Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 19 of 218
Found at i:6551887 original size:33 final size:33
Alignment explanation
Indices: 6551826--6551917 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
6551816 CATCCTAGCT
** * *
6551826 CGTATCCACCTCAGCACTCCACTTCTTCCGGCT
1 CGTATCCACCTCAATACTCCACTCCTTCCGGCC
* **
6551859 TGTATCCACCTCAATACTCTGCTCCTTCCGGCC
1 CGTATCCACCTCAATACTCCACTCCTTCCGGCC
6551892 CGTATCCACCGT-AATACTCCACTCCT
1 CGTATCCACC-TCAATACTCCACTCCT
6551918 CTCGGCTCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 47 0.98
34 1 0.02
ACGTcount: A:0.17, C:0.43, G:0.11, T:0.28
Consensus pattern (33 bp):
CGTATCCACCTCAATACTCCACTCCTTCCGGCC
Found at i:6553556 original size:35 final size:34
Alignment explanation
Indices: 6553469--6553742 Score: 326
Period size: 35 Copynumber: 8.1 Consensus size: 34
6553459 GTCCAAAAAG
* *
6553469 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
6553503 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
6553536 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
6553570 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
6553603 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
6553638 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
6553672 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * * *
6553705 GAATAATGCGTGAATAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
6553740 AAA
1 AAA
6553743 GACAAGTGAA
Statistics
Matches: 210, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
32 69 0.33
33 17 0.08
34 18 0.09
35 106 0.50
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:6553577 original size:67 final size:66
Alignment explanation
Indices: 6553469--6553702 Score: 328
Period size: 67 Copynumber: 3.5 Consensus size: 66
6553459 GTCCAAAAAG
*
6553469 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
6553534 CA
65 CA
*
6553536 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
6553601 CA
65 CA
* * *
6553603 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAGAGATTCCCTG
*
6553668 CAA-G
62 CAACA
* *
6553672 AAATGAT-GTGAACAGGAAAGATTCCCTGCAA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAA
6553703 CAGAATAATG
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
67 118 0.77
68 6 0.04
69 6 0.04
70 23 0.15
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (66 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAAC
A
Found at i:6553652 original size:102 final size:102
Alignment explanation
Indices: 6553479--6553742 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 102
6553469 AAATAATACA
* * *
6553479 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
6553541 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
6553578 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
6553643 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * * *
6553680 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAATAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
6553743 GACAAGTGAA
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
99 22 0.14
100 5 0.03
102 125 0.82
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:6553703 original size:67 final size:65
Alignment explanation
Indices: 6553479--6553742 Score: 314
Period size: 67 Copynumber: 3.9 Consensus size: 65
6553469 AAATAATACA
* * *
6553479 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAACAAAATAATC
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAAT-
6553544 CG
65 -G
* *
6553546 TGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
1 TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAA--
6553611 TG
64 TG
* * *
6553613 TGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTGCAA-GAAATG
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAAAGATTCCCTGCAACAAAATA
6553677 ATG
63 ATG
* * * * *
6553680 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAATAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAGAGATTCCCTGCAA-AAAATAAT--GTGAACAGGAAAGATTCCCTGCAACAAAA
6553743 GACAAGTGAA
Statistics
Matches: 179, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
67 141 0.79
68 9 0.05
69 6 0.03
70 23 0.13
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (65 bp):
TGAACAGGAGAGATTCCCTGCAAAAAATAATGTGAACAGGAAAGATTCCCTGCAACAAAATAATG
Found at i:6560910 original size:25 final size:25
Alignment explanation
Indices: 6560880--6561014 Score: 98
Period size: 25 Copynumber: 5.4 Consensus size: 25
6560870 GCACATAAAG
* *
6560880 GGGAAGCTCATTTGAGCTATATAAC
1 GGGAAGCTCATGTGAGCCATATAAC
* *
6560905 GTGAAGCTCATGTGAGCCATGTAAC
1 GGGAAGCTCATGTGAGCCATATAAC
* *
6560930 GGGAAGCTCATGAGAGCCATA-ATC
1 GGGAAGCTCATGTGAGCCATATAAC
** * * * *
6560954 GGGAAATTAAAGCGAGCCA-ATATC
1 GGGAAGCTCATGTGAGCCATATAAC
*
6560978 GGGAAGCTC-TAGAGAGCCA-ATTAATC
1 GGGAAGCTCAT-GTGAGCCATA-TAA-C
6561004 GGGAAGCTCAT
1 GGGAAGCTCAT
6561015 AAAAGAGCCT
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.01
24 33 0.38
25 41 0.48
26 10 0.12
27 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATGTGAGCCATATAAC
Found at i:6563601 original size:9 final size:9
Alignment explanation
Indices: 6563583--6563639 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
6563573 ACTAGTATAT
*
6563583 CATAAAATA
1 CATAACATA
6563592 CATAACATA
1 CATAACATA
*
6563601 CATAATATA
1 CATAACATA
6563610 TCAT-ACAATA
1 -CATAAC-ATA
6563620 CATAACATA
1 CATAACATA
*
6563629 CATAATATA
1 CATAACATA
6563638 CA
1 CA
6563640 CACTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 33 0.80
10 8 0.20
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (9 bp):
CATAACATA
Found at i:6563613 original size:28 final size:28
Alignment explanation
Indices: 6563570--6563637 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
6563560 ACATAATATC
*
6563570 CATAC-TAGTATATCATAAAATACATAA
1 CATACATAATATATCATAAAATACATAA
*
6563597 CATACATAATATATCATACAATACATAA
1 CATACATAATATATCATAAAATACATAA
6563625 CATACATAATATA
1 CATACATAATATA
6563638 CACACTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (28 bp):
CATACATAATATATCATAAAATACATAA
Found at i:6563629 original size:14 final size:14
Alignment explanation
Indices: 6563583--6563630 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
6563573 ACTAGTATAT
*
6563583 CATAAAATACATAA
1 CATACAATACATAA
6563597 CATAC-ATA-ATATA
1 CATACAATACATA-A
6563610 TCATACAATACATAA
1 -CATACAATACATAA
6563625 CATACA
1 CATACA
6563631 TAATATACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 3 0.10
13 4 0.14
14 15 0.52
15 4 0.14
16 3 0.10
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (14 bp):
CATACAATACATAA
Found at i:6563647 original size:28 final size:28
Alignment explanation
Indices: 6563570--6563647 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
6563560 ACATAATATC
* * *
6563570 CATAC-TAGTATATCATAAAATACATAA
1 CATACATAATATATCACACAATACATAA
*
6563597 CATACATAATATATCATACAATACATAA
1 CATACATAATATATCACACAATACATAA
6563625 CATACATAATATA-CACACTAATA
1 CATACATAATATATCACAC-AATA
6563648 TATCATAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (28 bp):
CATACATAATATATCACACAATACATAA
Found at i:6563650 original size:68 final size:67
Alignment explanation
Indices: 6563551--6563681 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 67
6563541 AGGGTCTGAC
* * * *
6563551 ACATACCATACATAATATCCATACTAGTATATCATAAAATACATAACATACA-TAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAAT--ATAACATACACTAATATATCATA
6563615 CAAT
64 CAAT
*
6563619 ACATAACATACATAATATACACACTAATATATCATAACATATAACATACACTAATATATCATA
1 ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATA
6563682 TCATTTTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
66 10 0.18
67 12 0.21
68 35 0.61
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (67 bp):
ACATAACATACATAATATACACACTAATATATCATAAAATATAACATACACTAATATATCATACA
AT
Found at i:6563655 original size:22 final size:25
Alignment explanation
Indices: 6563625--6563681 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
6563615 CAATACATAA
6563625 CATACATAATATAC-ACACTAATATAT
1 CATACAT-ATA-ACAACACTAATATAT
6563651 CATAACATATAACATACACTAATATAT
1 CAT-ACATATAACA-ACACTAATATAT
6563678 CATA
1 CATA
6563682 TCATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 2 0.07
26 7 0.25
27 19 0.68
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (25 bp):
CATACATATAACAACACTAATATAT
Found at i:6569534 original size:21 final size:22
Alignment explanation
Indices: 6569508--6569554 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6569498 CTCTGCTCAA
*
6569508 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6569529 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6569551 ACTC
1 ACTC
6569555 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6575400 original size:24 final size:23
Alignment explanation
Indices: 6575355--6575411 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
6575345 TATTTGCGCA
6575355 ATTTTTTATTTATTATCATTATT
1 ATTTTTTATTTATTATCATTATT
*
6575378 ATTTTTTATTCTCGTTATC-TTATT
1 ATTTTTTATT-T-ATTATCATTATT
*
6575402 ATTTCTTATT
1 ATTTTTTATT
6575412 ATTTTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 15 0.50
25 5 0.17
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTTTATTTATTATCATTATT
Found at i:6575549 original size:38 final size:39
Alignment explanation
Indices: 6575491--6575564 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
6575481 AATTACATCA
*
6575491 TTTATTTATTATTATCATGAT-ATGATTATTAATATTAAT
1 TTTATTTATTATAATCATGATGATGATTA-TAATATTAAT
* *
6575530 TTTA-TTATTATAATGATGATGATTATTATAATATT
1 TTTATTTATTATAATCATGATGATGATTATAATATT
6575565 CTTTCATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (39 bp):
TTTATTTATTATAATCATGATGATGATTATAATATTAAT
Found at i:6575554 original size:18 final size:17
Alignment explanation
Indices: 6575498--6575561 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
6575488 TCATTTATTT
*
6575498 ATTATTATCATGATATG
1 ATTATTATAATGATATG
* * * *
6575515 ATTATTAATATTAATTTT
1 ATTATT-ATAATGATATG
