Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold13
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: 2744999
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.26
Warning! 506982 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:1364270 original size:157 final size:153
Alignment explanation
Indices: 1363830--1364271 Score: 410
Period size: 157 Copynumber: 2.8 Consensus size: 153
1363820 AAAGTGGCAA
* * ** *
1363830 GGTTGGAGTGTCCCTTCGAAATACGGGGTTTAAGTATCCTCGAGATGAAAATTTTAATATTTTTG
1 GGTTGGAGTATCCCTTCGAAATACTGGGTTGGAGTATCCCCGAGATGAAAATTTTAATA-TTTTG
* * ** *
1363895 GAATAAAAA--AGGGTTGTAGTATCCCTTCAAAAATAACAAGGTTGGAGTACCTTC-GAGAAAAA
65 GAA-AAAAAGCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTTCAGAGAAAAA
1363957 TTTAATATTTTGGAAAAAAAAACGG
129 TTTAATATTTTGGAAAAAAAAACGG
* * * * * * * **
1363982 GGTTGAAGTATCCTTTTTGAATTGA-TGGGGTTGGAATAT-CCCAAGATGAAAAATTTAGCATTT
1 GGTTGGAGTATCC-CTTCGAAAT-ACT-GGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTT
* * * * * * * * * *
1364045 TGGAAATAAAAGCAAGGTTGGAGTATCCCTTAGGAATTGATGGGGTTAGAGTATCCCTAAGATAA
63 TGGAAA-AAAAGCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTAT-CTTCAGA-GA
* *
1364110 AAAATTTAATATTTTGG-AAATAAAATGG
125 AAAATTTAATATTTTGGAAAAAAAAACGG
*
1364138 GGTTGGAGTATCCCCTCAGAAATAACTGGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTT
1 GGTTGGAGTATCCCTTC-GAAAT-ACTGGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTT
* * *
1364203 GGAAACAAAAGCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAATATCTTCGAGACGAA
64 GGAAA-AAAAGCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTTC-AGA-GAA
1364268 AAAT
126 AAAT
1364272 CGATATTTTT
Statistics
Matches: 220, Mismatches: 57, Indels: 21
0.74 0.19 0.07
Matches are distributed among these distances:
151 1 0.00
152 23 0.10
153 22 0.10
154 39 0.18
155 3 0.01
156 41 0.19
157 91 0.41
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (153 bp):
GGTTGGAGTATCCCTTCGAAATACTGGGTTGGAGTATCCCCGAGATGAAAATTTTAATATTTTGG
AAAAAAAGCAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTTCAGAGAAAAATT
TAATATTTTGGAAAAAAAAACGG
Found at i:1366830 original size:21 final size:22
Alignment explanation
Indices: 1366778--1366830 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
1366768 ATTTGTAGCA
1366778 TGTATCGATACATTCACTTATG
1 TGTATCGATACATTCACTTATG
* *
1366800 TGT-T-GATACATTTAC-TATT
1 TGTATCGATACATTCACTTATG
1366819 TGTATCGATACA
1 TGTATCGATACA
1366831 AATTGTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.22
20 11 0.41
21 7 0.26
22 3 0.11
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (22 bp):
TGTATCGATACATTCACTTATG
Found at i:1367816 original size:11 final size:10
Alignment explanation
Indices: 1367789--1367815 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1367779 ATCTAAACCC
1367789 TTTTTTTCTT
1 TTTTTTTCTT
1367799 TTTTTTTCTT
1 TTTTTTTCTT
1367809 TTTTTTT
1 TTTTTTT
1367816 TGATTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:1367866 original size:13 final size:13
Alignment explanation
Indices: 1367850--1367898 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
1367840 TTTTTTTGAC
1367850 TTTTTTGTTTTGT
1 TTTTTTGTTTTGT
1367863 TTTTTT-TTTAAT-T
1 TTTTTTGTTT--TGT
1367876 TTTTTTGTTTTGT
1 TTTTTTGTTTTGT
1367889 TTTTTTGTTT
1 TTTTTTGTTT
1367899 GATTTGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (13 bp):
TTTTTTGTTTTGT
Found at i:1367869 original size:26 final size:26
Alignment explanation
Indices: 1367840--1367901 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
1367830 TTTTGTGCAA
1367840 TTTTTTTGA-CTTTTTTGTTTTGTTT
1 TTTTTTTGATCTTTTTTGTTTTGTTT
* *
1367865 TTTTTTTAATTTTTTTTGTTTTGTTT
1 TTTTTTTGATCTTTTTTGTTTTGTTT
1367891 TTTTGTTTGAT
1 TTTT-TTTGAT
1367902 TTGAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 8 0.25
26 19 0.59
27 5 0.16
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (26 bp):
TTTTTTTGATCTTTTTTGTTTTGTTT
Found at i:1367881 original size:21 final size:23
Alignment explanation
Indices: 1367852--1367893 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
1367842 TTTTTGACTT
1367852 TTTTGTTTTGTTTT-TTTTTTAA
1 TTTTGTTTTGTTTTGTTTTTTAA
1367874 TTTT-TTTTGTTTTGTTTTTT
1 TTTTGTTTTGTTTTGTTTTTT
1367894 TGTTTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.86
Consensus pattern (23 bp):
TTTTGTTTTGTTTTGTTTTTTAA
Found at i:1375747 original size:13 final size:13
Alignment explanation
Indices: 1375729--1375754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1375719 TACACCAAGT
1375729 ATGTATCGATACA
1 ATGTATCGATACA
1375742 ATGTATCGATACA
1 ATGTATCGATACA
1375755 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1375773 original size:34 final size:32
Alignment explanation
Indices: 1375711--1375775 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1375701 TAGCCAAACT
