
Alignment explanation
Indices: 56944000--56944497 Score: 749
Period size: 47 Copynumber: 10.6 Consensus size: 47
56943990 CCCTTCGGGA
* * * * *
56944000 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56944046 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56944093 CTCATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56944139 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56944187 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56944232 CTTATCACATATATACACTTTCACATTCAT-ACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56944278 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56944327 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56944376 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56944423 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56944472 CTTATCACATATATACAC-TTCACATT
1 CTTATCACATATATACACTTTCACATT
56944498 ACCAACCCTT
Statistics
Matches: 419, Mismatches: 21, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
44 28 0.07
45 14 0.03
46 69 0.16
47 126 0.30
48 57 0.14
49 125 0.30
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56944855 original size:40 final size:39
Alignment explanation
Indices: 56944700--56944857 Score: 180
Period size: 39 Copynumber: 4.1 Consensus size: 39
56944690 CGGAATTTAA
* *
56944700 CCGGATATAGCT-ACTCG-TCAAATGCCTTCGGGACATAG
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAG
* *
56944738 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
*
56944777 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAG
* * *
56944816 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAG
1 -CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAG
56944856 CC
1 CC
56944858 CAGACATCAT
Statistics
Matches: 103, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.01
38 17 0.17
39 52 0.50
40 22 0.21
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
Found at i:56948299 original size:39 final size:40
Alignment explanation
Indices: 56948242--56948508 Score: 405
Period size: 39 Copynumber: 6.8 Consensus size: 40
56948232 CCAGCATGAT
* * * *
56948242 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCAC-AA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
56948281 TGCTATTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56948321 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56948361 TGCTCTTC-GGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56948400 TGCTCTTCGGGACTTAGCCCGG-TACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56948439 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
56948479 TGCTCTTCGGGACTTAGCCCGGATATATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
56948509 TCGTCGAGAC
Statistics
Matches: 208, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 105 0.50
40 103 0.50
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:56948357 original size:79 final size:78
Alignment explanation
Indices: 56948242--56948508 Score: 401
Period size: 79 Copynumber: 3.4 Consensus size: 78
56948232 CCAGCATGAT
* * * * * *
56948242 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAATGCTATTCGGAACTTAGCCCGGATAC
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAATGCTCTTCGG-ACTTAGCCCGGGTAC
*
56948307 ATCACTAGCATGAA
65 ATCACTAGCACGAA
*
56948321 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGACTTAGCCCGGGTAC
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCAC-AATGCTCTTCGGACTTAGCCCGGGTAC
56948386 ATCACTAGCACGAA
65 ATCACTAGCACGAA
*
56948400 TGCTCTTCGGGACTTAGCCCGG-TACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCA-CAATGCTCTTC-GGACTTAGCCCGGGTA
56948464 CATCACTAGCACGAA
64 CATCACTAGCACGAA
*
56948479 TGCTCTTCGGGACTTAGCCCGGATATATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
56948509 TCGTCGAGAC
Statistics
Matches: 173, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
78 23 0.13
79 133 0.77
80 17 0.10
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (78 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAATGCTCTTCGGACTTAGCCCGGGTACA
TCACTAGCACGAA
Found at i:56950905 original size:49 final size:49
Alignment explanation
Indices: 56950731--56951237 Score: 795
Period size: 49 Copynumber: 10.6 Consensus size: 49
56950721 CCCTTCGGGA
* * * *
56950731 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56950778 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56950825 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56950872 CTGATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56950921 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56950968 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56951017 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56951066 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56951115 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56951162 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56951211 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56951238 ACCAACCCTT
Statistics
Matches: 429, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.46
49 231 0.54
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56950928 original size:96 final size:96
Alignment explanation
Indices: 56950731--56951237 Score: 856
Period size: 96 Copynumber: 5.3 Consensus size: 96
56950721 CCCTTCGGGA
* * * * * * *
56950731 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCATTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
56950794 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
56950825 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTGATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56950890 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
*
56950921 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