6575533 ATTATTATAATGATGATG
1 ATTATTATAATGAT-ATG
6575551 ATTATTATAAT
1 ATTATTATAAT
6575562 ATTCTTTCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (17 bp):
ATTATTATAATGATATG
Found at i:6576608 original size:37 final size:37
Alignment explanation
Indices: 6576567--6576640 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
6576557 AGCTTCTGGA
6576567 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
1 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
*
6576604 GTTGTGTCCAACCATGTAACATTTGTGGCATTTTGTC
1 GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
6576641 TTTCTCCTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (37 bp):
GTTGTGTCCAACCATGAAACATTTGTGGCATTTTGTC
Found at i:6578197 original size:15 final size:15
Alignment explanation
Indices: 6578179--6578208 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6578169 ATAAAGATTA
6578179 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6578194 TAATAATAATAAAAG
1 TAATAATAATAAAAG
6578209 AAAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:6578216 original size:15 final size:15
Alignment explanation
Indices: 6578183--6578217 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6578173 AGATTATAAT
* *
6578183 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
6578198 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
6578213 AATAA
1 AATAA
6578218 AGAAAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:6578216 original size:18 final size:18
Alignment explanation
Indices: 6578178--6578217 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6578168 TATAAAGATT
*
6578178 ATAATAATAATAAAAGTA
1 ATAATAATAAAAAAAGTA
6578196 ATAATAATAAAAGAAAG-A
1 ATAATAATAAAA-AAAGTA
6578214 ATAA
1 ATAA
6578218 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAATAATAAAAAAAGTA
Found at i:6588116 original size:46 final size:46
Alignment explanation
Indices: 6588043--6588220 Score: 203
Period size: 46 Copynumber: 3.9 Consensus size: 46
6588033 TAGGTGAAGG
* *** * * * *
6588043 TAATAGTGCCTGGTTACTTATTTGGGTTAAACCTACACGAATCGGA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACAAATCAGA
*
6588089 TAATAGTACCTGGTCACCCGTTAGGGTTGAACCTACACAAATCAGA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACAAATCAGA
* * * * *
6588135 TAATAGTGTCTGATCAACTGTTAGGGTTGAACCTACACAAATCATA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACAAATCAGA
* * *
6588181 TAATAGTGCCTAGTCACCCGGTAGGGCTGAACCTACACAA
1 TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACAA
6588221 CAAATAGCCT
Statistics
Matches: 110, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (46 bp):
TAATAGTGCCTGGTCACCCGTTAGGGTTGAACCTACACAAATCAGA
Found at i:6591167 original size:23 final size:23
Alignment explanation
Indices: 6591120--6591170 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6591110 ACCTACTTTC
* * *
6591120 TTACTATAGTAATTTTCGGGGTA
1 TTACAATAGTAATTTTCGAGATA
*
6591143 TTACAATAGTAATTTTTGAGATA
1 TTACAATAGTAATTTTCGAGATA
6591166 TTACA
1 TTACA
6591171 GGTGTGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (23 bp):
TTACAATAGTAATTTTCGAGATA
Found at i:6600564 original size:9 final size:9
Alignment explanation
Indices: 6600509--6600568 Score: 77
Period size: 9 Copynumber: 6.7 Consensus size: 9
6600499 TTTAGTTAAA
*
6600509 AATTAACCA
1 AATTAACCG
6600518 AATTAACCG
1 AATTAACCG
6600527 AATTAACC-
1 AATTAACCG
*
6600535 AACTTATCCG
1 AA-TTAACCG
6600545 AATTAACCG
1 AATTAACCG
*
6600554 AATTAATCG
1 AATTAACCG
6600563 AATTAA
1 AATTAA
6600569 ATCACTACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.91
10 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:6605146 original size:31 final size:31
Alignment explanation
Indices: 6605108--6605198 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
6605098 ACATTCTTGA
*
6605108 GGTTATTTCAGATTCTTGATCACCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
*
6605139 -GTGTATTT--TATTCTTGATCATCAAAACTT
1 GGT-TATTTCAGATTCTTGATCATCAAAACTT
*
6605168 GGTTCTTTCAGATTCTTGATCATCAAAACTT
1 GGTTATTTCAGATTCTTGATCATCAAAACTT
6605199 TTGTTGTGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
29 23 0.44
30 4 0.08
31 25 0.48
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (31 bp):
GGTTATTTCAGATTCTTGATCATCAAAACTT
Found at i:6605152 original size:29 final size:29
Alignment explanation
Indices: 6605119--6605198 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 29
6605109 GTTATTTCAG
*
6605119 ATTCTTGATCACCAAAACTTGTGTAT-TTT-
1 ATTCTTGATCATCAAAACTTG-GT-TCTTTA
6605148 ATTCTTGATCATCAAAACTTGGTTCTTTCA
1 ATTCTTGATCATCAAAACTTGGTTCTTT-A
6605178 GATTCTTGATCATCAAAACTT
1 -ATTCTTGATCATCAAAACTT
6605199 TTGTTGTGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 1 0.02
28 5 0.11
29 20 0.43
31 20 0.43
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (29 bp):
ATTCTTGATCATCAAAACTTGGTTCTTTA
Found at i:6611858 original size:17 final size:18
Alignment explanation
Indices: 6611838--6611885 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
6611828 AAAAACTTCT
6611838 AAAAATTCAAAAAT-TAA
1 AAAAATTCAAAAATGTAA
*
6611855 AAAAATT-AAAATTGTAA
1 AAAAATTCAAAAATGTAA
*
6611872 AAATATTCATAAAA
1 AAAAATTCA-AAAA
6611886 AATAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 5 0.20
17 16 0.64
18 1 0.04
19 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATTCAAAAATGTAA
Found at i:6611926 original size:18 final size:18
Alignment explanation
Indices: 6611903--6611937 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6611893 AAAATATTTT
* *
6611903 AAAAATTCACAAAAATAC
1 AAAAATACAAAAAAATAC
6611921 AAAAATACAAAAAAATA
1 AAAAATACAAAAAAATA
6611938 TTAAATTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAATACAAAAAAATAC
Found at i:6612020 original size:22 final size:24
Alignment explanation
Indices: 6611986--6612030 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
6611976 ATAAAATTTT
*
6611986 AAAAATTAAAAAGGTTA-TAAAAC
1 AAAAATTAAAAAGATTATTAAAAC
*
6612009 AAAAA-TAGAAAGATTATTAAAA
1 AAAAATTAAAAAGATTATTAAAA
6612031 TACAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (24 bp):
AAAAATTAAAAAGATTATTAAAAC
Found at i:6613555 original size:19 final size:17
Alignment explanation
Indices: 6613531--6613565 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
6613521 GAACATGTTA
6613531 TATATAAAGAAGAGAAAAT
1 TATATAAA-AAGA-AAAAT
6613550 TATATAAAAAGAAAAA
1 TATATAAAAAGAAAAA
6613566 GAGATAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (17 bp):
TATATAAAAAGAAAAAT
Found at i:6615730 original size:19 final size:20
Alignment explanation
Indices: 6615706--6615747 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6615696 AAGTAACTTA
6615706 TATATTAATTAAA-AATTAC
1 TATATTAATTAAATAATTAC
* *
6615725 TATATTTATTAAATATTTAC
1 TATATTAATTAAATAATTAC
6615745 TAT
1 TAT
6615748 TTTATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTAATTAAATAATTAC
Found at i:6616006 original size:44 final size:44
Alignment explanation
Indices: 6615938--6616046 Score: 164
Period size: 44 Copynumber: 2.5 Consensus size: 44
6615928 TGCTATTACA
* * *
6615938 ATTCTATTCCATTCAACCAAATACAACAATATTATTACAATTCT
1 ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
* *
6615982 ATTCCATTCCATTCAACTAAATACAATAATATTACTACAACTCT
1 ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
*
6616026 ATTCCATTCTATTCAACCAAA
1 ATTCCATTCCATTCAACCAAA
6616047 CAATTAAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (44 bp):
ATTCCATTCCATTCAACCAAATACAACAATATTACTACAACTCT
Found at i:6617647 original size:22 final size:21
Alignment explanation
Indices: 6617622--6617674 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6617612 ATTCAACTTC
*
6617622 TTTTATTTTTATCTTTTTTTTAT
1 TTTTATTTTT-TC-TTTTTTTAG
* *
6617645 TTTTCTTATTTCTTTTTTTAG
1 TTTTATTTTTTCTTTTTTTAG
6617666 TTTTATTTT
1 TTTTATTTT
6617675 ATTCGGTTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 15 0.60
22 2 0.08
23 8 0.32
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTATTTTTTCTTTTTTTAG
Found at i:6617896 original size:49 final size:49
Alignment explanation
Indices: 6617793--6617905 Score: 109
Period size: 49 Copynumber: 2.3 Consensus size: 49
6617783 CATTTTTATA
* * **
6617793 ATATATATATATACACGCATATACATATATATATCTTTATAACTTATTT
1 ATATGTATATATATACGCATATACATATATATATCTTTATAACTTACAT
* * * * * * *
6617842 GTATGTATATATATACTCATATTCTTATATATATGTTTTTAATTTACAT
1 ATATGTATATATATACGCATATACATATATATATCTTTATAACTTACAT
* *
6617891 ATATGTCTACATATA
1 ATATGTATATATATA
6617906 TCTATATACC
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.48
Consensus pattern (49 bp):
ATATGTATATATATACGCATATACATATATATATCTTTATAACTTACAT
Found at i:6630626 original size:9 final size:9
Alignment explanation
Indices: 6630597--6630641 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
6630587 AAGTTATATA
*
6630597 TATAAATAT
1 TATAATTAT
6630606 TAT-ATGTA-
1 TATAAT-TAT
6630614 TATAATTAT
1 TATAATTAT
6630623 TATAATTAT
1 TATAATTAT
6630632 TATAATTAT
1 TATAATTAT
6630641 T
1 T
6630642 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:6631005 original size:15 final size:17
Alignment explanation
Indices: 6630987--6631018 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6630977 CAGAATGGAA
6630987 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
6631002 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
6631019 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:6634062 original size:47 final size:47
Alignment explanation
Indices: 6633993--6634086 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
6633983 ATATCACCAC
6633993 GAGCAATAATATCACGAACAAAATGATACTGAACATCAATGTGTTTA
1 GAGCAATAATATCACGAACAAAATGATACTGAACATCAATGTGTTTA
6634040 GAGCAATAATATCACGAACAAAATGATACTGAACATCAATGTGTTTA
1 GAGCAATAATATCACGAACAAAATGATACTGAACATCAATGTGTTTA
6634087 TTCTCTCATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (47 bp):
GAGCAATAATATCACGAACAAAATGATACTGAACATCAATGTGTTTA
Found at i:6638922 original size:26 final size:26
Alignment explanation