**
1375711 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
1375743 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
1375776 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:1376068 original size:23 final size:23
Alignment explanation
Indices: 1376041--1376093 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
1376031 AAAGTGTTTT
*
1376041 ATATTTTTCAAGAGCTTTTGTTC
1 ATATTGTTCAAGAGCTTTTGTTC
1376064 ATATTGTTCAAGAGCTTTTGTTC
1 ATATTGTTCAAGAGCTTTTGTTC
1376087 ATATTGT
1 ATATTGT
1376094 CATTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (23 bp):
ATATTGTTCAAGAGCTTTTGTTC
Found at i:1379863 original size:15 final size:15
Alignment explanation
Indices: 1379843--1379873 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1379833 TAAAAATGTC
*
1379843 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1379858 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1379873 C
1 C
1379874 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1381974 original size:13 final size:13
Alignment explanation
Indices: 1381956--1381992 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1381946 TTTTTTTTTA
1381956 TATCGATACAATG
1 TATCGATACAATG
*
1381969 TATCGATACACTG
1 TATCGATACAATG
1381982 TATCGATACAA
1 TATCGATACAA
1381993 GGGGATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1382146 original size:20 final size:20
Alignment explanation
Indices: 1382103--1382148 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1382093 AAATCTTTTG
1382103 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1382124 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1382144 CAAAA
1 CAAAA
1382149 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1382456 original size:20 final size:20
Alignment explanation
Indices: 1382417--1382457 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1382407 CCCCTAGGCA
*
1382417 GCACTACCAGGTCACGACCG
1 GCACTACCAGGTCACAACCG
* *
1382437 GCACTCCCAGGTCGCAACCG
1 GCACTACCAGGTCACAACCG
1382457 G
1 G
1382458 ACAGTCCCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.22, C:0.41, G:0.27, T:0.10
Consensus pattern (20 bp):
GCACTACCAGGTCACAACCG
Found at i:1384483 original size:21 final size:21
Alignment explanation
Indices: 1384457--1384512 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1384447 ACATGTTGCA
1384457 ATGTATCGATACATCAAAAAT
1 ATGTATCGATACATCAAAAAT
1384478 ATGTATCGATACATCAAAAAT
1 ATGTATCGATACATCAAAAAT
1384499 ATGTATCGATACAT
1 ATGTATCGATACAT
1384513 GTCATTGGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATCAAAAAT
Found at i:1384580 original size:13 final size:13
Alignment explanation
Indices: 1384562--1384587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1384552 TACACCAAGT
1384562 ATGTATCGATACA
1 ATGTATCGATACA
1384575 ATGTATCGATACA
1 ATGTATCGATACA
1384588 CCAAAAAATT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1391574 original size:44 final size:44
Alignment explanation
Indices: 1391517--1392112 Score: 254
Period size: 44 Copynumber: 13.6 Consensus size: 44
1391507 TTCTCCTATC
* *
1391517 TGACGTGT-GTTACCACCTTGGTCAAATTCTTTTCATTTCGATT
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
*
1391560 TGACGTATGGTTACCACCCTGGTCAAATCTACCTTCTTC--TT-G-TA
1 TGACGTATGGTTACCACCCTGGTCAAAT-T--CTT-TTCATTTCGATT
* * * * * * * *
1391604 TGGCATATAGTTGCCACCCTAGTCAAATTCTTTCCATTCCAATT
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
* ** * **
1391648 TGACGTATAGTTACCACCCTGGTCAAA-TCTGCCTC-CTTCCTTT
1 TGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATTTCGATT
* * * *
1391691 CTGATGTATGGTCACCACTCTGGTCAGATTCTTTTCA-TTCTGATT
1 -TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTC-GATT
* * * * ** * ** *
1391736 TGATGGATGGTTACCACTCTGGTC-AAGTCTACATCCTTTTTATC
1 TGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATTTCGATT
* * ** * * *
1391780 TGATGTATGGTTACCACCCTGGTCAAATCCGCTTC-CTTCTTATC
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTC-GATT
* * *
1391824 TAACGTTTGGTTACCACCTTGGTCAAATTCTTTTCA-TTCTGATT
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTC-GATT
* * * ** * * *
1391868 TGACATATGGTTACCATCCTAGTCAAA-TCTGCCTCCTTCCTG-TC
1 TGACGTATGGTTACCACCCTGGTCAAATTCT-TTTCATTTC-GATT
* * * *
1391912 TGA-GTATGGTTATCACCCTGTTCAGATTCTTTTCATTTTGATT
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
* * * * *** * * *
1391955 TGACATATGGTTACCACCTTGGTTAAATACACCTCATTCCTATC
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
** * * * *
1391999 TGA-GTATGGTTATGACCATTGTCAGATTCTTTTCA-TTCTGATA
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTC-GATT
* *** * *
1392042 TGATGTATGGTTACCACCCTGGTCAAA-TCGCCTCATTCCTATT
1 TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
* * *
1392085 TGATGTATGGCTACCACCCTAGTCAAAT
1 TGACGTATGGTTACCACCCTGGTCAAAT
1392113 GATTTGCATT
Statistics