56950986 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
56951017 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
56951082 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTCGGC
56951115 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56951180 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
56951211 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56951238 ACCAACCCTT
Statistics
Matches: 390, Mismatches: 19, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
94 46 0.12
96 251 0.64
98 93 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56951568 original size:40 final size:39
Alignment explanation
Indices: 56951443--56951555 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 39
56951433 CGGAATTTAA
** *
56951443 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGAC-ATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTA-AAC
* * *
56951483 CCAGTTATAGTAGCTCGCACAAATGCCTTCGGGACTAAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTAAAC
*
56951523 CCGGATTTAGTAACTCGCACAAATGCCTTCGGA
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA
56951556 TCTTAGTCCG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 4 0.07
40 56 0.92
41 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTAAAC
Found at i:56951601 original size:40 final size:40
Alignment explanation
Indices: 56951462--56951604 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
56951452 GCTACTCGTT
* * * * *
56951462 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
56951502 CAAATGCCTTCGGGACTAAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
56951542 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
56951583 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
56951605 AGACATCATT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 71 0.84
41 11 0.13
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:56955832 original size:43 final size:44
Alignment explanation
Indices: 56955733--56955854 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 44
56955723 ACCAAGATGT
*
56955733 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTAC
* * *
56955776 GAATACGTATAAGACCATGTCTGGGACATTGGCATCAT-TATT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTATTAC
* * *
56955819 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC
56955855 GATATGTGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 62 0.93
44 4 0.06
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTATTAC
Found at i:56955872 original size:43 final size:42
Alignment explanation
Indices: 56955739--56955879 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 42
56955729 ATGTGATTAC
*
56955739 ATGTAAGACCATGTCTGGGACATTGGCATTG-TATT-ATGAAT
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGAT-AAT
* *
56955780 ACGTATAAGACCATGTCTGGGACATTGGCATC-ATTATTCGAT-TT
1 A--TGTAAGACCATGTCTGGGACATTGGCATCGA-TATT-GATAAT
* *
56955824 CATGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAAT
1 -ATGTAAGACCATGTCTGGGACATTGGCATCGATAT-TGATAAT
56955868 ATGTAAGACCAT
1 ATGTAAGACCAT
56955880 ATTGGGGATA
Statistics
Matches: 82, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
41 1 0.01
43 70 0.85
44 8 0.10
45 1 0.01
46 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATTGATAAT
Found at i:56957664 original size:46 final size:45
Alignment explanation
Indices: 56957611--56957786 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
56957601 TATTTGGGCA
56957611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
56957657 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
56957704 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56957750 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56957787 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 68 0.63
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56957760 original size:93 final size:93
Alignment explanation
Indices: 56957607--56957778 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56957597 AGGATATTTG
* * *
56957607 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
56957672 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* *
56957700 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
56957765 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
56957779 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:56969486 original size:16 final size:16
Alignment explanation
Indices: 56969465--56969496 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56969455 AAAATTTCTC
56969465 TAGTTAAAGTGATGTG
1 TAGTTAAAGTGATGTG
56969481 TAGTTAAAGTGATGTG
1 TAGTTAAAGTGATGTG
56969497 GCATCGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (16 bp):
TAGTTAAAGTGATGTG
Found at i:56975909 original size:28 final size:27
Alignment explanation
Indices: 56975878--56975971 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 27
56975868 AACTGGTCCT
56975878 TAGCCCATATCAATATCAATCTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCC
*
56975905 ATAGCCCCT-TGCAATATCAGAGTATACTGGGCC
1 -TAGCCCATAT-CAATATC--A--AT-CTGGGCC
* *
56975938 TATCCCATATCAGTATCAATCTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCC
56975965 GTAGCCC
1 -TAGCCC
56975972 TATAACAAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
27 8 0.15
28 21 0.40
30 2 0.04
32 14 0.26
33 8 0.15
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (27 bp):
TAGCCCATATCAATATCAATCTGGGCC
Found at i:56975996 original size:60 final size:60
Alignment explanation
Indices: 56975859--56976010 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 60
56975849 CTATTCAGAA
* *
56975859 ATCAGAGT-TAACTGGTCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCCTTGCAAT
1 ATCAGAGTAT-ACTGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
* *
56975920 ATCAGAGTATACTGGGCCTAT-CCCATATCAGTATCAATCTGGGCCGTAG-CCCTATAACAA-