Indices: 6638893--6638955 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
6638883 GGCCCGGCCC
* * *
6638893 ATTTTTAAAATAAACATTAAAAATTT
1 ATTTTTAAAATAAAAATAAAAAATAT
*
6638919 ATTTTAAAAATAAAAATAAAAAATAT
1 ATTTTTAAAATAAAAATAAAAAATAT
6638945 ATATTTTAAAA
1 AT-TTTTAAAA
6638956 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 24 0.77
27 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTTTTAAAATAAAAATAAAAAATAT
Found at i:6641173 original size:20 final size:21
Alignment explanation
Indices: 6641148--6641260 Score: 75
Period size: 20 Copynumber: 5.7 Consensus size: 21
6641138 CTCCAATATT
6641148 TTTTTGATA-TTCCTTCGTAA
1 TTTTTGATACTTCCTTCGTAA
*
6641168 TTTTTGATACATT-C-TCATAA
1 TTTTTGATAC-TTCCTTCGTAA
6641188 TTTTTG-TACTT-CTT-GTTAA
1 TTTTTGATACTTCCTTCG-TAA
* * * *
6641207 TTTTT-TTA-TTCCCTCATAG
1 TTTTTGATACTTCCTTCGTAA
*
6641226 TTTTTGATATTTCC-TCGT-A
1 TTTTTGATACTTCCTTCGTAA
6641245 TTTTATGATACTTCCT
1 TTTT-TGATACTTCCT
6641261 CATAATTATT
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
18 5 0.07
19 27 0.37
20 34 0.47
21 5 0.07
22 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.57
Consensus pattern (21 bp):
TTTTTGATACTTCCTTCGTAA
Found at i:6641181 original size:22 final size:18
Alignment explanation
Indices: 6641148--6641276 Score: 50
Period size: 20 Copynumber: 6.6 Consensus size: 18
6641138 CTCCAATATT
*
6641148 TTTTTGATATTCCTTCGTAA
1 TTTTTGATATT-C-TCATAA
6641168 TTTTTGATACATTCTCATAA
1 TTTTTGAT--ATTCTCATAA
**
6641188 TTTTTG-TACTTCTTGTTAA
1 TTTTTGATA-TTC-TCATAA
* *
6641207 TTTTT-TTATTCCCTCATAG
1 TTTTTGATATT--CTCATAA
*
6641226 TTTTTGATATTTCCTCGT-A
1 TTTTTGATA-TT-CTCATAA
6641245 TTTTATGATACTTCCTCATAA
1 TTTT-TGATA-TT-CTCATAA
6641266 TTATTTG-TATT
1 TT-TTTGATATT
6641277 GTTTCGAAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 25
0.70 0.09 0.20
Matches are distributed among these distances:
17 1 0.01
18 5 0.06
19 26 0.30
20 41 0.48
21 8 0.09
22 5 0.06
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTTTGATATTCTCATAA
Found at i:6641192 original size:40 final size:41
Alignment explanation
Indices: 6641148--6641274 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 41
6641138 CTCCAATATT
6641148 TTTTTGATA-TTCCTTCGTAATTTTTGATACATT-CTCATAA
1 TTTTTG-TACTTCCTTCGTAATTTTTGATACATTCCTCATAA
* *
6641188 TTTTTGTACTT-CTT-GTTAATTTTT--T-TATTCCCTCATAG
1 TTTTTGTACTTCCTTCG-TAATTTTTGATACATT-CCTCATAA
*
6641226 TTTTTGATATTTCC-TCGT-ATTTTATGATAC-TTCCTCATAA
1 TTTTTG-TACTTCCTTCGTAATTTT-TGATACATTCCTCATAA
6641266 TTATTTGTA
1 TT-TTTGTA
6641275 TTGTTTCGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
36 3 0.04
37 1 0.01
38 18 0.26
39 20 0.29
40 21 0.30
41 7 0.10
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (41 bp):
TTTTTGTACTTCCTTCGTAATTTTTGATACATTCCTCATAA
Found at i:6641210 original size:81 final size:75
Alignment explanation
Indices: 6641065--6641275 Score: 194
Period size: 81 Copynumber: 2.7 Consensus size: 75
6641055 AATTCTTTAG
* * ** *
6641065 ATTTTTTGGTATTCCCTCGTAATTTTTGGTACTTTCTCATGTTTTTTAGTATATCCTTTGATTTT
1 ATTTTTTGATATT-CCTCGTAATTTTTGATAC-TTCTCATAATTTTT-GTATATCCTTTAATTTT
6641130 TTGGTATTCTCC-AAT
63 TT--TATTC-CCTAAT
*
6641145 ATTTTTTTGATATTCCTTCGTAATTTTTGATACATTCTCATAATTTTTGTACT-TCTTGTTAATT
1 A-TTTTTTGATATTCC-TCGTAATTTTTGATAC-TTCTCATAATTTTTGTA-TATCCT-TTAATT
*
6641209 TTTTTATTCCCTCAT
61 TTTTTATTCCCTAAT
*
6641224 AGTTTTTGATATTTCCTCGT-ATTTTATGATACTTCCTCATAATTATTTGTAT
1 ATTTTTTGATA-TTCCTCGTAATTTT-TGATACTT-CTCATAATT-TTTGTAT
6641276 TGTTTCGAAA
Statistics
Matches: 113, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
77 7 0.06
78 31 0.27
79 18 0.16
80 9 0.08
81 48 0.42
ACGTcount: A:0.19, C:0.15, G:0.09, T:0.56
Consensus pattern (75 bp):
ATTTTTTGATATTCCTCGTAATTTTTGATACTTCTCATAATTTTTGTATATCCTTTAATTTTTTT
ATTCCCTAAT
Found at i:6641406 original size:21 final size:22
Alignment explanation
Indices: 6641357--6641398 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6641347 TTGGTACACC
6641357 CTCAT-AA-TTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6641377 CTCATAAATTTTTTTGTATGGT
1 CTCATAAATTTTTTTGTATGGT
6641399 TTTGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (22 bp):
CTCATAAATTTTTTTGTATGGT
Found at i:6641895 original size:56 final size:58
Alignment explanation
Indices: 6641804--6641915 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 58
6641794 TTTGAAAGCA
** *
6641804 TACCAAAAATTATTAGAGAATACCAAAAATAATGAGG-GAGTACTAAAAA-CATGGAG
1 TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGGAG
* * * *
6641860 TACCAAAAATTAAAAGGGAATGCCAATAATTATGAGGTGAGTACCAAAAAGCATGG
1 TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGG
6641916 GAGATTACCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
56 31 0.66
57 11 0.23
58 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (58 bp):
TACCAAAAATTAAAAGAGAATACCAAAAATAATGAGGTGAGTACCAAAAAGCATGGAG
Found at i:6643942 original size:26 final size:26
Alignment explanation
Indices: 6643912--6643961 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6643902 CCACTTAATC
*
6643912 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
6643938 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
6643962 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:6644115 original size:76 final size:76
Alignment explanation
Indices: 6643937--6644118 Score: 287
Period size: 77 Copynumber: 2.4 Consensus size: 76
6643927 AGCAACCCCT
** * *
6643937 TGGGGAATCAGCACATAGCAACCCCCTTTTTATTTCAGAGATACGGTGGATATCGCACTTAGCAC
1 TGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACGGTGGATATCGCACATAGCAC
6644002 CACCAATGAAC
66 CACCAATGAAC
6644013 TGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACGGTGGATATCGCACATAGCA
1 TGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACGGTGGATATCGCACATAGCA
6644078 CCACCAATGAA-
65 CCACCAATGAAC
*
6644089 TCGGGGAATCAGCACACAGCAA-CCCCTTTA
1 T-GGGGAATCAGCACATAGCAACCCCCTTTA
6644119 TGTACAACAT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
75 1 0.01
76 37 0.37
77 61 0.62
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (76 bp):
TGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACGGTGGATATCGCACATAGCAC
CACCAATGAAC
Found at i:6644477 original size:30 final size:29
Alignment explanation
Indices: 6644443--6644507 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
6644433 TAATCCACCA
6644443 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
6644473 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
6644503 CCCAA
1 CCCAA
6644508 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:6644481 original size:31 final size:30
Alignment explanation
Indices: 6644450--6644507 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6644440 CCACCCAACT
6644450 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
6644480 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
6644508 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:6645794 original size:33 final size:31
Alignment explanation
Indices: 6645739--6645964 Score: 152
Period size: 33 Copynumber: 6.9 Consensus size: 31
6645729 TCGTAATCAT
* * * *
6645739 TAGAGAAAGTTCGCTAGAACAGTAAATGCAAAA
1 TAGAGATAGTCCGTTAGGACAGTAAA--CAAAA
6645772 TAGAGATAG-CCTGTTAGGACAGTAAACATAGAA
1 TAGAGATAGTCC-GTTAGGACAGTAAACA-A-AA
* * *
6645805 CAGAGAAAGTCCGTTGGGACAGTAAACACAAAA
1 TAGAGATAGTCCGTTAGGACAGT-AA-ACAAAA
*
6645838 TAGAGATAGTCCGCTAGGACAGTAAACATAGAA
1 TAGAGATAGTCCGTTAGGACAGTAAACA-A-AA
* * * *
6645871 CAGAGAAAGTCCGTTAGGAAAATAAACAAAAAA
1 TAGAGATAGTCCGTTAGGACAGTAAAC--AAAA
*
6645904 TAGAGATAG-CCTGCTAGGACAGTAAA-AACAGA
1 TAGAGATAGTCC-GTTAGGACAGTAAACAA-A-A
* * *
6645936 GAAGAGATAGTTCGTTGGGACAGTAAACA
1 -TAGAGATAGTCCGTTAGGACAGTAAACA
6645965 CAGATAAAGT
Statistics
Matches: 152, Mismatches: 25, Indels: 31
0.73 0.12 0.15
Matches are distributed among these distances:
30 2 0.01
31 6 0.04
32 8 0.05
33 124 0.82
34 8 0.05
35 4 0.03
ACGTcount: A:0.46, C:0.14, G:0.24, T:0.17
Consensus pattern (31 bp):
TAGAGATAGTCCGTTAGGACAGTAAACAAAA
Found at i:6645846 original size:66 final size:66
Alignment explanation
Indices: 6645757--6645966 Score: 289
Period size: 66 Copynumber: 3.2 Consensus size: 66
6645747 GTTCGCTAGA
** *
6645757 ACAGTAAATGCAAAATAGAGATAGCCTGTTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
6645822 G
66 G
*
6645823 ACAGTAAACACAAAATAGAGATAGTCC-GCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTA
1 ACAGTAAACACAAAATAGAGATAG-CCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTG
6645887 GG
65 GG
* * * * * * *
6645889 AAAATAAACAAAAAATAGAGATAGCCTGCTAGGACAGTAAAAACAGAGA-AGAGATAGTTCGTTG
1 ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGA-ACAGAGAAAGTCCGTTG
6645953 GG
65 GG
6645955 ACAGTAAACACA
1 ACAGTAAACACA
6645967 GATAAAGTTC
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
65 2 0.02
66 121 0.96
67 3 0.02
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (66 bp):
ACAGTAAACACAAAATAGAGATAGCCTGCTAGGACAGTAAACATAGAACAGAGAAAGTCCGTTGG
G
Found at i:6645968 original size:33 final size:33
Alignment explanation
Indices: 6645773--6645968 Score: 191
Period size: 33 Copynumber: 5.9 Consensus size: 33
6645763 AATGCAAAAT
*
6645773 AGAGATAG-CCTGTTAGGACAGTAAACATAGAAC
1 AGAGATAGTCC-GTTAGGACAGTAAACACAGAAC
* * * *
6645806 AGAGAAAGTCCGTTGGGACAGTAAACACAAAAT
1 AGAGATAGTCCGTTAGGACAGTAAACACAGAAC
* *
6645839 AGAGATAGTCCGCTAGGACAGTAAACATAGAAC
1 AGAGATAGTCCGTTAGGACAGTAAACACAGAAC
* * * * * *
6645872 AGAGAAAGTCCGTTAGGAAAATAAACAAAAAAT
1 AGAGATAGTCCGTTAGGACAGTAAACACAGAAC
* *
6645905 AGAGATAG-CCTGCTAGGACAGTAAAAACAGAGA-
1 AGAGATAGTCC-GTTAGGACAGTAAACACAGA-AC
* *
6645938 AGAGATAGTTCGTTGGGACAGTAAACACAGA
1 AGAGATAGTCCGTTAGGACAGTAAACACAGA
6645969 TAAAGTTCGT
Statistics
Matches: 130, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
32 2 0.02
33 124 0.95
34 4 0.03
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.16
Consensus pattern (33 bp):
AGAGATAGTCCGTTAGGACAGTAAACACAGAAC
Found at i:6645976 original size:28 final size:28
Alignment explanation