Matches: 402, Mismatches: 123, Indels: 55
0.69 0.21 0.09
Matches are distributed among these distances:
40 2 0.00
41 3 0.01
42 4 0.01
43 107 0.27
44 262 0.65
45 16 0.04
46 2 0.00
47 3 0.01
48 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTGGTCAAATTCTTTTCATTTCGATT
Found at i:1391722 original size:88 final size:88
Alignment explanation
Indices: 1391503--1391807 Score: 326
Period size: 88 Copynumber: 3.5 Consensus size: 88
1391493 TGGTCGAACT
* * * *
1391503 CTCCTTCTCCTATCTGACGTGT-GTTACCACCTTGGTCAAATTCTTTTCATTTCGATTTGACGTA
1 CTCCTTCT--TATCTGATGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCCGATTTGACGTA
1391567 TGGTTACCACCCTGGTCAAATCTAC
64 TGGTTACCACCCTGGTCAAATCTAC
* * * *** * * * * * *
1391592 CTTCTTCTTGTATGGCATATAGTTGCCACCCTAGTCAAATTCTTTCCATTCCAATTTGACGTATA
1 CTCCTTCTTATCTGATGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCCGATTTGACGTATG
*
1391657 GTTACCACCCTGGTCAAATCTGC
66 GTTACCACCCTGGTCAAATCTAC
* * * * * *
1391680 CTCCTTCCTT-TCTGATGTATGGTCACCACTCTGGTCAGATTCTTTTCATTCTGATTTGATGGAT
1 CTCCTT-CTTATCTGATGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCCGATTTGACGTAT
* *
1391744 GGTTACCACTCTGGTCAAGTCTAC
65 GGTTACCACCCTGGTCAAATCTAC
* *
1391768 ATCCTTTTTATCTGATGTATGGTTACCACCCTGGTCAAAT
1 CTCCTTCTTATCTGATGTATGGTTACCACCCTGGTCAAAT
1391808 CCGCTTCCTT
Statistics
Matches: 174, Mismatches: 39, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
87 9 0.05
88 155 0.89
89 10 0.06
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.38
Consensus pattern (88 bp):
CTCCTTCTTATCTGATGTATGGTTACCACCCTGGTCAAATTCTTTTCATTCCGATTTGACGTATG
GTTACCACCCTGGTCAAATCTAC
Found at i:1391796 original size:132 final size:131
Alignment explanation
Indices: 1391652--1391931 Score: 332
Period size: 132 Copynumber: 2.1 Consensus size: 131
1391642 CCAATTTGAC
* * * *
1391652 GTATAGTTACCACCCTGGTCAAATCTGCCTCCTTCCTT-TCTGATGTATGGTCACCA-CTCTGGT
1 GTATGGTTACCACCCTGGTCAAATCCGCCTCCTT-CTTATCTAACGTATGGTCACCACCT-TGGT
* ** * * **
1391715 CAGATTCTTTTCATTCTGATTTGATGGATGGTTACCA-CTCTGGTCAAGTCTACATCCTTTTTAT
64 CAAATTCTTTTCATTCTGATTTGACAGATGGTTACCATC-CTAGTCAAATCTACATCCTTCCTAT
1391779 CTGA
128 CTGA
* * *
1391783 TGTATGGTTACCACCCTGGTCAAATCCGCTTCCTTCTTATCTAACGTTTGGTTACCACCTTGGTC
1 -GTATGGTTACCACCCTGGTCAAATCCGCCTCCTTCTTATCTAACGTATGGTCACCACCTTGGTC
* * * *
1391848 AAATTCTTTTCATTCTGATTTGACATATGGTTACCATCCTAGTCAAATCTGCCTCCTTCCTGTCT
65 AAATTCTTTTCATTCTGATTTGACAGATGGTTACCATCCTAGTCAAATCTACATCCTTCCTATCT
1391913 GA
130 GA
*
1391915 GTATGGTTATCACCCTG
1 GTATGGTTACCACCCTG
1391932 TTCAGATTCT
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
131 19 0.15
132 104 0.83
133 3 0.02
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (131 bp):
GTATGGTTACCACCCTGGTCAAATCCGCCTCCTTCTTATCTAACGTATGGTCACCACCTTGGTCA
AATTCTTTTCATTCTGATTTGACAGATGGTTACCATCCTAGTCAAATCTACATCCTTCCTATCTG
A
Found at i:1391956 original size:87 final size:87
Alignment explanation
Indices: 1391785--1392104 Score: 349
Period size: 87 Copynumber: 3.7 Consensus size: 87
1391775 TTATCTGATG
* * * * * * * *
1391785 TATGGTTACCACCCTGGTCAAATCCGCTTCCTTCTTATCTAACGTTTGGTTACCACCTTGGTCAA
1 TATGGTTACCACCCTGGTCAAAT-CGCCTCATTCCTATCTGACGTATGGTTACCACCCTGTTCAG
1391850 ATTCTTTTCATTCTGATTTGACA
65 ATTCTTTTCATTCTGATTTGACA
* * * * *
1391873 TATGGTTACCATCCTAGTCAAATCTGCCTCCTTCCTGTCTGA-GTATGGTTATCACCCTGTTCAG
1 TATGGTTACCACCCTGGTCAAATC-GCCTCATTCCTATCTGACGTATGGTTACCACCCTGTTCAG
*
1391937 ATTCTTTTCATTTTGATTTGACA
65 ATTCTTTTCATTCTGATTTGACA
* * * ** *
1391960 TATGGTTACCACCTTGGTTAAATACACCTCATTCCTATCTGA-GTATGGTTATGACCAT-TGTCA
1 TATGGTTACCACCCTGGTCAAAT-CGCCTCATTCCTATCTGACGTATGGTTACCACCCTGT-TCA
* **
1392023 GATTCTTTTCATTCTGATATGATG
64 GATTCTTTTCATTCTGATTTGACA
* * *
1392047 TATGGTTACCACCCTGGTCAAATCGCCTCATTCCTATTTGATGTATGGCTACCACCCT
1 TATGGTTACCACCCTGGTCAAATCGCCTCATTCCTATCTGACGTATGGTTACCACCCT
1392105 AGTCAAATGA
Statistics
Matches: 195, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
86 17 0.09
87 143 0.73
88 35 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (87 bp):
TATGGTTACCACCCTGGTCAAATCGCCTCATTCCTATCTGACGTATGGTTACCACCCTGTTCAGA
TTCTTTTCATTCTGATTTGACA
Found at i:1392349 original size:43 final size:42
Alignment explanation
Indices: 1392208--1392363 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
1392198 TACCAATCGA
* *
1392208 CTCAGGCCTAGGAGACTTTTTCATCTTTTATCTACTCGTCGG
1 CTCAGACCTAGGAGACTTTTTTATCTTTTATCTACTCGTCGG
* * * * **
1392250 CTCTGA-CTCGGGAGACTTTTTTATCTTTTATCTGCTTGTCTA
1 CTCAGACCT-AGGAGACTTTTTTATCTTTTATCTACTCGTCGG
* * ** * *
1392292 CTTAAACCCGGGAGACTTTTTTCATCTTTTGTCTACCCGTCGG
1 CTCAGACCTAGGAGACTTTTTT-ATCTTTTATCTACTCGTCGG
* *
1392335 GTCAGACCTAGGAGACTTTTTTATTTTTT
1 CTCAGACCTAGGAGACTTTTTTATCTTTT
1392364 GTCAGCCCAT
Statistics
Matches: 87, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
41 2 0.02
42 53 0.61
43 32 0.37