1 ATCAGAGTATACTGGGCCT-TGCCCATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAAT
* *
56975980 GTCA-AGATATATTGGGCCTTGCCCATATCAA
1 ATCAGAG-TATACTGGGCCTTGCCCATATCAA
56976011 CACAGTTGGC
Statistics
Matches: 78, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
59 7 0.09
60 50 0.64
61 19 0.24
62 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGCCCCTTACAAT
Found at i:56978583 original size:17 final size:18
Alignment explanation
Indices: 56978563--56978609 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
56978553 ATAAATAATG
56978563 AAAATAAATAAAT-ACGA
1 AAAATAAATAAATGACGA
*
56978580 AAAATAAA-AGAATGATGA
1 AAAATAAATA-AATGACGA
*
56978598 AAAATCAATAAA
1 AAAATAAATAAA
56978610 CCAATCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 11 0.44
18 12 0.48
19 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAATAAATAAATGACGA
Found at i:56983102 original size:37 final size:37
Alignment explanation
Indices: 56983049--56983148 Score: 164
Period size: 37 Copynumber: 2.7 Consensus size: 37
56983039 CGAATAGTCC
*
56983049 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* * *
56983086 CCACACGTAGTCATCGGGTCTTACTCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
56983123 CCACACGTAGTCATCGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
56983149 GGAATACATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:56983353 original size:48 final size:48
Alignment explanation
Indices: 56983292--56983956 Score: 1170
Period size: 48 Copynumber: 13.9 Consensus size: 48
56983282 ATATACACAC
*
56983292 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56983340 ATATCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56983388 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56983436 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAAACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56983484 ATCTCATACATATTTCACACTAGGCATTCGGCTTTACCACATATGA-AT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAT-ACAT
56983532 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56983580 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56983628 ATCTCATACATATTTCACATTACCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56983676 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
56983724 ATCTCATACATATTTCACACTAGCCATTCGGCTTTAGCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56983772 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
56983820 ATCTCATATATATTTCACATTAGCAATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
56983868 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
56983916 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
56983957 CACATATATA
Statistics
Matches: 590, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 1 0.00
48 588 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:56992438 original size:30 final size:30
Alignment explanation
Indices: 56992392--56992451 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56992382 TTCCCGAGCC
56992392 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
56992422 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
56992452 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:56997700 original size:21 final size:19
Alignment explanation
Indices: 56997654--56997693 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
56997644 GTAATTTGAG
56997654 ATTTTATGGTAGAAAATGC
1 ATTTTATGGTAGAAAATGC
56997673 ATGTTTATGGTTAGAGAAATG
1 AT-TTTATGG-TAGA-AAATG
56997694 ACTTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.39
21 4 0.22
22 5 0.28
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
ATTTTATGGTAGAAAATGC
Found at i:56999494 original size:26 final size:28
Alignment explanation
Indices: 56999465--56999517 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
56999455 ATGTCTTTAA
56999465 GATGTGGTT-TGTGATT-GTG-TGAATGT
1 GATG-GGTTATGTGATTAGTGATGAATGT
*
56999491 GATGGGTTATGTTATTAGTGATGAATG
1 GATGGGTTATGTGATTAGTGATGAATG
56999518 CTTGCTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 10 0.43
27 3 0.13
28 6 0.26
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (28 bp):
GATGGGTTATGTGATTAGTGATGAATGT
Found at i:57007673 original size:21 final size:22
Alignment explanation
Indices: 57007647--57007688 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
57007637 GTGTGTTTTG
57007647 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGACAAATGC
57007668 ATGTTTATGGTTAGACAAATG
1 ATGTTTATGGTTAGACAAATG
57007689 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGACAAATGC
Found at i:57011352 original size:8 final size:8
Alignment explanation
Indices: 57011339--57011369 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
57011329 ATCGGCAAAA
57011339 GCCGAAAT
1 GCCGAAAT
*
57011347 GCCGAAAA
1 GCCGAAAT
57011355 GCCGAAAT
1 GCCGAAAT
57011363 GCCGAAA
1 GCCGAAA
57011370 AACTGAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.42, C:0.26, G:0.26, T:0.06
Consensus pattern (8 bp):
GCCGAAAT
Found at i:57011356 original size:16 final size:16
Alignment explanation
Indices: 57011335--57011370 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
57011325 ATGTATCGGC
57011335 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
57011351 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
57011367 AAAA
1 AAAA
57011371 ACTGAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:57011377 original size:16 final size:16
Alignment explanation
Indices: 57011335--57011377 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
57011325 ATGTATCGGC
*
57011335 AAAAGCCGAAATGCCG
1 AAAAACCGAAATGCCG
*
57011351 AAAAGCCGAAATGCCG
1 AAAAACCGAAATGCCG
*
57011367 AAAAACTGAAA
1 AAAAACCGAAA
57011378 AGTCGAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.21, T:0.07