Indices: 6645944--6646023 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 28
6645934 GAGAAGAGAT
*
6645944 AGTTCGTTGGGACAGTAAACACAGATAA
1 AGTTCGTCGGGACAGTAAACACAGATAA
* * * * * *
6645972 AGTTCGTCAGGACAATAGATACAGGTTA
1 AGTTCGTCGGGACAGTAAACACAGATAA
*
6646000 AGTTCGTCGGGAAAGTAAACACAG
1 AGTTCGTCGGGACAGTAAACACAG
6646024 GGTAAGCCCG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (28 bp):
AGTTCGTCGGGACAGTAAACACAGATAA
Found at i:6646024 original size:28 final size:28
Alignment explanation
Indices: 6645944--6646039 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
6645934 GAGAAGAGAT
* * * *
6645944 AGTTCGTTGGGACAGTAAACACAGATAA
1 AGTTCGTCGGGAAAGTAAACACAGGTTA
* * *
6645972 AGTTCGTCAGGACAA-TAGATACAGGTTA
1 AGTTCGTCGGGA-AAGTAAACACAGGTTA
*
6646000 AGTTCGTCGGGAAAGTAAACACAGGGTA
1 AGTTCGTCGGGAAAGTAAACACAGGTTA
**
6646028 AGCCCGTCGGGA
1 AGTTCGTCGGGA
6646040 CATGAGCATT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
27 2 0.04
28 50 0.94
29 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (28 bp):
AGTTCGTCGGGAAAGTAAACACAGGTTA
Found at i:6647604 original size:22 final size:21
Alignment explanation
Indices: 6647569--6647613 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6647559 AGATCGAATG
*
6647569 TGAAATCAATGGTTATATTTA
1 TGAAATCAATGGTTATATATA
* *
6647590 TGAAATGCTATGGTTTTATATA
1 TGAAAT-CAATGGTTATATATA
6647612 TG
1 TG
6647614 CTTAGATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (21 bp):
TGAAATCAATGGTTATATATA
Found at i:6649593 original size:24 final size:25
Alignment explanation
Indices: 6649557--6649626 Score: 88
Period size: 24 Copynumber: 2.8 Consensus size: 25
6649547 CTCTCTCTCA
* *
6649557 AGCACTATAACGGGAAGCTCAT-TG
1 AGCAATATAACGGGAAGCTCATCCG
** *
6649581 AGCCTTATAACGGGAAGCTTATCCG
1 AGCAATATAACGGGAAGCTCATCCG
6649606 AGCAATATAACGGGAAGCTCA
1 AGCAATATAACGGGAAGCTCA
6649627 CAAAGAGCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 19 0.50
25 19 0.50
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCAATATAACGGGAAGCTCATCCG
Found at i:6649774 original size:26 final size:25
Alignment explanation
Indices: 6649561--6649775 Score: 85
Period size: 25 Copynumber: 8.7 Consensus size: 25
6649551 CTCTCAAGCA
**
6649561 CTATAACGGGAAGCT--CATTGAGC
1 CTATAACGGGAAGCTCACAAAGAGC
* *
6649584 CTTATAACGGGAAGCTTATC--CGAGC
1 C-TATAACGGGAAGCTCA-CAAAGAGC
*
6649609 AATATAACGGGAAGCTCACAAAGAGC
1 -CTATAACGGGAAGCTCACAAAGAGC
*
6649635 CTATAAC-AGATAGCTC-CAAAGAG-
1 CTATAACGGGA-AGCTCACAAAGAGC
* * ** *
6649658 -TAATTAACGGGTAGCAC-CGGATAGC
1 CT-A-TAACGGGAAGCTCACAAAGAGC
* **
6649683 CATATAACGGGAAGTTCA-AGTGAG-
1 C-TATAACGGGAAGCTCACAAAGAGC
6649707 -TACTAACGGGAAGCTCACAAAGAGC
1 CTA-TAACGGGAAGCTCACAAAGAGC
* ** *
6649732 CTTTAATCAAGAAGCTCACGAAGAGC
1 CTATAA-CGGGAAGCTCACAAAGAGC
*
6649758 CATATAACGGGACGCTCA
1 C-TATAACGGGAAGCTCA
6649776 TAAGAGCTGC
Statistics
Matches: 142, Mismatches: 29, Indels: 39
0.68 0.14 0.19
Matches are distributed among these distances:
22 3 0.02
23 15 0.11
24 40 0.28
25 47 0.33
26 31 0.22
27 6 0.04
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (25 bp):
CTATAACGGGAAGCTCACAAAGAGC
Found at i:6652590 original size:29 final size:30
Alignment explanation
Indices: 6652520--6652593 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 30
6652510 TATCCAATGT
6652520 AACATCATTTACTTTAGATATTGAAAAAAAA
1 AACATCATTTACTTTAGATATT-AAAAAAAA
* * *
6652551 AACATAATTTACTTTGGATATT-AAAGAAA
1 AACATCATTTACTTTAGATATTAAAAAAAA
6652580 AACATCATTTACTT
1 AACATCATTTACTT
6652594 GAATATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 19 0.49
31 20 0.51
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (30 bp):
AACATCATTTACTTTAGATATTAAAAAAAA
Found at i:6655336 original size:2 final size:2
Alignment explanation
Indices: 6655329--6655353 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6655319 AACCTCTACC
6655329 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6655354 ATTCTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6659565 original size:41 final size:41
Alignment explanation
Indices: 6659471--6659616 Score: 193
Period size: 41 Copynumber: 3.5 Consensus size: 41
6659461 TTTAACATAT
** * *
6659471 TCACCGGCACTTAGCCTGCTAAACTTTACAGCCTGATTTAGA
1 TCACCGGCACTTAGCCTGCT-AGGTTTATAGCCTGATTCAGA
* * *
6659513 TCACCGACACTTAGTCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
* *
6659554 TCATCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
*
6659595 TCACCGGCACTTAGCCTACTAG
1 TCACCGGCACTTAGCCTGCTAG
6659617 ACTTAAAGTC
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 72 0.80
42 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAGCCTGATTCAGA
Found at i:6660093 original size:114 final size:114
Alignment explanation
Indices: 6659964--6660732 Score: 1424
Period size: 114 Copynumber: 6.8 Consensus size: 114
6659954 ACACATATAC
6659964 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6660029 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
6660078 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6660143 TACAATAGATATAC--ATGTATATATACATATTCGAACTTCATTTATGCAT
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATG--T
6660192 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6660257 TACAATAGATATAC--ATATATATATACATATTCGAACTTCATGTATGT
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
6660304 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6660369 TACAATAGATATAC--ATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
6660416 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6660481 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
6660530 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
* *
6660595 TACAATAGATATACATATATATGTATACATATTCGAACTTCATTTATGC
66 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
*
6660644 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6660709 TACAATATATATACATATATATAT
66 TACAATAGATATACATATATATAT
6660733 GTATATACTG
Statistics
Matches: 642, Mismatches: 9, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
112 222 0.35
114 420 0.65
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (114 bp):
ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGT
Found at i:6660282 original size:12 final size:12
Alignment explanation
Indices: 6660254--6660286 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6660244 AGCTCATCAA
6660254 ATATACA-ATAG
1 ATATACATATAG
*
6660265 ATATACATATAT
1 ATATACATATAG
6660277 ATATACATAT
1 ATATACATAT
6660287 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6660322 original size:226 final size:226
Alignment explanation
Indices: 6659964--6660732 Score: 1429
Period size: 226 Copynumber: 3.4 Consensus size: 226
6659954 ACACATATAC
6659964 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6660029 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
66 TACAATAGATATACA-ATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
6660094 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
130 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
*
6660159 GTATATATACATATTCGAACTTCATTTATGCAT
195 ATATATATACATATTCGAACTTCATTTATGC-T
6660192 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6660257 TACAATAGATATAC-ATATATATATACATATTCGAACTTCATGTATGTATATATATAACATTCAT
66 TACAATAGATATACAATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCAT
6660321 ACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATA
131 ACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATA
6660386 TATATATACATATTCGAACTTCATTTATG-T
196 TATATATACATATTCGAACTTCATTTATGCT
6660416 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
6660481 TACAATAGATATACATATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
66 TACAATAGATATACA-ATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCA
6660546 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
130 TACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACAT
6660611 ATATATGTATACATATTCGAACTTCATTTATGC-
195 ATATA--TATACATATTCGAACTTCATTTATGCT
*
6660644 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAACTCATCAAATA
1 ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
*
6660709 TACAATATATATAC-ATATATATAT
66 TACAATAGATATACAATATATATAT
6660733 GTATATACTG
Statistics
Matches: 531, Mismatches: 5, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
224 80 0.15
226 270 0.51
228 181 0.34
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (226 bp):
ATATATATAACATTCATACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATA
TACAATAGATATACAATATATATATACATATTCGAACTTCATTTATGTATATATATAACATTCAT
ACTTAACTAATTTCAATTCATATACTTTTAATTATAGCTCATCAAATATACAATAGATATACATA
TATATATACATATTCGAACTTCATTTATGCT
Found at i:6660394 original size:12 final size:12
Alignment explanation
Indices: 6660366--6660398 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6660356 AGCTCATCAA
6660366 ATATACA-ATAG
1 ATATACATATAG
*
6660377 ATATACATATAT
1 ATATACATATAG
6660389 ATATACATAT
1 ATATACATAT
6660399 TCGAACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
ATATACATATAG
Found at i:6673848 original size:13 final size:13
Alignment explanation
Indices: 6673824--6673864 Score: 73
Period size: 13 Copynumber: 3.1 Consensus size: 13
6673814 CGTTCATTTC
6673824 TTTTACTTTCTTCA
1 TTTTA-TTTCTTCA
6673838 TTTTATTTCTTCA
1 TTTTATTTCTTCA
6673851 TTTTATTTCTTCA
1 TTTTATTTCTTCA
6673864 T
1 T
6673865 AGATTATCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATTTCTTCA
Found at i:6677315 original size:59 final size:59
Alignment explanation
Indices: 6677247--6677435 Score: 204
Period size: 59 Copynumber: 3.2 Consensus size: 59
6677237 TGTGGGGGGA
*
6677247 ATTATATATTTTTATTAAATTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
* * ** * * * * * *
6677306 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
1 ATTATATATTTTTATTAAACTATATTTA-ATAAAAATTATTTTAA-ATT-A-TATTTTA-TAGT
*
6677367 ATTATATATTTTTATTAAACTATATTTAATAATAATTATTTTAAATTATATTTTATAGT
1 ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
6677426 ATTATATATT
1 ATTATATATT
6677436 ATGATTTTAG