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
CTCAGACCTAGGAGACTTTTTTATCTTTTATCTACTCGTCGG
Found at i:1392389 original size:85 final size:85
Alignment explanation
Indices: 1392218--1392402 Score: 205
Period size: 85 Copynumber: 2.2 Consensus size: 85
1392208 CTCAGGCCTA
* * *
1392218 GGAGAC-TTTTTCATCTTTTATCTACTCGTCGGCTCTGACTCGGGAGACTTTTTTATCTTTTATC
1 GGAGACTTTTTTCATCTTTTATCTACCCGTCGGCTCAGACTCAGGAGACTTTTTTATCTTTTATC
* *** * *
1392282 TGCTTGTCTACTTAAACCCG
66 AGCCCATCGACTCAAACCCG
* * * *
1392302 GGAGACTTTTTTCATCTTTTGTCTACCCGTCGGGTCAGAC-CTAGGAGACTTTTTTATTTTTTGT
1 GGAGACTTTTTTCATCTTTTATCTACCCGTCGGCTCAGACTC-AGGAGACTTTTTTATCTTTTAT
*
1392366 CAGCCCATCGACTCAAACTCG
65 CAGCCCATCGACTCAAACCCG
*
1392387 GGAGACTTCTTT-ATCT
1 GGAGACTTTTTTCATCT
1392403 GAAAGACTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
84 11 0.13
85 73 0.87
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (85 bp):
GGAGACTTTTTTCATCTTTTATCTACCCGTCGGCTCAGACTCAGGAGACTTTTTTATCTTTTATC
AGCCCATCGACTCAAACCCG
Found at i:1392391 original size:42 final size:42
Alignment explanation
Indices: 1392218--1392402 Score: 133
Period size: 42 Copynumber: 4.4 Consensus size: 42
1392208 CTCAGGCCTA
* * * * **
1392218 GGAGACTTTTTCATCTTTTATCTA-CTCGTCGGCTCTGACTCG
1 GGAGACTTTTTTATCTTTTGTC-AGCCCGTCGACTCAAACTCG
* * ** * * *
1392260 GGAGACTTTTTTATCTTTTATCTGCTTGTCTACTTAAACCCG
1 GGAGACTTTTTTATCTTTTGTCAGCCCGTCGACTCAAACTCG
** * *
1392302 GGAGACTTTTTTCATCTTTTGTCTA-CCCGTCGGGTCAGAC-CTA
1 GGAGACTTTTTT-ATCTTTTGTC-AGCCCGTCGACTCAAACTC-G
* *
1392345 GGAGACTTTTTTATTTTTTGTCAGCCCATCGACTCAAACTCG
1 GGAGACTTTTTTATCTTTTGTCAGCCCGTCGACTCAAACTCG
*
1392387 GGAGACTTCTTTATCT
1 GGAGACTTTTTTATCT
1392403 GAAAGACTTT
Statistics
Matches: 110, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 79 0.72
43 30 0.27
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
GGAGACTTTTTTATCTTTTGTCAGCCCGTCGACTCAAACTCG
Found at i:1392482 original size:42 final size:42
Alignment explanation
Indices: 1392427--1392630 Score: 160
Period size: 42 Copynumber: 4.8 Consensus size: 42
1392417 ATCCTATGTC
* * *
1392427 TGCTCATCGGCTCAGACCTGGTAAACTTTTTTATCATTTATT
1 TGCTCGTCGGCTCAGACCTGGGAGACTTTTTTATCATTTATT
* * * * *
1392469 TGCTTGTTGGCTCAGACCCGGGAGACTTTTTTATCTTTTGTT
1 TGCTCGTCGGCTCAGACCTGGGAGACTTTTTTATCATTTATT
* * *
1392511 TGCTCGTCGGCTTAGACCTGGGAGACTTTTTTTATCATTTGTC
1 TGCTCGTCGGCTCAGACCTGGGAGAC-TTTTTTATCATTTATT
* * * * * ** *
1392554 TACCCATCAGCTCAGACCTAGGAGACTTCCTTATC-TTTTTT
1 TGCTCGTCGGCTCAGACCTGGGAGACTTTTTTATCATTTATT
* * * *
1392595 CTG-TCCATCGGCTTAGACTTGGGAGACTTCTTTATC
1 -TGCT-CGTCGGCTCAGACCTGGGAGACTTTTTTATC
1392631 TTTTGTCTGC
Statistics
Matches: 128, Mismatches: 31, Indels: 6
0.78 0.19 0.04
Matches are distributed among these distances:
41 4 0.03
42 90 0.70
43 34 0.27
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (42 bp):
TGCTCGTCGGCTCAGACCTGGGAGACTTTTTTATCATTTATT
Found at i:1392569 original size:85 final size:84
Alignment explanation
Indices: 1392477--1393004 Score: 416
Period size: 85 Copynumber: 6.2 Consensus size: 84
1392467 TTTGCTTGTT
* * * * * *
1392477 GGCTCAGACCCGGGAGACTTTTTTATCTTTTGTTTGCTCGTCGGCTTAGAC-CTGGGAGACTTTT
1 GGCTCAGACCCGGGAGACTTCTTTATCATTTGTCTGCTCATCGGCTTAGACTC-GAGAGAC-TTC
* *
1392541 TTTATCATTTGTCTACCCATC
64 TTTATCTTTTGTCTGCCCATC
* ** * * * * *
1392562 AGCTCAGACCTAGGAGACTTCCTTATCTTTTTTCTG-TCCATCGGCTTAGACTTGGGAGACTTCT
1 GGCTCAGACCCGGGAGACTTCTTTATCATTTGTCTGCT-CATCGGCTTAGACTCGAGAGACTTCT
**
1392626 TTATCTTTTGTCTGCCTGTC
65 TTATCTTTTGTCTGCCCATC
* * * * * * * * *
1392646 GGC-CTAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCGTCGACTCAGACTCGAGAGATTTTT
1 GGCTC-AGACCCGGGAGACTTCTTTATCATTTGTCTGCTCATCGGCTTAGACTCGAGAGACTTCT
* * *
1392710 TTCATCCTTCGTCTGCCCATT
65 TT-ATCTTTTGTCTGCCCATC
* * * * * * *
1392731 GGCTCAGACCCCGAAAACTTCTTTATCATTTGGCTGCCCATCGGCTTAAACCCGAGAGACTTCTT
1 GGCTCAGACCCGGGAGACTTCTTTATCATTTGTCTGCTCATCGGCTTAGACTCGAGAGACTTCTT
*
1392796 TATCTTTTGTTTGCCCATC
66 TATCTTTTGTCTGCCCATC
* * * *
1392815 GGCTTAGACTCGAGAGACTTTTTTTATCATTTGTCTGC-CTATCGGCTTAGACTCGAGAGACTTC
1 GGCTCAGACCCGGGAGAC-TTCTTTATCATTTGTCTGCTC-ATCGGCTTAGACTCGAGAGACTTC
** *
1392879 TTTATCTTTTGTCTGGTCGTC
64 TTTATCTTTTGTCTGCCCATC
* * * * * ** * * *
1392900 GGCTTAAACCCGGAATACTTTCTTTATCATTTGTCTGCTCGTTAGCTCAGACTCGGGAGATTTCT
1 GGCTCAGACCCGGGAGAC-TTCTTTATCATTTGTCTGCTCATCGGCTTAGACTCGAGAGACTTCT
* **
1392965 TTATCTTTTGTCTACCTGTC
65 TTATCTTTTGTCTGCCCATC
* *
1392985 GGCTTAGACCCAGGAGACTT
1 GGCTCAGACCCGGGAGACTT
1393005 GTAAGCTCTA
Statistics
Matches: 348, Mismatches: 86, Indels: 19
0.77 0.19 0.04
Matches are distributed among these distances:
83 1 0.00
84 97 0.28
85 248 0.71
86 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (84 bp):
GGCTCAGACCCGGGAGACTTCTTTATCATTTGTCTGCTCATCGGCTTAGACTCGAGAGACTTCTT
TATCTTTTGTCTGCCCATC