Consensus pattern (16 bp):
AAAAACCGAAATGCCG
Found at i:57011651 original size:28 final size:28
Alignment explanation
Indices: 57011611--57011686 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 28
57011601 TGTGAGCATG
*
57011611 AATATGAATGTGACTGGGCCTAAAGGGC
1 AATATGAATGTGATTGGGCCTAAAGGGC
* *
57011639 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATGAATGTGA-TTGGGCCTAAAGGGC
* *
57011668 CATATGAATATGATTGGGC
1 AATATGAATGTGATTGGGC
57011687 TTAGTGGGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (28 bp):
AATATGAATGTGATTGGGCCTAAAGGGC
Found at i:57011694 original size:28 final size:28
Alignment explanation
Indices: 57011611--57011695 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
57011601 TGTGAGCATG
* *
57011611 AATATGAATGTGACTGGGCCTAAAGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
*
57011639 AATATAAATGTGATTTGGGCCTAATGGGC
1 AATATGAATGTGA-TTGGGCCTAATGGGC
* * * *
57011668 CATATGAATATGATTGGGCTTAGTGGGC
1 AATATGAATGTGATTGGGCCTAATGGGC
57011696 TAGACACAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.52
29 23 0.48
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (28 bp):
AATATGAATGTGATTGGGCCTAATGGGC
Found at i:57019102 original size:40 final size:40
Alignment explanation
Indices: 57019003--57019193 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
57018993 TGGATGATAA
* * * * **
57019003 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
57019043 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
57019082 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
57019122 TCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
57019162 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57019194 AGCTATATCT
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 33 0.24
40 101 0.74
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:57027172 original size:40 final size:40
Alignment explanation
Indices: 57027071--57027254 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
57027061 TGGATGATAA
* * * **
57027071 CCGGGCTAAGTCCCGAAGGCATCTGCT-CTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAAT
57027111 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
57027150 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
57027190 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
57027230 CTGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57027255 AGAGAGTAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.25
40 94 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:57028753 original size:16 final size:17
Alignment explanation
Indices: 57028732--57028770 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
57028722 GCTGTAACGC
*
57028732 CCCAAAAATCTCGAAA-
1 CCCAAAAATCCCGAAAT
57028748 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
57028765 CCCAAA
1 CCCAAA
57028771 CTTTTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:57030329 original size:29 final size:29
Alignment explanation
Indices: 57030286--57030387 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
57030276 TGAATCCGAC
57030286 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
57030315 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
57030344 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
57030372 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
57030388 GACACAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:57030354 original size:58 final size:57
Alignment explanation
Indices: 57030286--57030396 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
57030276 TGAATCCGAC
* * *
57030286 TGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGACACAGGTGATT
* * *
57030344 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGACACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGACACAGGT
57030397 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAATGGGCCATATAAATATGATTGGGCCTAATAGGCCAGACACAGGTGATT
Found at i:57036493 original size:16 final size:16
Alignment explanation
Indices: 57036469--57036505 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
57036459 TTTAAAAAGG
*
57036469 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
57036485 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
57036501 AAAAA
1 AAAAA
57036506 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:57043196 original size:14 final size:13
Alignment explanation
Indices: 57043173--57043203 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
57043163 GGGATATCAA
57043173 AACAATAATTAAG
1 AACAATAATTAAG
57043186 AACACATAATTAAG
1 AACA-ATAATTAAG
57043200 AACA
1 AACA
57043204 GGTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:57046775 original size:40 final size:40
Alignment explanation
Indices: 57046720--57046937 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
57046710 TGGATGATAA
** ** * *
57046720 CCGGGCTAAGTCCCGAAGGCATTTACGTTAGTGACAAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
57046760 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57046800 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57046840 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57046880 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57046920 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57046938 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.90
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57054854 original size:40 final size:40
Alignment explanation
Indices: 57054799--57055016 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
57054789 TGGATGATAA
** * *
57054799 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