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 42 0.41
60 14 0.14
61 32 0.31
62 7 0.07
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (59 bp):
ATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGT
Found at i:6677371 original size:61 final size:60
Alignment explanation
Indices: 6677306--6677491 Score: 200
Period size: 61 Copynumber: 3.1 Consensus size: 60
6677296 ATTTTATAGT
6677306 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
* * ** * * * * * *
6677367 ATTATATATTTTTATTAAACTATATTTA-ATAATAATTATTTTAA-ATT-ATATTTTA-TAGT
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAAATTTTATTA-A
*
6677426 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTAA
1 ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAA-AATTTTATTAA
6677487 ATTAT
1 ATTAT
6677492 GTTAAAATAT
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 32 0.33
60 14 0.14
61 37 0.38
62 7 0.07
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (60 bp):
ATTATATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAAATTTTATTAA
Found at i:6677375 original size:120 final size:120
Alignment explanation
Indices: 6677246--6677491 Score: 456
Period size: 120 Copynumber: 2.0 Consensus size: 120
6677236 ATGTGGGGGG
*
6677246 AATTATATATTTTTATTAAATTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
*
6677311 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
66 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
*
6677366 AATTATATATTTTTATTAAACTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
*
6677431 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
66 ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
6677486 AATTAT
1 AATTAT
6677492 GTTAAAATAT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (120 bp):
AATTATATATTTTTATTAAACTATATTTAATAAAAATTATTTTAAATTATATTTTATAGTATTAT
ATATTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAACAATTTTATTA
Found at i:6677466 original size:59 final size:59
Alignment explanation
Indices: 6677283--6677466 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 59
6677273 TAATAAAAAT
6677283 TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
* * * * ** * * * *
6677342 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAACTATATTTA-ATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
*
6677402 TTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
6677462 TATTT
1 TATTT
6677467 AATATTAACA
Statistics
Matches: 97, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
58 7 0.07
59 37 0.38
60 14 0.14
61 32 0.33
62 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCATATAAGAA
Found at i:6677727 original size:45 final size:44
Alignment explanation
Indices: 6677637--6677728 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
6677627 TTACACATCT
* * *
6677637 ATTCCATTCAATCAAACACAATAATACCATTACACTTCTATTCC
1 ATTCCATTCAACCAAACACAAGAATACCATTACACCTCTATTCC
*
6677681 ATTCCATTCAACCAAACA-AAGGATTACCTATTACACCTCTATTCC
1 ATTCCATTCAACCAAACACAA-GAATACC-ATTACACCTCTATTCC
6677726 ATT
1 ATT
6677729 ACAGCGAACC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 22 0.52
45 18 0.43
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACCATTACACCTCTATTCC
Found at i:6685777 original size:33 final size:33
Alignment explanation
Indices: 6685739--6685806 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
6685729 AATTAATGGG
6685739 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
*
6685772 AAAAGATGGTTTGGTAGATTAAGGTATGGGATA
1 AAAAGATGGTTTGATAGATTAAGGTATGGGATA
6685805 AA
1 AA
6685807 GTGGATTTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (33 bp):
AAAAGATGGTTTGATAGATTAAGGTATGGGATA
Found at i:6686777 original size:13 final size:13
Alignment explanation
Indices: 6686759--6686786 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6686749 TATTTTATAA
6686759 TTAATTAGAAAAT
1 TTAATTAGAAAAT
6686772 TTAATTAGAAAAT
1 TTAATTAGAAAAT
6686785 TT
1 TT
6686787 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAATTAGAAAAT
Found at i:6695785 original size:6 final size:6
Alignment explanation
Indices: 6695774--6695803 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
6695764 TCTTCATCAC
6695774 ATTAAG ATTAAG ATTAAG A-TAAG ATTAAG A
1 ATTAAG ATTAAG ATTAAG ATTAAG ATTAAG A
6695804 GTGTTTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (6 bp):
ATTAAG
Found at i:6695798 original size:11 final size:12
Alignment explanation
Indices: 6695774--6695803 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
6695764 TCTTCATCAC
6695774 ATTAAGATTAAG
1 ATTAAGATTAAG
6695786 ATTAAGA-TAAG
1 ATTAAGATTAAG
6695797 ATTAAGA
1 ATTAAGA
6695804 GTGTTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (12 bp):
ATTAAGATTAAG
Found at i:6697542 original size:27 final size:28
Alignment explanation
Indices: 6697503--6697556 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
6697493 TTTAAATGTG
*
6697503 AAGGGGATTGCTAAGTGCTGATTCCCCC
1 AAGGGGATTGCTAAATGCTGATTCCCCC
6697531 AAGGGG-TTGCTAAATGCTGATTCCCC
1 AAGGGGATTGCTAAATGCTGATTCCCC
6697557 GACTCATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (28 bp):
AAGGGGATTGCTAAATGCTGATTCCCCC
Found at i:6697577 original size:102 final size:102
Alignment explanation
Indices: 6697401--6697733 Score: 549
Period size: 102 Copynumber: 3.3 Consensus size: 102
6697391 ATTGAATAAA
* * *
6697401 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCTATTCAGTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
6697466 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* * *
6697503 AAGGGGATTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAATGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6697568 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
* *
6697605 AAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
**
6697670 GGTTGCTAAGTGCTGAACCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
*
6697707 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
6697734 GACTCATTGG
Statistics
Matches: 215, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 215 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
Found at i:6698951 original size:13 final size:13
Alignment explanation
Indices: 6698933--6698958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6698923 GTAAAGATTC
6698933 AAAAAAAAAATTA
1 AAAAAAAAAATTA
6698946 AAAAAAAAAATTA
1 AAAAAAAAAATTA
6698959 TAAGTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAAAAATTA
Found at i:6702533 original size:154 final size:151
Alignment explanation
Indices: 6702345--6703463 Score: 1369
Period size: 150 Copynumber: 7.3 Consensus size: 151
6702335 TTGGTGTGTT
* *
6702345 TTTTTATTGAAAGTAATAAAATCTGGTAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTA
1 TTTTTA-T-AAAGTAATAAAATCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTT-
* *
6702410 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAAGATAATATACTAAAATAATGTAAA
63 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
*
6702475 ATAATAAAATTAGAAAATATTATA
128 ATAATAAAATTAGAAAATAATATA
* *
6702499 TTTTTA-AAAGTAATAAAATTCGGGGGGAAAAATACGAACAAAAGGCCGAAATAATG-GTTTTTC
1 TTTTTATAAAGTAATAAAA-TC--GGGAAAAAATACGAACAAAGGGCCGAAATAA-GAGTTTTT-
* * *
6702562 TT-AAATTTATTT-AAAAACACAGTAAATTAATACATTTCAAACATAATGTATTAAAATAATGTA
61 TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
6702625 AAATAATAAAATTAGAAAATAATATA
126 AAATAATAAAATTAGAAAATAATATA
* * *
6702651 TTTTTATTGAAAGTAATAAAATTTGGG--AAAA-A--AATAAATGGCCGAAATAAG-GATTTTTT
1 TTTTTA-T-AAAGTAATAAAA-TCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTT
*
6702710 TAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAAAGTACTAAAATAATGTA
62 T-AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
*
6702775 AAATAATAAAATTATAAAATAATATA
126 AAATAATAAAATTAGAAAATAATATA
* * *
6702801 TTTTTATTGAAAGTAATAAAATCTGG-AAAAA-A--AATAAAGGGTCGAAATAAG-GATTTTTTT
1 TTTTTA-T-AAAGTAATAAAATCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTT
* * **
6702861 AAAAATTTATTTTAAAAACAGACTAAATGAATACATTTCAAACATAATGTACTAAAATAAAATAA
63 -AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
* *
6702926 AATTAGAAAATTAGAAAATAATATA
127 AATAATAAAATTAGAAAATAATATA
*
6702951 TTTTTATTGAAAGTAATAAAATCTGGGAAAAATATACGAACAAAGGGTCGAAATAATGA-TTTTT
1 TTTTTA-T-AAAGTAATAAAATC-GGGAAAAA-ATACGAACAAAGGGCCGAAATAA-GAGTTTTT
* * * *
6703015 TTAAAATTTATTTAAAAAATAAACTAAATGAATACATTTTAAACATAATGTACTAAAGTAATGTA
61 TTAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTA
6703080 AAATAATAAAATTAGAAAATAATATA
126 AAATAATAAAATTAGAAAATAATATA
* * *
6703106 TTTTTATTGAAAATAATAAAATCTGAGAAAAAATACGAACAAAGAGCCGAAATAA-AGATTTTTT
1 TTTTTA-T-AAAGTAATAAAATC-GGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTT
* * * * * *
6703170 T-AAATTTATTTAAAAAACATAGTAAATTAATAAATTTCAAATATAATGTACTAAAATAATGTCA
62 TAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
6703234 AATAATAAAA-TATGAAAATAATATA
127 AATAATAAAATTA-GAAAATAATATA
* *
6703259 TTTTTATTGAAAGTAATAAAATCCGGAAAAAATACGTACAAAGGGCCGAAATAAGAGTTTTTTTT
1 TTTTTA-T-AAAGTAATAAAATCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAG-TTTTTTT
* **
6703324 TAAATTTAAATAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
63 AAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* * *
6703389 AAAATAAATTTAGAAAATAGTATA
128 ATAATAAAATTAGAAAATAATATA
* * * *
6703413 TTTTT-TAAAAGTAATAAAATCCGAAAAAAATATGAACAAAGGGCCAAAATA
1 TTTTTAT-AAAGTAATAAAATCGGGAAAAAATACGAACAAAGGGCCGAAATA
6703464 CGAACAATTG
Statistics
Matches: 863, Mismatches: 75, Indels: 56
0.87 0.08 0.06
Matches are distributed among these distances:
147 4 0.00
148 21 0.02
149 13 0.02
150 230 0.27
151 18 0.02
152 154 0.18
153 121 0.14
154 148 0.17
155 129 0.15
156 24 0.03
157 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (151 bp):
TTTTTATAAAGTAATAAAATCGGGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTTTTTAAA
ATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATA
ATAAAATTAGAAAATAATATA
Found at i:6703807 original size:23 final size:23