Found at i:1392631 original size:42 final size:42
Alignment explanation
Indices: 1392477--1393004 Score: 407
Period size: 42 Copynumber: 12.5 Consensus size: 42
1392467 TTTGCTTGTT
* * * * * *
1392477 GGCTCAGACCCGGGAGACTTTTTTATCTTTTGTTTGCTCGTC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* * * * *
1392519 GGCTTAGACCTGGGAGACTTTTTTTATCATTTGTCTACCCATC
1 GGCTTAGACCCGAGAGAC-TTCTTTATCTTTTGTCTGCCCATC
* * * * * *
1392562 AGCTCAGA-CCTAGGAGACTTCCTTATCTTTTTTCTGTCCATC
1 GGCTTAGACCCGA-GAGACTTCTTTATCTTTTGTCTGCCCATC
** * **
1392604 GGCTTAGACTTGGGAGACTTCTTTATCTTTTGTCTGCCTGTC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* * *
1392646 GGCCTAGACCCGAGAGACTTCTTTATCTTTTGTCTACCCGTC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* * * * * * * *
1392688 GACTCAGACTCGAGAGATTTTTTTCATCCTTCGTCTGCCCATT
1 GGCTTAGACCCGAGAGACTTCTTT-ATCTTTTGTCTGCCCATC
* * * *
1392731 GGCTCAGACCCCGA-AAACTTCTTTATCATTTGGCTGCCCATC
1 GGCTTAGA-CCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* *
1392773 GGCTTAAACCCGAGAGACTTCTTTATCTTTTGTTTGCCCATC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* * * *
1392815 GGCTTAGACTCGAGAGACTTTTTTTATCATTTGTCTGCCTATC
1 GGCTTAGACCCGAGAGAC-TTCTTTATCTTTTGTCTGCCCATC
* ** *
1392858 GGCTTAGACTCGAGAGACTTCTTTATCTTTTGTCTGGTCGTC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
* * * * * *
1392900 GGCTTAAACCCG-GAATACTTTCTTTATCATTTGTCTGCTCGTT
1 GGCTTAGACCCGAG-AGAC-TTCTTTATCTTTTGTCTGCCCATC
* * * * * * **
1392943 AGCTCAGACTCGGGAGATTTCTTTATCTTTTGTCTACCTGTC
1 GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
1392985 GGCTTAGACCC-AGGAGACTT
1 GGCTTAGACCCGA-GAGACTT
1393005 GTAAGCTCTA
Statistics
Matches: 380, Mismatches: 95, Indels: 22
0.76 0.19 0.04
Matches are distributed among these distances:
41 6 0.02
42 243 0.64
43 126 0.33
44 5 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (42 bp):
GGCTTAGACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATC
Found at i:1392632 original size:127 final size:124
Alignment explanation
Indices: 1392477--1393004 Score: 452
Period size: 127 Copynumber: 4.2 Consensus size: 124
1392467 TTTGCTTGTT
* * * * * * * *
1392477 GGCTCAGACCCGGGAGACTTTTTTATCTTTTGTTTGCTCGTCGGCTTAGACCTGGGAGACTTTTT
1 GGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTGCTCGTCGGCTTAAACCCGAGAGAC-TTCT
* ** * *
1392542 TTATCATTTGTCTACCCATCAGCTCAGAC-CTAGGAGACTTCCTTATCTTTTTTCTGTCCATC
65 TTATCATTTGTCTACCCATC-GCTCAGACTCGA-GAGACTTTTTTATCATTTGTCTG-CCATC
* * *
1392604 GGCTTAGACTTGGGAGACTTCTTTATCTTTTGTCTGC-CTGTCGGCCTAGACCCGAGAGACTTCT
1 GGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTGCTC-GTCGGCTTAAACCCGAGAGACTTCT
* * * * * *
1392668 TTATCTTTTGTCTACCCGTCGACTCAGACTCGAGAGATTTTTTTCATCCTTCGTCTGCCCATT
65 TTATCATTTGTCTACCCATCG-CTCAGACTCGAGAGACTTTTTT-ATCATTTGTCTG-CCATC
* * * * * * * * *
1392731 GGCTCAGACCCCGAAAACTTCTTTATCATTTGGCTGCCCATCGGCTTAAACCCGAGAGACTTCTT
1 GGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTGCTCGTCGGCTTAAACCCGAGAGACTTCTT
* * * *
1392796 TATCTTTTGTTTGCCCATCGGCTTAGACTCGAGAGACTTTTTTTATCATTTGTCTGCCTATC
66 TATCATTTGTCTACCCATC-GCTCAGACTCGAGAGAC-TTTTTTATCATTTGTCTGCC-ATC
* * *
1392858 GGCTTAGACTCGAGAGACTTCTTTATCTTTTGTCTGGTCGTCGGCTTAAACCCG-GAATACTTTC
1 GGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTGCTCGTCGGCTTAAACCCGAG-AGAC-TTC
* ** * * * * *
1392922 TTTATCATTTGTCTGCTCGTTAGCTCAGACTCGGGAGA-TTTCTTTATCTTTTGTCTACCTGTC
64 TTTATCATTTGTCTAC-CCATCGCTCAGACTCGAGAGACTTT-TTTATCATTTGTCTGCC-ATC
* *
1392985 GGCTTAGACCCAGGAGACTT
1 GGCTTAGACTCGGGAGACTT
1393005 GTAAGCTCTA
Statistics
Matches: 325, Mismatches: 64, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
125 1 0.00
126 43 0.13
127 240 0.74
128 39 0.12
129 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (124 bp):
GGCTTAGACTCGGGAGACTTCTTTATCTTTTGTCTGCTCGTCGGCTTAAACCCGAGAGACTTCTT
TATCATTTGTCTACCCATCGCTCAGACTCGAGAGACTTTTTTATCATTTGTCTGCCATC
Found at i:1392738 original size:169 final size:169
Alignment explanation
Indices: 1392482--1392877 Score: 445
Period size: 169 Copynumber: 2.3 Consensus size: 169
1392472 TTGTTGGCTC
* * * *
1392482 AGACCCGGGAGACTTTTTTATCTTTTGTTTGCTCGTCGGCTTAGAC-CTGGGAGACTTTTTTTAT
1 AGACCCGAGAGACTTTTTTATCTTTTGTCTGCCCGTCGGCTTAGACTC-GAGAGACTTTTTTTAT
* * * * * ** * *
1392546 CATTTGTCTACCCATCAGCTCAGACCTAGGAGACTTCCTTATCTTTTTTCTGTCCATCGGCTTAG
65 CATTCGTCTACCCATCAGCTCAGACCCAGAAAACTTCCTTATCATTTGGCTGCCCATCGGCTTAA
** * **
1392611 ACTTGGGAGACTTCTTTATCTTTTGTCTGCCTGTCGGCCT
130 ACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATCGGCCT
* * * *
1392651 AGACCCGAGAGACTTCTTTATCTTTTGTCTACCCGTCGACTCAGACTCGAGAGA-TTTTTTTCAT
1 AGACCCGAGAGACTTTTTTATCTTTTGTCTGCCCGTCGGCTTAGACTCGAGAGACTTTTTTT-AT
* * ** * *
1392715 CCTTCGTCTGCCCATTGGCTCAGACCCCGAAAACTTCTTTATCATTTGGCTGCCCATCGGCTTAA
65 CATTCGTCTACCCATCAGCTCAGACCCAGAAAACTTCCTTATCATTTGGCTGCCCATCGGCTTAA