57054839 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57054879 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57054919 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57054959 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57054999 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57055017 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.90
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57056523 original size:29 final size:29
Alignment explanation
Indices: 57056482--57056581 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
57056472 AGTGTGACTC
*
57056482 GGCCTAATAGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
57056511 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * * *
57056540 GGCCGAATGGGGCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
57056568 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
57056582 GATATAGGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 14 0.24
29 45 0.76
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:57068815 original size:40 final size:39
Alignment explanation
Indices: 57068672--57068853 Score: 237
Period size: 38 Copynumber: 4.7 Consensus size: 39
57068662 TTGAATGATG
* *
57068672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
57068710 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
57068749 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
57068788 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
57068828 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57068854 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 47 0.37
39 33 0.26
40 47 0.37
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:57068815 original size:78 final size:79
Alignment explanation
Indices: 57068672--57068853 Score: 239
Period size: 78 Copynumber: 2.3 Consensus size: 79
57068662 TTGAATGATG
*
57068672 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATCCGGACTAAGATCCGAAGGCAATTG
57068736 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
57068749 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC--AATCCGGACTAAGAT-CCGAAGGCAA
57068811 TTGTGCGAGTTACTATA
63 TTGTGCGAGTTACTATA
* *
57068828 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57068854 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
76 14 0.15
77 19 0.21
78 35 0.38
79 10 0.11
80 14 0.15
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATCCGGACTAAGATCCGAAGGCAATTG
TGCGAGTTACTATA
Found at i:57068871 original size:80 final size:77
Alignment explanation
Indices: 57068723--57068886 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 77
57068713 GGACTAAGAT
* * **
57068723 CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCAATTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
*
57068788 TCCGGGTTAAGTC
66 TCC-GGTTAAATC
*
57068801 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCAATTGTGCGAGTTACTA-AACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
57068865 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
57068880 CCGAAGG
1 CCGAAGG
57068887 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 24 0.32
79 26 0.35
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCAATTGTGCGAGTTACTAAACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGTTAAATC
Found at i:57076644 original size:40 final size:40
Alignment explanation
Indices: 57076564--57076747 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
57076554 TTGAATGATG
* * *
57076564 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGAC-CAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
57076602 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57076642 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57076682 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57076723 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57076748 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 10 0.08
39 15 0.11
40 104 0.79
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57076754 original size:80 final size:79
Alignment explanation
Indices: 57076615--57076780 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
57076605 GGACTAAGAT
* * **
57076615 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
57076679 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
57076695 CCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCAATTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
57076759 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
57076774 CCGAAGG
1 CCGAAGG
57076781 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:57090794 original size:28 final size:28
Alignment explanation
Indices: 57090731--57090881 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
57090721 TATTTAAGTC
*
57090731 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
57090758 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
57090786 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
57090814 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
57090842 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57090871 CGCACACTTAG
1 CGCACACTTAG
57090882 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 21 0.18
28 77 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57093311 original size:8 final size:8
Alignment explanation
Indices: 57093297--57093328 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57093287 GTAGAACGGC
57093297 AAATGCCG
1 AAATGCCG
*
57093305 GAATGCCG
1 AAATGCCG
57093313 AAATGCCG
1 AAATGCCG
57093321 AAATGCCG
1 AAATGCCG
57093329 GTCACATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.34, C:0.25, G:0.28, T:0.12
Consensus pattern (8 bp):
AAATGCCG
Found at i:57093590 original size:27 final size:27
Alignment explanation
Indices: 57093542--57093613 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
57093532 TAACTGTAGG
* *
57093542 ATTACTGAAATACCCCTATA-GGATAGA
1 ATTACTGAAATACCCTTGTAGGGA-AGA