Alignment explanation
Indices: 6703753--6703797 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6703743 AATTATGATA
6703753 AATTATTTAAATATTTAAATATAT
1 AATT-TTTAAATATTTAAATATAT
6703777 AATTTTTAAAT-TTTAAA-ATAT
1 AATTTTTAAATATTTAAATATAT
6703798 TATCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 6 0.29
23 7 0.33
24 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTTTAAATATTTAAATATAT
Found at i:6709897 original size:4 final size:4
Alignment explanation
Indices: 6709888--6709912 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6709878 CCATATGCAA
6709888 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
6709913 TCGTCCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6711165 original size:5 final size:6
Alignment explanation
Indices: 6711147--6711177 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6711137 CACTTCAACA
6711147 TAAAAT TAAAAT T-AAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TA
6711178 GATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:6711165 original size:11 final size:11
Alignment explanation
Indices: 6711149--6711173 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6711139 CTTCAACATA
6711149 AAATTAAAATT
1 AAATTAAAATT
6711160 AAATTAAAATT
1 AAATTAAAATT
6711171 AAA
1 AAA
6711174 ATTAGATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:6729320 original size:23 final size:23
Alignment explanation
Indices: 6729293--6729337 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6729283 GTTACTATTA
6729293 TTTATTT-AATTTAATAAAAATAG
1 TTTATTTAAATTT-ATAAAAATAG
*
6729316 TTTATTTAAATTTATAACAATA
1 TTTATTTAAATTTATAAAAATA
6729338 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTATTTAAATTTATAAAAATAG
Found at i:6729465 original size:20 final size:22
Alignment explanation
Indices: 6729442--6729489 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
6729432 AATTTTTTAC
6729442 CTTTTGTTT-ATTTTTTCT-TT
1 CTTTTGTTTAATTTTTTCTATT
* *
6729462 CTTTTTTTTCAATTTTTTTTATT
1 CTTTTGTTT-AATTTTTTCTATT
6729485 CTTTT
1 CTTTT
6729490 CACTTAAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.79
Consensus pattern (22 bp):
CTTTTGTTTAATTTTTTCTATT
Found at i:6730002 original size:105 final size:105
Alignment explanation
Indices: 6729868--6730167 Score: 440
Period size: 105 Copynumber: 2.9 Consensus size: 105
6729858 AAATAAAATT
* *
6729868 CGTGATAGTGTTACCGTTAATTAACAAAATAAAATTATAATTTAAATTACTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* * **
6729933 TCTTTGAAAAGGAGATATTGTAAGCTTTCTTTAATTTGAA
66 TCTCTGAAAATGAGATATTGTAAGCTGACTTTAATTTGAA
* *
6729973 CGTGATAGTATCACTGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
1 CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
* * *
6730038 TCTCTGAAAATAAGATATTGTAAACTGACTTTTATTTGAA
66 TCTCTGAAAATGAGATATTGTAAGCTGACTTTAATTTGAA
* * *
6730078 -GATGATAGTATTACCGTTAATTAATAAAATAAAATTATAATTTAAATCATTAATTCGTTTTTGT
1 CG-TGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGT
* *
6730142 TTCTCTGGAAATGAGATGTTGTAAGC
65 TTCTCTGAAAATGAGATATTGTAAGC
6730168 CTTTTTTTTT
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
104 1 0.01
105 173 0.99
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (105 bp):
CGTGATAGTATTACCGTTAATTAACAAAATAAAATTATAATTTAAATTATTAATTCTTTTTTGTT
TCTCTGAAAATGAGATATTGTAAGCTGACTTTAATTTGAA
Found at i:6739233 original size:19 final size:19
Alignment explanation
Indices: 6739206--6739245 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6739196 GTCCAAGTGT
* *
6739206 ATAACTAGTATTACACTAC
1 ATAACTAGTACTACACCAC
*
6739225 ATAATTAGTACTACACCAC
1 ATAACTAGTACTACACCAC
6739244 AT
1 AT
6739246 TAAAGCATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:6741219 original size:22 final size:22
Alignment explanation
Indices: 6741194--6741235 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6741184 CCATTAGTTG
6741194 CTACAA-CCATTCAACAAAACTA
1 CTACAAGCC-TTCAACAAAACTA
6741216 CTACAAGCCTTCAACAAAAC
1 CTACAAGCCTTCAACAAAAC
6741236 ACAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (22 bp):
CTACAAGCCTTCAACAAAACTA
Found at i:6741290 original size:30 final size:31
Alignment explanation
Indices: 6741214--6741283 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
6741204 TCAACAAAAC
6741214 TACTACAAGC-CTTCAACAAAACACAAAAATT
1 TACTACAA-CACTTCAACAAAACACAAAAATT
* *
6741245 TACTACAACACTTCAATAAAACACACAAA-T
1 TACTACAACACTTCAACAAAACACAAAAATT
*
6741275 TGCTACAAC
1 TACTACAAC
6741284 TGTTCAACTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.50, C:0.27, G:0.03, T:0.20
Consensus pattern (31 bp):
TACTACAACACTTCAACAAAACACAAAAATT
Found at i:6741359 original size:28 final size:28
Alignment explanation
Indices: 6741308--6741375 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
6741298 ATATAAAAGT
6741308 CTGGTGCCGCCTAACAGCATCCCTCCTA
1 CTGGTGCCGCCTAACAGCATCCCTCCTA
* * *
6741336 CTGGTGCTGCCTGACA-CATGCCCTCCAA
1 CTGGTGCCGCCTAACAGCAT-CCCTCCTA
6741364 GCTTGGTGCCGC
1 -C-TGGTGCCGC
6741376 TAGTAACTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 21 0.64
29 1 0.03
30 8 0.24
ACGTcount: A:0.15, C:0.40, G:0.24, T:0.22
Consensus pattern (28 bp):
CTGGTGCCGCCTAACAGCATCCCTCCTA
Found at i:6742654 original size:29 final size:30
Alignment explanation
Indices: 6742601--6742657 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6742591 ACAGGGATTA
*
6742601 GATTAAATTAGTTTTGTATACTATTAAATG
1 GATTAAATTAGTCTTGTATACTATTAAATG
* *
6742631 GATTAATTTAGTCTT-TATATTATTAAA
1 GATTAAATTAGTCTTGTATACTATTAAA
6742658 AAGAATCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.49
Consensus pattern (30 bp):
GATTAAATTAGTCTTGTATACTATTAAATG
Found at i:6752582 original size:11 final size:11
Alignment explanation
Indices: 6752562--6752591 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6752552 TTATATAAAG
6752562 CTTCCCTTTCC
1 CTTCCCTTTCC
*
6752573 CTTCCTTTTCC
1 CTTCCCTTTCC
6752584 CTTCCCTT
1 CTTCCCTT
6752592 ACTCTGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CTTCCCTTTCC
Found at i:6753461 original size:21 final size:22
Alignment explanation
Indices: 6753418--6753461 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6753408 ATGTATATTT
*
6753418 TGTTACATTAATGTTTTTAAAA
1 TGTTACATTAATGTTTATAAAA
*
6753440 TGTTATATTAAT-TTTATAAAA
1 TGTTACATTAATGTTTATAAAA
6753461 T
1 T
6753462 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
TGTTACATTAATGTTTATAAAA
Found at i:6770379 original size:35 final size:35
Alignment explanation
Indices: 6770340--6770410 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
6770330 TTCCCATTTA
6770340 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
6770375 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
1 AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
6770410 A
1 A
6770411 TCTTCTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (35 bp):
AGTACAAAACATGTGTATGCTTTGCCATTCATCTT
Found at i:6772152 original size:13 final size:14
Alignment explanation
Indices: 6772134--6772174 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
6772124 TTTTCAAAGA
6772134 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
6772147 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
6772161 TACGGTTTA-GACT
1 TATGGTTTAGGACT
6772174 T
1 T
6772175 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:6772265 original size:25 final size:26
Alignment explanation
Indices: 6772231--6772282 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
6772221 TTGTTTGTGG
** *
6772231 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
6772257 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
6772282 T
1 T
6772283 GTGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:6773617 original size:16 final size:16
Alignment explanation
Indices: 6773596--6773627 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6773586 ACTTAGTAAT
6773596 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
6773612 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
6773628 GAAATAAATA
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:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:6775027 original size:47 final size:47
Alignment explanation
Indices: 6774958--6775051 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
6774948 TGCTTCGATT
*
6774958 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
6775005 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
6775052 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:6775557 original size:9 final size:9
Alignment explanation
Indices: 6775543--6775964 Score: 141
Period size: 9 Copynumber: 46.6 Consensus size: 9
6775533 ATTAATATTA
*
6775543 TACATAAAT
1 TACATAACT
6775552 TACATAACT
1 TACATAACT
6775561 TA-ATTAA-T
1 TACA-TAACT
*
6775569 TA-AT-ATT
1 TACATAACT
6775576 ATACATAACT
1 -TACATAACT
*
6775586 TATATAACT
1 TACATAACT
6775595 TAC--AACT
1 TACATAACT
6775602 TACATAACT
1 TACATAACT
*
6775611 TACATTAATATT
1 TACA-T-A-ACT
* *
6775623 ATATATAAAT
1 -TACATAACT
6775633 TACATAACT
1 TACATAACT
*
6775642 TACATTAATATT
1 TACA-T-A-ACT
*
6775654 ATACATAAAT
1 -TACATAACT
6775664 TACATAACT
1 TACATAACT
6775673 TA-ATTAA-T
1 TACA-TAACT
*
6775681 TA-AT-ATT
1 TACATAACT
6775688 ATACATAACT
1 -TACATAACT
*
6775698 TACCTAACT
1 TACATAACT
6775707 TA-ATTAA-T
1 TACA-TAACT
*
6775715 TA-AT-ATT
1 TACATAACT
6775722 ATACATAACT
1 -TACATAACT
6775732 TAC--AACT
1 TACATAACT
6775739 TACATAACT
1 TACATAACT
*
6775748 TACATTAATAT
1 TACA-TAA-CT
*
6775759 TACACATAAAT
1 T--ACATAACT
6775770 TACATAACT
1 TACATAACT
6775779 TACATTAA--
1 TACA-TAACT
6775787 TACATAACT
1 TACATAACT
6775796 T--A-AA-T
1 TACATAACT
6775801 TACATAACT
1 TACATAACT
6775810 TA-ATTAA-T
1 TACA-TAACT
6775818 TA-AT-A-T
1 TACATAACT
6775824 TACACATAACT
1 T--ACATAACT
6775835 TAC--AACT
1 TACATAACT
6775842 TACATAACT
1 TACATAACT
*
6775851 TACATTAATATT
1 TACA-T-A-ACT
*
6775863 ATACATAAAT
1 -TACATAACT
*
6775873 TACATGACT
1 TACATAACT
*
6775882 TACATTAATATT
1 TACA-T-A-ACT
*
6775894 ATACATAAAT
1 -TACATAACT
6775904 TACATAACT
1 TACATAACT