* *
1392780 ACCCGAGAGACTTCTTTATCTTTTGTTTGCCCATCGGCTT
130 ACCCGAGAGACTTCTTTATCTTTTGTCTGCCCATCGGCCT
* * **
1392820 AGACTCGAGAGACTTTTTTTATCATTTGTCTGCCTATCGGCTTAGACTCGAGAGACTT
1 AGACCCGAGAGAC-TTTTTTATCTTTTGTCTGCCCGTCGGCTTAGACTCGAGAGACTT
1392878 CTTTATCTTT
Statistics
Matches: 185, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
168 7 0.04
169 141 0.76
170 35 0.19
171 2 0.01
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (169 bp):
AGACCCGAGAGACTTTTTTATCTTTTGTCTGCCCGTCGGCTTAGACTCGAGAGACTTTTTTTATC
ATTCGTCTACCCATCAGCTCAGACCCAGAAAACTTCCTTATCATTTGGCTGCCCATCGGCTTAAA
CCCGAGAGACTTCTTTATCTTTTGTCTGCCCATCGGCCT
Found at i:1393777 original size:13 final size:13
Alignment explanation
Indices: 1393759--1393788 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1393749 ACTTTTCACT
*
1393759 ATGTATCGATATA
1 ATGTATCGATACA
1393772 ATGTATCGATACA
1 ATGTATCGATACA
1393785 ATGT
1 ATGT
1393789 CCCATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1394426 original size:43 final size:42
Alignment explanation
Indices: 1394233--1394501 Score: 220
Period size: 42 Copynumber: 6.3 Consensus size: 42
1394223 CTTTTGTCTT
* ** * *
1394233 CCCATTGGCTCAGACCTAGGAGACTTCTTTATCATTCGTTTA
1 CCCATCGGCTCAGACCTAGGAGACTTCTTTATCATTAATCTG
* * *
1394275 CCCATCGGTTCAGACC-CGGAAGACTTCTTTATCATTCATCTG
1 CCCATCGGCTCAGACCTAGG-AGACTTCTTTATCATTAATCTG
* * * * *
1394317 TCCATCGGTTCAGACCCCA-GAAACTTTTTTTTATCATTAATCTG
1 CCCATCGGCTCAGA-CCTAGGAGAC--TTCTTTATCATTAATCTG
* * *
1394361 CCCATCGGCTCAGACTTGGGAGACTTCTTTATCATTAATTTG
1 CCCATCGGCTCAGACCTAGGAGACTTCTTTATCATTAATCTG
** * *
1394403 TCCTGTCGGCTCATACCTAGGAGACTTCTTTATCATTCATCTG
1 -CCCATCGGCTCAGACCTAGGAGACTTCTTTATCATTAATCTG
* * * * * *
1394446 CCCATTGGCTCAGACC-CGAGAGACTTCTTTATCTCTTTATTTA
1 CCCATCGGCTCAGACCTAG-GAGACTTCTTTATC-ATTAATCTG
1394489 CCCATCGGCTCAG
1 CCCATCGGCTCAG
1394502 TCCCAACTGT
Statistics
Matches: 182, Mismatches: 36, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
41 3 0.02
42 91 0.50
43 56 0.31
44 32 0.18
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (42 bp):
CCCATCGGCTCAGACCTAGGAGACTTCTTTATCATTAATCTG
Found at i:1394922 original size:13 final size:12
Alignment explanation
Indices: 1394881--1394946 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 12
1394871 TGCCAAGGAA
1394881 ATGTATCGATAC
1 ATGTATCGATAC
1394893 AT-TA---ATA-
1 ATGTATCGATAC
*
1394900 ATGCATCGATAC
1 ATGTATCGATAC
1394912 ATTGTATCGATAC
1 A-TGTATCGATAC
1394925 ATGTATC-AT--
1 ATGTATCGATAC
1394934 -TGTATCGATAC
1 ATGTATCGATAC
1394945 AT
1 AT
1394947 CTGGGAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 20
0.66 0.03 0.31
Matches are distributed among these distances:
7 2 0.05
8 10 0.24
9 2 0.05
11 7 0.17
12 10 0.24
13 11 0.26
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1398878 original size:21 final size:21
Alignment explanation
Indices: 1398852--1398903 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 21
1398842 TTTTTGTTCA
1398852 AATGTATCGATACATTTCTAG
1 AATGTATCGATACATTTCTAG
1398873 AATGTATCG----ATTTCTAG
1 AATGTATCGATACATTTCTAG
1398890 AATGTATCGATACA
1 AATGTATCGATACA
1398904 AGGTCCCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 17 0.63
21 10 0.37
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTCTAG
Found at i:1398999 original size:13 final size:13
Alignment explanation
Indices: 1398981--1399006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1398971 ACATAAATTT
1398981 TGTATCGATACAA
1 TGTATCGATACAA
1398994 TGTATCGATACAA
1 TGTATCGATACAA
1399007 AATCACCCTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1399080 original size:20 final size:21
Alignment explanation
Indices: 1399030--1399088 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
1399020 ACTGCCAAAG
1399030 AAATGTATCGATACATGTTTT
1 AAATGTATCGATACATGTTTT
1399051 AAATTGTATCGATACAT-TCTTT
1 AAA-TGTATCGATACATGT-TTT
*
1399073 -AATGTATCAATACATG
1 AAATGTATCGATACATG
1399089 AAGGCAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 12 0.35
21 6 0.18
22 16 0.47
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (21 bp):
AAATGTATCGATACATGTTTT
Found at i:1403158 original size:154 final size:155
Alignment explanation
Indices: 1402973--1403351 Score: 476
Period size: 155 Copynumber: 2.5 Consensus size: 155
1402963 ATCCCCTAGA
*
1402973 GGTATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTCAAAACCAAC
1 GGTATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTCGTAATTTTTCAAAACCAAC
**
1403038 TCCTAGATCACCACCGGATCCGCTTTTATGC-CAAGGTAGATATTTAGGATAGGTTCATCCCTTT
66 TCCTAGATCACCACCGGATCCGCTTTTATGCTCAAGGTAGATATTTAGGATAAATTCATCCCTTT
*
1403102 TA-GAATCCTCTATAAATCCTTTAGG
131 TATG-ATCCTCTATAAATCCTTTAAG
* * * * * * *
1403127 GGTATTGGGTACTTTTACGTTAAATGAATCCCTTAGGGTTATTTTCGTAATTTTTTAGAACCAAC
1 GGTATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTCGTAATTTTTCAAAACCAAC
* * ** * * *
1403192 TCCTAGGTCATCGTCGGGTTCGCTTTTATGCTGAAGGTAGATATTTAGGATAAATTCATCCCTTT
66 TCCTAGATCACCACCGGATCCGCTTTTATGCTCAAGGTAGATATTTAGGATAAATTCATCCCTTT
* * *
1403257 TATGATCCTTTTTAAGTCCTTTAAG
131 TATGATCCTCTATAAATCCTTTAAG
* * * ** *
1403282 GATGTCGGGTACTTTTACGTCAAAGGTATTCCTTAGACGTATTTTCGTAA-TTTTCTATAACCAA
1 GGTATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTCGTAATTTTTC-AAAACCAA
1403346 CTCCTA
65 CTCCTA
1403352 AGTCGTTGCC
Statistics
Matches: 189, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
154 86 0.46
155 102 0.54
156 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (155 bp):
GGTATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTCGTAATTTTTCAAAACCAAC
TCCTAGATCACCACCGGATCCGCTTTTATGCTCAAGGTAGATATTTAGGATAAATTCATCCCTTT
TATGATCCTCTATAAATCCTTTAAG
Found at i:1403393 original size:155 final size:152
Alignment explanation
Indices: 1402975--1403408 Score: 462
Period size: 155 Copynumber: 2.8 Consensus size: 152
1402965 CCCCTAGAGG
*
1402975 TATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGGTATTTTTGTAATTTTTCAAAACCAACTC
1 TATCGGGTACTTTTACGTCAAAGGTATCCCTTA-GGGTATTTTCGTAATTTTT-AAAACCAACTC
* *
1403040 CT-AGATCACCACCGGATCCGCTTTTATGCC-AAGGTAGATATTTAGGATAGGTTCATCCCTTTT
64 CTAAG-TCATCGCCGG-TCCGCTTTTATGCCTAAGGTAGATATTTAGGATAGGTTCATCCCTTTT
* *
1403103 AGAATCCTCTATAAATCCTTTAGGGG
127 AGAATCCTCTATAAATCCTTTAAGGA
* * * * *
1403129 TATTGGGTACTTTTACGTTAAATGAATCCCTTAGGGTTATTTTCGTAATTTTTTAGAACCAACTC
1 TATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGG-TATTTTCGTAA-TTTTTAAAACCAACTC
* * * **
1403194 CTAGGTCATCGTCGGGTTCGCTTTTATG-CTGAAGGTAGATATTTAGGATAAATTCATCCCTTTT
64 CTAAGTCATCG-CCGGTCCGCTTTTATGCCT-AAGGTAGATATTTAGGATAGGTTCATCCCTTTT
* * *
1403258 ATG-ATCCTTTTTAAGTCCTTTAAGGA
127 A-GAATCCTCTATAAATCCTTTAAGGA
* * * *
1403284 TGTCGGGTACTTTTACGTCAAAGGTATTCCTTAGACGTATTTTCGTAATTTTCTATAACCAACTC
1 TATCGGGTACTTTTACGTCAAAGGTATCCCTTAG-GGTATTTTCGTAATTTT-TAAAACCAACTC
* * * * * ** *
1403349 CTAAGTCGTTGCCAAGTCCTCTTTTATGCCTAAGGTGGGCATTTAAGATAGGTTCATCCC
64 CTAAGTCATCGCC-GGTCCGCTTTTATGCCTAAGGTAGATATTTAGGATAGGTTCATCCC
1403409 ATCTATAATC
Statistics
Matches: 230, Mismatches: 39, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
153 4 0.02
154 71 0.31
155 151 0.66
156 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (152 bp):
TATCGGGTACTTTTACGTCAAAGGTATCCCTTAGGGTATTTTCGTAATTTTTAAAACCAACTCCT
AAGTCATCGCCGGTCCGCTTTTATGCCTAAGGTAGATATTTAGGATAGGTTCATCCCTTTTAGAA
TCCTCTATAAATCCTTTAAGGA
Found at i:1404672 original size:51 final size:51
Alignment explanation
Indices: 1404566--1404696 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 51
1404556 GCCTACATGT
* * * * * *
1404566 ATCGATATATTGAAGAATGTATCGATACA-TTGGTTCAAAACCCATAATAT
1 ATCGATACAATGAAGAATATATCGATACATTTGGGTCAAAACCCAGAATAC
* * * * *
1404616 ATCGATACAATGTAGAATTTATCAATACATTTGGGTCAAAACCTAGAATGC
1 ATCGATACAATGAAGAATATATCGATACATTTGGGTCAAAACCCAGAATAC
*
1404667 ATCGATACAATGAAAAATATATCGATACAT
1 ATCGATACAATGAAGAATATATCGATACAT
1404697 ATTCATTCTA
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
50 24 0.36
51 42 0.64
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (51 bp):
ATCGATACAATGAAGAATATATCGATACATTTGGGTCAAAACCCAGAATAC
Found at i:1404779 original size:20 final size:20
Alignment explanation
Indices: 1404754--1404809 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1404744 CATTTTGAAC
1404754 ATGTATTGATACATTCACTT
1 ATGTATTGATACATTCACTT
*
1404774 ATGTATCGATACATTCACTT
1 ATGTATTGATACATTCACTT
* *
1404794 ATTATATTAATACATT
1 A-TGTATTGATACATT
1404810 TTATAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (20 bp):
ATGTATTGATACATTCACTT
Found at i:1406422 original size:70 final size:70
Alignment explanation
Indices: 1406348--1406481 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
1406338 CTCAAGTTAA
1406348 GTTCATGTTAACCTCAATCAATGAGGATTAACATGGATTTATGGTTTTCATTAAACTAACTTTGA
1 GTTCATGTTAACCTCAATCAATGAGGATTAACATGGATTTATGGTTTTCATTAAACTAACTTTGA
1406413 TTGAG
66 TTGAG
* *
1406418 GTTCATGTTAACCTTAATCAATGAGGATTAACTTGGATTTATGGTTTTCATTAAACTAACTTTG
1 GTTCATGTTAACCTCAATCAATGAGGATTAACATGGATTTATGGTTTTCATTAAACTAACTTTG
1406482 TAATCTTAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (70 bp):
GTTCATGTTAACCTCAATCAATGAGGATTAACATGGATTTATGGTTTTCATTAAACTAACTTTGA
TTGAG
Found at i:1411081 original size:35 final size:36
Alignment explanation
Indices: 1411041--1411125 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 36
1411031 AATATTTAAA
* *
1411041 ATATTTAAAATTTAAATATTAATATTT-AT-AATTTT
1 ATATTTTAAATTTAAA-AATAATATTTAATGAATTTT
*
1411076 TTATTTTAAA-TTAAAAATAATATTTAATGAATTTT
1 ATATTTTAAATTTAAAAATAATATTTAATGAATTTT
*
1411111 AAATTTTAAATTTAA
1 ATATTTTAAATTTAA
1411126 CTTTTATAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
33 9 0.21