* *
57093569 ATTATTGAAATGCCCTTGTAGGGAAGA
1 ATTACTGAAATACCCTTGTAGGGAAGA
57093596 ATTACTGAAATACCCTTG
1 ATTACTGAAATACCCTTG
57093614 GTTTACAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGTAGGGAAGA
Found at i:57093690 original size:27 final size:26
Alignment explanation
Indices: 57093646--57093983 Score: 180
Period size: 27 Copynumber: 12.5 Consensus size: 26
57093636 CACAATTAGC
* *
57093646 AAAATTACCAAAAGACCC-CTAGTTTGT
1 AAAATTACC-AAATACCCTCGA-TTTGT
* *
57093673 AAAATTACCAACATACCCTTGATATGT
1 AAAATTACCAA-ATACCCTCGATTTGT
* * **
57093700 GAAATTACCGAATTACCCTCGACCTGT
1 AAAATTACC-AAATACCCTCGATTTGT
*
57093727 AAAATTACCGAAATACCCTCGACTTGT
1 AAAATTACC-AAATACCCTCGATTTGT
*
57093754 AAAATTACCGAAATACCCTCGACTTGT
1 AAAATTACC-AAATACCCTCGATTTGT
*
57093781 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTAC-CAAATACCCTCGATTTGT
* *
57093808 AAAGTGACCAAAATACCC-CTGATTTGT
1 AAAATTACC-AAATACCCTC-GATTTGT
* * ** *
57093835 AAAATTTCTGAAATACCCTTAATTTGG
1 AAAATTAC-CAAATACCCTCGATTTGT
** **
57093862 AAAATTATAGAAATACCC-CTGATTTAC
1 AAAATTA-CCAAATACCCTC-GATTTGT
* * **
57093889 AAAATTACAGAAATACCCTTGACTTTAAA
1 AAAATTAC-CAAATACCCTCGA-TTT-GT
* * * *
57093918 AAAATTA-TAGAACTACCATTGGTTTGT
1 AAAATTACCA-AA-TACCCTCGATTTGT
* * *
57093945 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTAC-CAAATACCCTCGATTTGT
*
57093972 AAATTTACCAAA
1 AAAATTACCAAA
57093984 ACACCCTTGT
Statistics
Matches: 251, Mismatches: 42, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
26 6 0.02
27 216 0.86
28 13 0.05
29 16 0.06
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAATACCCTCGATTTGT
Found at i:57093849 original size:54 final size:54
Alignment explanation
Indices: 57093620--57093989 Score: 259
Period size: 54 Copynumber: 6.8 Consensus size: 54
57093610 CTTGGTTTAC
* * * * *
57093620 AAAATTACTG-AATACCCACAATTAGCAAAATTACCAAAAGACCCCT-AGTTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGA-TTTGT
* * * * * * **
57093673 AAAATTAC-CAACATACCCTTGATATGTGAAATTACCGAATTA-CCCTCGACCTGT
1 AAAATTACTGAA-ATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * * *
57093727 AAAATTACCGAAATACCCTCGACTTGTAAAATTACCGAAATA-CCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCT-GATTTGT
* * *
57093781 AAAATTACTAAAATACCCTCGATTTGTAAAGTGACCAAAATACCCCTGATTTGT
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
* ** * * **
57093835 AAAATTTCTGAAATACCCTTAATTTGGAAAATTA-TAGAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCA-AAATACCCCTGATTTGT
* * ** * * ** *
57093889 AAAATTACAGAAATACCCTTGACTTTAAAAAAATTA-TAGAACTACCATTGGTTTGT
1 AAAATTACTGAAATACCCTCGA-TTT-GTAAAATTACCA-AAATACCCCTGATTTGT
* * * *
57093945 AAAATTACTGAAATACCCTTGGTTTGTAAATTTACCAAAACACCC
1 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCC
57093990 TTGTAGGGTG
Statistics
Matches: 250, Mismatches: 57, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
53 14 0.06
54 181 0.72
55 14 0.06
56 41 0.16
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AAAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:57093866 original size:81 final size:80
Alignment explanation
Indices: 57093646--57093879 Score: 215
Period size: 81 Copynumber: 2.9 Consensus size: 80
57093636 CACAATTAGC
* * * * *
57093646 AAAATTACCAAAAGACCCCT-AGTTTGTAAAATTACCAACATACCCTTGATATGTG-AAATTACC
1 AAAATGACCAAAATACCCCTGA-TTTGTAAAATTACGAA-ATACCCTTGATTTG-GAAAATTACT
* *
57093709 GAATTACCCTCGACCTGT
63 AAAATACCCTCGACCTGT
* * * * * *
57093727 AAAATTACCGAAATA-CCCTCGACTTGTAAAATTACCGAAATACCCTCGACTTGTAAAATTACTA
1 AAAATGACCAAAATACCCCT-GATTTGTAAAATTA-CGAAATACCCTTGATTTGGAAAATTACTA
**
57093791 AAATACCCTCGATTTGT
64 AAATACCCTCGACCTGT
* * *
57093808 AAAGTGACCAAAATACCCCTGATTTGTAAAATTTCTGAAATACCCTTAATTTGGAAAATTA-TAG
1 AAAATGACCAAAATACCCCTGATTTGTAAAATTAC-GAAATACCCTTGATTTGGAAAATTACTA-
57093872 AAATACCC
64 AAATACCC
57093880 CTGATTTACA
Statistics
Matches: 124, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
80 7 0.06
81 109 0.88
82 8 0.06
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (80 bp):
AAAATGACCAAAATACCCCTGATTTGTAAAATTACGAAATACCCTTGATTTGGAAAATTACTAAA
ATACCCTCGACCTGT
Found at i:57093990 original size:83 final size:81
Alignment explanation
Indices: 57093701--57093992 Score: 203
Period size: 81 Copynumber: 3.6 Consensus size: 81
57093691 TTGATATGTG
* * * ** * * * ** *
57093701 AAATTACCGAATTACCCTCGACCTGTAAAATTACCGAAATACCCTCGACTT-GTAAAATTACCGA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTAAAAAAATTA-TGA
* ** *
57093765 AATACCCTCGACTTGTA
65 AATACCATTAATTTGTA
* * * * * ** * *
57093782 AAATTACTAAAATACCCTCGATTTGTAAAGTGACCAAAATACCCCTGATTTGTAAAATTTCTGAA
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTAAAAAAATTATGAA
* *
57093847 ATACCCTTAATTTGGA
66 ATACCATTAATTTGTA
* **
57093863 AAATTA-TAGAAATACCCCTGATTTACAAAATTA-CAGAAATACCCTTGACTTTAAAAAAATTAT
1 AAATTACT-GAAATACCCTTGATTTGTAAAATTACCA-AAATACCCTTGA-TTTAAAAAAATTAT
* **
57093926 AGAACTACCATTGGTTTGTA
63 -GAAATACCATTAATTTGTA
* * *
57093946 AAATTACTGAAATACCCTTGGTTTGTAAATTTACCAAAACACCCTTG
1 AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTG
57093993 TAGGGTGAAA
Statistics
Matches: 161, Mismatches: 43, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
80 3 0.02
81 90 0.56
82 15 0.09
83 50 0.31
84 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (81 bp):
AAATTACTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTTGATTTAAAAAAATTATGAA
ATACCATTAATTTGTA
Found at i:57094092 original size:27 final size:27
Alignment explanation
Indices: 57094023--57094114 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
57094013 ATCCCTAATA
* * *
57094023 GGTAAAAAGCCCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
57094050 GGTAAAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* ** *