6775913 TAC--AACT
1 TACATAACT
6775920 TACATAACT
1 TACATAACT
*
6775929 TACATTAATATT
1 TACA-T-A-ACT
*
6775941 ATACATAAAT
1 -TACATAACT
6775951 TACATAACT
1 TACATAACT
6775960 TACAT
1 TACAT
6775965 TAATACGATA
Statistics
Matches: 324, Mismatches: 29, Indels: 120
0.68 0.06 0.25
Matches are distributed among these distances:
5 2 0.01
6 8 0.02
7 40 0.12
8 32 0.10
9 158 0.49
10 28 0.09
11 16 0.05
12 18 0.06
13 22 0.07
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:6775601 original size:16 final size:16
Alignment explanation
Indices: 6775582--6775614 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6775572 TATTATACAT
*
6775582 AACTTATATAACTTAC
1 AACTTACATAACTTAC
6775598 AACTTACATAACTTAC
1 AACTTACATAACTTAC
6775614 A
1 A
6775615 TTAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:6775636 original size:31 final size:31
Alignment explanation
Indices: 6775601--6775916 Score: 310
Period size: 31 Copynumber: 9.5 Consensus size: 31
6775591 AACTTACAAC
*
6775601 TTACATAACTTACATTAATATTATATATAAA
1 TTACATAACTTACATTAATATTATACATAAA
6775632 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
6775663 TTACATAACTTAATTAATTAATATTATACATAAC
1 TTACATAACTT-A--CATTAATATTATACATAAA
* *
6775697 TTACCTAACTTAATTAATTAATATTATACATAACTTACAA
1 TTACATAACTT-A--CATTAATATTATAC---A--TA-AA
*
6775737 CTTACATAACTTACATTAATATTACACATAAA
1 -TTACATAACTTACATTAATATTATACATAAA
* *
6775769 TTACATAACTTACATTAATA-CATAACTTAAA
1 TTACATAACTTACATTAATATTAT-ACATAAA
* *
6775800 TTACATAACTTAATTAATTAATATTACACATAACTTACAA
1 TTACATAACTT-A--CATTAATATT----AT-ACATA-AA
6775840 CTTACATAACTTACATTAATATTATACATAAA
1 -TTACATAACTTACATTAATATTATACATAAA
*
6775872 TTACATGACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
6775903 TTACATAACTTACA
1 TTACATAACTTACA
6775917 ACTTACATAA
Statistics
Matches: 247, Mismatches: 17, Indels: 42
0.81 0.06 0.14
Matches are distributed among these distances:
30 1 0.00
31 121 0.49
32 6 0.02
33 6 0.02
34 54 0.22
35 1 0.00
37 1 0.00
38 21 0.09
39 10 0.04
40 5 0.02
41 21 0.09
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATACATAAA
Found at i:6775800 original size:137 final size:140
Alignment explanation
Indices: 6775589--6775968 Score: 493
Period size: 137 Copynumber: 2.7 Consensus size: 140
6775579 CATAACTTAT
* *
6775589 ATAACTTACAACTTACATAACTTACATTAATATTATATATAAATTACATAACTTACATTAATATT
1 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATAAT
* *
6775654 ATACATAAATTACATAACTTAATTAATTAATATTATACATAACTTAC-CTAACTTAA-TTA-ATT
66 ATACATAAATTACATAACTTAATTAATTAATATTACACATAACTTACACTAACATAACTTACATT
6775716 AATATTATAC
131 AATATTATAC
*
6775726 ATAACTTACAACTTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATACA
1 ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATA-A
* *
6775791 TA-ACTTAAATTACATAACTTAATTAATTAATATTACACATAACTTACAACTTACATAACTTACA
65 TATACATAAATTACATAACTTAATTAATTAATATTACACATAACTTAC-ACTAACATAACTTACA
6775855 TTAATATTATAC
129 TTAATATTATAC
* * *
6775867 ATAAATTACATGACTTACATTAATATTATACA-TAA-ATTACATAACTTACAACTTACATAACTT
1 ATAACTTACA--ACTTACA-T-A-ACT-TACATTAATATT--AT-ACATA-AA-TTACATAACTT
*
6775930 ACATTAATATTATACATAAATTACATAACTTACATTAAT
55 ACATTAATAATATACATAAATTACATAACTTA-ATTAAT
6775969 ACGATATAAC
Statistics
Matches: 212, Mismatches: 13, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
137 104 0.49
138 2 0.01
139 7 0.03
140 3 0.01
141 22 0.10
143 7 0.03
144 1 0.00
145 4 0.02
146 5 0.02
147 5 0.02
148 4 0.02
149 4 0.02
150 38 0.18
151 6 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (140 bp):
ATAACTTACAACTTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATAAT
ATACATAAATTACATAACTTAATTAATTAATATTACACATAACTTACACTAACATAACTTACATT
AATATTATAC
Found at i:6775840 original size:103 final size:103
Alignment explanation
Indices: 6775632--6775914 Score: 444
Period size: 103 Copynumber: 2.7 Consensus size: 103
6775622 TATATATAAA
6775632 TTACATAACTTACATTAATATTATACATAAATTACATAACTTA-ATTAATTAATATTATACATAA
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAA-T-A-A-TATACATAA
* * *
6775696 CTTACCTAACTTAATTAATTAATATTATACATAACTTACAAC
62 ATTACATAACTTAATTAATTAATATTACACATAACTTACAAC
* *
6775738 TTACATAACTTACATTAATATTACACATAAATTACATAACTTACATTAATACATA-ACTTAAATT
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATA-ATATACATAAATT
6775802 ACATAACTTAATTAATTAATATTACACATAACTTACAAC
65 ACATAACTTAATTAATTAATATTACACATAACTTACAAC
* *
6775841 TTACATAACTTACATTAATATTATACATAAATTACATGACTTACATTAATATTATACATAAATTA
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATAATATACATAAATTA
6775906 CATAACTTA
66 CATAACTTA
6775915 CAACTTACAT
Statistics
Matches: 165, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
102 2 0.01
103 111 0.67
104 2 0.01
105 2 0.01
106 43 0.26
107 5 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (103 bp):
TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATAATATACATAAATTA
CATAACTTAATTAATTAATATTACACATAACTTACAAC
Found at i:6775932 original size:78 final size:75
Alignment explanation
Indices: 6775769--6775969 Score: 284
Period size: 78 Copynumber: 2.7 Consensus size: 75
6775759 TACACATAAA
* * * *
6775769 TTACATAACTTACATTAATA-CATAACTTAAATTACATAACTTA-ATT-A-ATTAATATTACACA
1 TTACATAACTTACATTAATATTAT-ACATAAATTACATAACTTACATTAATATTAACATAACACA
6775830 TAACTTACAAC
65 TAACTTACAAC
* *
6775841 TTACATAACTTACATTAATATTATACATAAATTACATGACTTACATTAATATTATACATAAATTA
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTA-ACAT-AA-CA
6775906 CATAACTTACAAC
63 CATAACTTACAAC
6775919 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATA
1 TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATA
6775970 CGATATAACT
Statistics
Matches: 115, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
72 37 0.32
73 5 0.04
74 1 0.01
75 4 0.03
76 3 0.03
77 1 0.01
78 64 0.56
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.37
Consensus pattern (75 bp):
TTACATAACTTACATTAATATTATACATAAATTACATAACTTACATTAATATTAACATAACACAT
AACTTACAAC
Found at i:6781632 original size:21 final size:21
Alignment explanation
Indices: 6781606--6781656 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
6781596 ATACAACTTA
* *
6781606 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
6781627 AAGCAGAGGTAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
6781648 AAGCTGAGG
1 AAGCAGAGG
6781657 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:6781652 original size:87 final size:87
Alignment explanation
Indices: 6781555--6781722 Score: 250
Period size: 87 Copynumber: 1.9 Consensus size: 87
6781545 GAGGCAACAT
*
6781555 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG-ATACAACTTAAAGCAGATGCGG
1 CGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAGCA-ACAACTTAAAGCAGATGCGA
6781618 CAGCGAGAGAAGCAGAGGTAGCAG
64 CAGCGAGAGAAGCAGAGGTAGCAG
* * * * *
6781642 CGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAGCAGCTTAAAGTAGATGTGACA
1 CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTTAAAGCAGATGCGACA
6781707 GCGAGAGAAGCAGAGG
66 GCGAGAGAAGCAGAGG
6781723 CTAAAGCGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 68 0.93
88 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.31, T:0.13
Consensus pattern (87 bp):
CGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGCAACAACTTAAAGCAGATGCGACA
GCGAGAGAAGCAGAGGTAGCAG
Found at i:6781657 original size:21 final size:21
Alignment explanation
Indices: 6781617--6781657 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6781607 AGCAGATGCG
6781617 GCAGCGAGAGAAGCAGAGGTA
1 GCAGCGAGAGAAGCAGAGGTA
*
6781638 GCAGCGAGAGAAGCTGAGGT
1 GCAGCGAGAGAAGCAGAGGT
6781658 TCAACGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.44, T:0.07
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGTA
Found at i:6781732 original size:21 final size:21
Alignment explanation
Indices: 6781706--6781745 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6781696 TAGATGTGAC
6781706 AGCGAGAGAAGCAGAGGCTAA
1 AGCGAGAGAAGCAGAGGCTAA
* *
6781727 AGCGAGGGAAGTAGAGGCT
1 AGCGAGAGAAGCAGAGGCT
6781746 GCAGTGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTAA
Found at i:6782128 original size:43 final size:43
Alignment explanation
Indices: 6782067--6782326 Score: 325
Period size: 43 Copynumber: 6.1 Consensus size: 43
6782057 CAAAATTAGC
* *
6782067 GGCGTTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * **
6782110 GGCGTTTTTCGCCTAAGCGCCGCTAAAGGTCATGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
6782153 GGCGTTTTTTGGTTAAGCGCCGCTAAAGACCATCGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
6782196 GGCGTTTTTTG-GTAAGCGCTGCTAAAGA-CACGGTCTATAGT
1 GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
6782237 GGCGTTTTGTT--TTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTT-TTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
6782279 GGCGTTTTTAT--TTAAGCGCCACTACAGACCATGGTTTATAGC
1 GGCGTTTTT-TGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
6782321 GGCGTT
1 GGCGTT
6782327 GTAAAAAAAA
Statistics
Matches: 192, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
41 35 0.18
42 71 0.37
43 86 0.45
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
GGCGTTTTTTGCTTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:6783964 original size:41 final size:44
Alignment explanation
Indices: 6783894--6784026 Score: 123
Period size: 45 Copynumber: 3.0 Consensus size: 44
6783884 ATGCTATCTC
* * *
6783894 ATATCGATTCCA-CTGTCCCGGACAGGGTCTTACACGAATCA-A-
1 ATATCGATGCCATC-GTCCCAGACATGGTCTTACACGAATCACAT
*
6783936 ATA-CGATGCCAAT-GTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCC-ATCGTCCCAGACATGGTCTTACACG-AATCACAT
* * * *
6783980 ATATCGATTCCATCGTCCCAGACGTAGTCTTACACGAGAACACAT
1 ATATCGATGCCATCGTCCCAGACATGGTCTTACACGA-ATCACAT
6784025 AT
1 AT
6784027 CGAAAATCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
41 25 0.34
42 9 0.12
43 1 0.01
44 6 0.08
45 33 0.45
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (44 bp):
ATATCGATGCCATCGTCCCAGACATGGTCTTACACGAATCACAT
Found at i:6784012 original size:45 final size:42