57094077 GGTAAACTGATTGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57094104 GGTAAAATGAC
1 GGTAAAATGAC
57094115 GATTATGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57094285 original size:27 final size:26
Alignment explanation
Indices: 57094255--57094341 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
57094245 GGAAGTTTTG
* * *
57094255 TACTGTTGACTATGTCACATTCACTGT
1 TACTGGTGGCTATGCCACATT-ACTGT
*
57094282 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCAC-ATTACTGT
*
57094309 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGGCTATGCCACA-TTACTGT
*
57094336 TTCTGG
1 TACTGG
57094342 CAACTATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 47 0.92
28 3 0.06
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TACTGGTGGCTATGCCACATTACTGT
Found at i:57097343 original size:16 final size:17
Alignment explanation
Indices: 57097316--57097351 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
57097306 GAAAACATCT
57097316 CAAAAGCATAAAGATAA
1 CAAAAGCATAAAGATAA
57097333 CAAAA-CATAAAGATAA
1 CAAAAGCATAAAGATAA
57097349 CAA
1 CAA
57097352 GATCTGTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.67, C:0.14, G:0.08, T:0.11
Consensus pattern (17 bp):
CAAAAGCATAAAGATAA
Found at i:57097380 original size:16 final size:16
Alignment explanation
Indices: 57097359--57097389 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57097349 CAAGATCTGT
57097359 CTTAGGCTTCATTCCC
1 CTTAGGCTTCATTCCC
*
57097375 CTTAGGTTTCATTCC
1 CTTAGGCTTCATTCC
57097390 TTTAAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.32, G:0.13, T:0.42
Consensus pattern (16 bp):
CTTAGGCTTCATTCCC
Found at i:57101273 original size:21 final size:21
Alignment explanation
Indices: 57101247--57101293 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57101237 AAGTGTACTG
*
57101247 TACTGGTAGCTCTGCTGCAAT
1 TACTGGCAGCTCTGCTGCAAT
* *
57101268 TACTGGCAGCTTTGCTGTAAT
1 TACTGGCAGCTCTGCTGCAAT
57101289 TACTG
1 TACTG
57101294 AATAGTGCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
TACTGGCAGCTCTGCTGCAAT
Found at i:57111066 original size:39 final size:39
Alignment explanation
Indices: 57110982--57111143 Score: 175
Period size: 39 Copynumber: 4.1 Consensus size: 39
57110972 CAAATCCAAT
* * *
57110982 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCTGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAA
*
57111022 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAA
* * **
57111061 CACCAGCACGAATGCCTTCAAGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
* * * *
57111100 CGCCAACACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
57111139 CACCA
1 CACCA
57111144 TTATAAAGTC
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
39 74 0.69
40 33 0.31
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
Found at i:57111247 original size:28 final size:28
Alignment explanation
Indices: 57111216--57111287 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
57111206 TCAATACTTT
*
57111216 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
57111244 GCACATTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
57111272 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
57111288 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:57113235 original size:16 final size:16
Alignment explanation
Indices: 57113214--57113245 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57113204 ACAAATTCAC
57113214 TACAAGCTGTCTTCCT
1 TACAAGCTGTCTTCCT
57113230 TACAAGCTGTCTTCCT
1 TACAAGCTGTCTTCCT
57113246 GAGAAACAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (16 bp):
TACAAGCTGTCTTCCT
Found at i:57114167 original size:39 final size:39
Alignment explanation
Indices: 57114100--57114322 Score: 340
Period size: 39 Copynumber: 5.7 Consensus size: 39
57114090 ACAAAGCATG
* * *
57114100 CGGGACTTTGAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
*
57114140 CAGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57114180 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
57114219 CGGGACTTAGCTCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
57114258 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
57114297 CGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
57114323 TTATAAAGTC
Statistics
Matches: 170, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 152 0.89
40 18 0.11
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:57114428 original size:28 final size:28
Alignment explanation
Indices: 57114395--57114460 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
57114385 ATTTAATCAT
* * *
57114395 TCAATATTTTGCACACTAGGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* *
57114423 TCAATATCTCGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
57114451 TCAATATTTC
1 TCAATATTTC
57114461 ATACAGTGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:57114476 original size:28 final size:28
Alignment explanation
Indices: 57114418--57114476 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
57114408 CACTAGGTGT
* * *
57114418 CATTCTCAATATCTCGCACATTAAGTGC
1 CATTCTCAATATCTCACACAGTAAGTAC
* * *
57114446 CATTCTCAATATTTCATACAGTGAGTAC
1 CATTCTCAATATCTCACACAGTAAGTAC
57114474 CAT
1 CAT
57114477 ATTTGATTGC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (28 bp):
CATTCTCAATATCTCACACAGTAAGTAC
Found at i:57117346 original size:48 final size:48
Alignment explanation
Indices: 57117292--57117394 Score: 188
Period size: 48 Copynumber: 2.1 Consensus size: 48
57117282 ACAACATTCC
57117292 AAAATGCATTCCACCCTATACATGCCATAGTTCCAAAATGTAACTTAA
1 AAAATGCATTCCACCCTATACATGCCATAGTTCCAAAATGTAACTTAA
* *
57117340 AAAATGCATTCCATCCTATACATGCCATAGTTCCAAAATGTAACTTAC
1 AAAATGCATTCCACCCTATACATGCCATAGTTCCAAAATGTAACTTAA
57117388 AAAATGC
1 AAAATGC
57117395 CGAAGACGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (48 bp):
AAAATGCATTCCACCCTATACATGCCATAGTTCCAAAATGTAACTTAA
Found at i:57136375 original size:39 final size:40
Alignment explanation
Indices: 57136285--57136447 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
57136275 CAAGATTTAA
* * *
57136285 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
57136325 CCGGATATAGTAACTCGCACCAATGCCTTCGGGA-TTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
57136364 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57136404 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
57136444 CCGG
1 CCGG
57136448 TTATCATCCA
Statistics
Matches: 113, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
39 39 0.35
40 74 0.65
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57136404 original size:79 final size:80
Alignment explanation
Indices: 57136285--57136447 Score: 224
Period size: 79 Copynumber: 2.0 Consensus size: 80
57136275 CAAGATTTAA
* * * *
57136285 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACCAAT
1 CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGA-ACTAGTAACTAGCACAAAT
57136349 GCCTTCGGGA-TTAGC
65 GCCTTCGGGACTTAGC
* * *
57136364 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAAT
1 CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGAACTAGTAACTAGCACAAAT
57136428 GCCTTCGGGACTTAGC
65 GCCTTCGGGACTTAGC
57136444 CCGG
1 CCGG
57136448 TTATCATCCA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.03
79 63 0.85
80 9 0.12
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (80 bp):
CCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGAACTAGTAACTAGCACAAATG
CCTTCGGGACTTAGC
Found at i:57141388 original size:13 final size:13
Alignment explanation
Indices: 57141366--57141399 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57141356 TTTAGTTTAA
*
57141366 TTAGTTAATTAGT
1 TTAGTAAATTAGT
57141379 TTAGTAAATTAGT
1 TTAGTAAATTAGT
*
57141392 TTAATAAA
1 TTAGTAAA
57141400 CAACCCCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
TTAGTAAATTAGT
Found at i:57144387 original size:78 final size:78
Alignment explanation
Indices: 57144294--57144457 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
57144284 GAATTTAAAC
* * * * * *
57144294 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGAACATATTTCTAGCACGTAGC
1 CCGGATATAATACCAGCAC-ACAGCCTGC-GGACCCTAAGCCCGAACATAATTCCAGCACATAGC
*
57144356 CTGCGGACCTTAAGT
64 CTGCGGACCCTAAGT
* * * *
57144371 CCGGATATAATTCCAGCACACAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACACAGCCTGCGGACCCTAAGCCCGAACATAATTCCAGCACATAGCCT
57144436 GCGGACCCTAAGT
66 GCGGACCCTAAGT
57144449 CCGGATATA
1 CCGGATATA
57144458 CATCACTGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 8 0.11
78 65 0.89
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACACAGCCTGCGGACCCTAAGCCCGAACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:57144389 original size:39 final size:39
Alignment explanation
Indices: 57144346--57144457 Score: 197
Period size: 39 Copynumber: 2.9 Consensus size: 39
57144336 ACATATTTCT
* *
57144346 AGCACGTAGCCTGCGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
*
57144385 AGCACACAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
57144424 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
57144458 CATCACTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
Found at i:57146488 original size:79 final size:79
Alignment explanation
Indices: 57146344--57146551 Score: 226
Period size: 79 Copynumber: 2.6 Consensus size: 79
57146334 GAACCATGTA
* ** *
57146344 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
57146409 AACTCGCACAAATG
66 AACTCGCACAAATG
* * * * *
57146423 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGAACTTAA-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TA
*
57146486 GTAACTGGCACAAATG
64 GTAACTCGCACAAATG
* * *
57146502 CCTTCGGATCTTAGTCCGGATATAGTC-ACTTAGCACAAA-GCCTTCGGGAC
1 CCTTCGGAACTTA-ACCGGATATAG-CAAC-TCGCACAAATGCCTTCGGGAC
57146552 TATGATCTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
78 1 0.01
79 69 0.65
80 36 0.34
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:57146491 original size:39 final size:40
Alignment explanation
Indices: 57146358--57146552 Score: 218
Period size: 40 Copynumber: 4.9 Consensus size: 40
57146348 CGGAATTTAA
* * ** *
57146358 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57146398 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57146438 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57146477 CCGGAATTAGTAACTGGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57146517 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACT
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACT
57146553 ATGATCTAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.25
40 85 0.64
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57157282 original size:19 final size:19
Alignment explanation
Indices: 57157245--57157282 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57157235 AGCTGTCAGA
*
57157245 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
57157264 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
57157283 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:57162577 original size:28 final size:28
Alignment explanation
Indices: 57162545--57162659 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 28
57162535 TACCTGTATC
* *
57162545 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
57162573 TGGCCCATTAGGCCCAAATTACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
*
57162602 TGGCCCATTAGGCCCATATCACATTTATA
1 TGGCCCATTAGGCCCA-ATCACATTCATA
* *
57162631 TGGCCCATTAGGTCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
57162659 T
1 T
57162660 TCATGCCCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Done.