Alignment explanation
Indices: 6783865--6784016 Score: 125
Period size: 41 Copynumber: 3.6 Consensus size: 42
6783855 ACAATGCCAA
* * **
6783865 CGTCCCAGACG-GGTCTTACATGCTATCTCATATCGATTCCA-
1 CGTCCCAGACGTGGTCTTACACG-AATCAAATATCGATTCCAT
* *
6783906 CTGTCCCGGACAG-GGTCTTACACGAATCAAATA-CGATGCCAAT
1 C-GTCCCAGAC-GTGGTCTTACACGAATCAAATATCGATTCC-AT
* *
6783949 -GTCCTAGACATGGTCTTACACGTAATCACATATATCGATTCCAT
1 CGTCCCAGACGTGGTCTTACACG-AATCA-A-ATATCGATTCCAT
*
6783993 CGTCCCAGACGTAGTCTTACACGA
1 CGTCCCAGACGTGGTCTTACACGA
6784017 GAACACATAT
Statistics
Matches: 88, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 25 0.28
42 20 0.23
43 12 0.14
44 6 0.07
45 25 0.28
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (42 bp):
CGTCCCAGACGTGGTCTTACACGAATCAAATATCGATTCCAT
Found at i:6793181 original size:16 final size:16
Alignment explanation
Indices: 6793160--6793201 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6793150 AATAATTTGA
*
6793160 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6793176 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6793192 TAGTTTTAAT
1 TAATTTTAAT
6793202 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6795008 original size:3 final size:3
Alignment explanation
Indices: 6795000--6795046 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
6794990 AATAAAACTG
* * *
6795000 ATA ATA ATAA ATA GTA ATA ATA ATA ATA ACA ATA AT- ATA AAA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6795045 AT
1 AT
6795047 TAATTAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:6804767 original size:96 final size:91
Alignment explanation
Indices: 6804595--6804780 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 91
6804585 AAAAAAGATA
* *
6804595 GTAGGTACCAAATTAAAAAAAAGAGTCAAATTTAGGTACTAAATTGGACCCCAAAAAAGATTAAA
1 GTAGGTACCAAATTAAAAAAAAGAGTCAAATTTAGGTACCAAATTGGACCCAAAAAAAGATTAAA
* *
6804660 TACTAACTTAAGAAAAAGTGTCAAGT
66 TACCAAATTAAGAAAAAGTGTCAAGT
* * * *
6804686 GTAGGTATCAAATTCAAAAAAAAAGTAATGTCAAGTTTGGGTACCAAATTGGA-CTAAAAAAATG
1 GTAGGTACCAAATT--AAAAAAAAG--A-GTCAAATTTAGGTACCAAATTGGACCCAAAAAAA-G
* *
6804750 TTTAGATACCAAATTAAGAAAAAGTGTCAAG
60 ATTAAATACCAAATTAAGAAAAAGTGTCAAG
6804781 ATCAAGTACA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
91 13 0.16
93 9 0.11
95 8 0.10
96 49 0.62
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (91 bp):
GTAGGTACCAAATTAAAAAAAAGAGTCAAATTTAGGTACCAAATTGGACCCAAAAAAAGATTAAA
TACCAAATTAAGAAAAAGTGTCAAGT
Found at i:6807483 original size:25 final size:26
Alignment explanation
Indices: 6807454--6807510 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
6807444 AAAATTTCCA
6807454 ATATCA-TACCAAAATATT-TAACGTT
1 ATATCAGTACCAAAAT-TTATAACGTT
* *
6807479 ATATCAGTACTAAAATTTATAATGTT
1 ATATCAGTACCAAAATTTATAACGTT
6807505 ATATCA
1 ATATCA
6807511 AAATTTCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (26 bp):
ATATCAGTACCAAAATTTATAACGTT
Found at i:6810029 original size:26 final size:26
Alignment explanation
Indices: 6810000--6810078 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 26
6809990 TACATAAAAG
*
6810000 ATGCATATATATATTATAAAAAAACC
1 ATGCATATATATATTATATAAAAACC
* *
6810026 ATGC-GA-GTATATTATATAAAAA-C
1 ATGCATATATATATTATATAAAAACC
*
6810049 ATGCATATATATATTATATAAAAACA
1 ATGCATATATATATTATATAAAAACC
6810075 ATGC
1 ATGC
6810079 GTGTATGAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.11
24 15 0.34
25 16 0.36
26 8 0.18
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (26 bp):
ATGCATATATATATTATATAAAAACC
Found at i:6810046 original size:25 final size:25
Alignment explanation
Indices: 6810009--6810084 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 25
6809999 GATGCATATA
6810009 TATATTATA-AAAAAACCATGCGAG
1 TATATTATATAAAAAACCATGCGAG
6810033 TATATTATAT-AAAAA-CATGC-A-
1 TATATTATATAAAAAACCATGCGAG
* *
6810054 TATATATATTATATAAAAACAATGCGTG
1 TATAT-TA-TATA-AAAAACCATGCGAG
6810082 TAT
1 TAT
6810085 GAATATAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
21 5 0.12
22 3 0.07
23 8 0.19
24 14 0.33
25 5 0.12
26 4 0.10
28 3 0.07
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (25 bp):
TATATTATATAAAAAACCATGCGAG
Found at i:6810091 original size:25 final size:23
Alignment explanation
Indices: 6810009--6810091 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 23
6809999 GATGCATATA
* * *
6810009 TATATTATAAAAAAACCATGCGAG
1 TATAATATATAAAAA-CATGCGTG
* * *
6810033 TATATTATATAAAAACATGCATA
1 TATAATATATAAAAACATGCGTG
6810056 TATATATTATATAAAAACAATGCGTG
1 TATA-A-TATATAAAAAC-ATGCGTG
6810082 TATGAATATA
1 TAT-AATATA
6810092 GAAATAATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.19
24 14 0.29
25 15 0.31
26 9 0.19
27 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (23 bp):
TATAATATATAAAAACATGCGTG
Found at i:6811649 original size:45 final size:45
Alignment explanation
Indices: 6811579--6812248 Score: 679
Period size: 45 Copynumber: 15.0 Consensus size: 45
6811569 ATAATATTTG
* ** * **
6811579 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * * *
6811624 TATCTTTGAGCTACTTTACTGCCAGTACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
** * * ** *
6811669 TATCTTCGATCTACTTCACCACTAGTATGGGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * *
6811714 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGGTCTGT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
6811759 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * *
6811804 TATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * ** * *
6811848 TTTCTTCGATCTATTTCACCACCAGTATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* *
6811893 TATCTTTGATCTACTTCA-TGCCAATACATGAAGACAAGATCTG-
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
** *
6811936 TCATCTTCGATCTACTTCA-TGCCAATACATAAAGACAAGATCTAC
1 T-ATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * ** ** * **
6811981 TTTTTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* **
6812026 TATCTTCAATCTACTTCA-TGCCAATACATAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * **
6812070 CATCTTCGATTTACTTCA-TGCCAATACATAAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* *
6812114 TATCTTCGATCTACTTCA-TGCCAATACATGAAGATAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * ** * ** *
6812158 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * * *
6812203 TATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
6812248 T
1 T
6812249 GCTTTTCAAC
Statistics
Matches: 517, Mismatches: 103, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
43 1 0.00
44 227 0.44
45 289 0.56
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
Found at i:6811971 original size:133 final size:133
Alignment explanation
Indices: 6811579--6812219 Score: 745
Period size: 133 Copynumber: 4.8 Consensus size: 133
6811569 ATAATATTTG
* * * * *
6811579 TATCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGAGCTACTTTACT
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-T
* * * * *
6811644 GCCAGTACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCA--CCACTAGTATGGGAAGACAA
65 GCCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATA-CAT--AAAGACAA
* *
6811707 TATCTGC
127 GATCTAC
* ** * * *
6811714 TATCTTTGATCTACTTCACTGCCAGTACAGGAAGACAAGGTCTGTTATCTTCGATCTACTTCACT
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-T
* *
6811779 GCCAATACAGGAAGACAAGATCTG-CTATCTTTGATCTACTTCATGCCAATACATGAAGACAAGA
65 GCCAATACAGGAAGACAAGATCTGTC-ATCTTCGATCTACTTCATGCCAATACATAAAGACAAGA
6811843 TCTAC
129 TCTAC
* * *
6811848 TTTCTTCGATCTATTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTTGATCTACTTCATG
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
*
6811913 CCAATACATGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGATC
66 CCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGATC
6811978 TAC
131 TAC
* * ** * *
6811981 TTTTTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCTACTTCATG
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
** * *
6812046 CCAATACATAAAGACAAGATCTGCCATCTTCGATTTACTTCATGCCAATACATAAAGACAAGATC
66 CCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGATC
*
6812111 TGC
131 TAC
** * * * * *
6812114 TATCTTCGATCTACTTCA-TGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTC--G
1 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
** * *
6812176 CCACCAGTATGGGAAGACAAGATCTGTTATCTTCGATCCACTTC
66 CCA--A-TACAGGAAGACAAGATCTGTCATCTTCGATCTACTTC
6812220 GCTACCAATA
Statistics
Matches: 437, Mismatches: 62, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
130 4 0.01
132 35 0.08
133 230 0.53
134 68 0.16
135 93 0.21
136 2 0.00
137 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (133 bp):
TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCATG
CCAATACAGGAAGACAAGATCTGTCATCTTCGATCTACTTCATGCCAATACATAAAGACAAGATC
TAC
Found at i:6813551 original size:6 final size:6
Alignment explanation
Indices: 6813540--6813572 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6813530 TGGTCTCTCA
*
6813540 TTTCTT TTTCTT TTTCTT TTTCCT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
6813573 TCATCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:6814212 original size:18 final size:18
Alignment explanation
Indices: 6814186--6814228 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6814176 TGGTTTGGCA
*
6814186 GAAAAAATCCAAAAGAAT
1 GAAAGAATCCAAAAGAAT
**
6814204 GAAAGAATCGTAAAGAAT
1 GAAAGAATCCAAAAGAAT
6814222 GAAAGAA
1 GAAAGAA
6814229 CATTTGCTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.63, C:0.07, G:0.19, T:0.12
Consensus pattern (18 bp):
GAAAGAATCCAAAAGAAT
Found at i:6816143 original size:19 final size:20
Alignment explanation
Indices: 6816119--6816164 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6816109 TAACGGTGTT
* *
6816119 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
6816138 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
6816158 -AATGCAA
1 TAATGCAA
6816165 GAAAGAGACG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Done.