34 7 0.17
35 22 0.52
36 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (36 bp):
ATATTTTAAATTTAAAAATAATATTTAATGAATTTT
Found at i:1411146 original size:63 final size:63
Alignment explanation
Indices: 1411025--1411152 Score: 147
Period size: 63 Copynumber: 2.0 Consensus size: 63
1411015 ATTATTTTTA
* *
1411025 AAAAATAATATTTAAAATATTTAAAATTTAAATATTAATATTTATAATTTTTTATTTTAAATT
1 AAAAATAATATTTAAAATATTTAAAATTTAAATATTAATATTTATAATCTTCTATTTTAAATT
* * *
1411088 AAAAATAATATTTAATGAAT-TTTAAATTTTAAAT-TTAACT-TTTATAGTACTTCT-TTTTAAC
1 AAAAATAATATTTAA--AATATTTAAAATTTAAATATTAA-TATTTATAAT-CTTCTATTTTAAA
1411149 TT
62 TT
1411151 AA
1 AA
1411153 TCTCGTTCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
63 36 0.64
64 17 0.30
65 3 0.05
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (63 bp):
AAAAATAATATTTAAAATATTTAAAATTTAAATATTAATATTTATAATCTTCTATTTTAAATT
Found at i:1411542 original size:20 final size:20
Alignment explanation
Indices: 1411519--1411556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1411509 TAAATAAAAT
*
1411519 ATTTAAATATTAAATATATA
1 ATTTAAATATAAAATATATA
*
1411539 ATTTTAATATAAAATATA
1 ATTTAAATATAAAATATA
1411557 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAATATAAAATATATA
Found at i:1411561 original size:45 final size:44
Alignment explanation
Indices: 1411509--1411606 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 44
1411499 TCTGTTGATT
1411509 TAAATAAAAT-ATTTAAATATTAAAT-ATAT-AATTTTAATATAAAA
1 TAAATAAAATAATTT---TATTAAATGATATAAATTTTAATATAAAA
* *
1411553 TATAATAAAAATAATTTTATTTAATGATGTAAATTTTAATATAAAA
1 TA-AAT-AAAATAATTTTATTAAATGATATAAATTTTAATATAAAA
1411599 TAAATAAA
1 TAAATAAA
1411607 TTAAAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
44 12 0.26
45 9 0.19
46 22 0.47
47 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (44 bp):
TAAATAAAATAATTTTATTAAATGATATAAATTTTAATATAAAA
Found at i:1412216 original size:18 final size:18
Alignment explanation
Indices: 1412195--1412230 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1412185 TATATAATAG
1412195 AAATTAT-TAATATATTAA
1 AAATTATATAA-ATATTAA
1412213 AAATTATATAAATATTAA
1 AAATTATATAAATATTAA
1412231 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTATATAAATATTAA
Found at i:1414359 original size:15 final size:16
Alignment explanation
Indices: 1414339--1414373 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1414329 ACACGAAAAG
1414339 AAATATAAATATAT-A
1 AAATATAAATATATGA
*
1414354 AAATATGAATATATGA
1 AAATATAAATATATGA
1414370 AAAT
1 AAAT
1414374 TTATGTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AAATATAAATATATGA
Found at i:1415790 original size:51 final size:51
Alignment explanation
Indices: 1415638--1415859 Score: 232
Period size: 51 Copynumber: 4.3 Consensus size: 51
1415628 GATAATAACG
* * * *
1415638 GGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATC-
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTAGAAATAAAACCA
* * * * * *
1415689 GGAGTTAGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTAAAAAAAAAACCA
1 GG-GTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTAGAAATAAAACCA
* *
1415742 CGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCA
* * * * * *
1415793 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTT-GAAAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAG-AAATAAAACCA
1415844 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1415860 TCGGAGGTAA
Statistics
Matches: 143, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
50 1 0.01
51 84 0.59
52 46 0.32
53 12 0.08
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACCA
Found at i:1416007 original size:51 final size:51
Alignment explanation
Indices: 1415945--1416063 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
1415935 AATAACGGGG
* *
1415945 TTGGAATATCCCCGATTGT-GAAAAGTCGGTGCTTTGGAAATAAAATCGAAC
1 TTGGAGTATCCCCGATTGTGGAAAA-TCGGTGCTTTAGAAATAAAATCGAAC
* * * * *
1415996 TTGGAGTATCCCCGATTTTGGAAAATGGGTGTTTTAGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTGGAAAATCGGTGCTTTAGAAATAAAATCGAAC
1416047 TTGGAGTATCCCCGATT
1 TTGGAGTATCCCCGATT
1416064 AAGAGAAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 55 0.92
52 5 0.08
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGGAAAATCGGTGCTTTAGAAATAAAATCGAAC
Found at i:1416080 original size:51 final size:50
Alignment explanation
Indices: 1415981--1416109 Score: 143
Period size: 51 Copynumber: 2.5 Consensus size: 50
1415971 CGGTGCTTTG
* ** *
1415981 GAAATAAAATCGAACTTGGAGTATCCCCGATTTTGGAAAATGGGTGTTTTA
1 GAAATAAAATCGGA-TTGGAGTATCCCCGATTAAGGAAAATGGATGTTTTA
* *
1416032 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAA-GAGAAATTGATGTTTTG
1 GAAATAAAATCGGA-TTGGAGTATCCCCGATTAAGGA-AAATGGATGTTTTA
* *
1416083 GAAATGAAACTGGGATTGGAGTATCCC
1 GAAAT-AAAATCGGATTGGAGTATCCC
1416110 TTCGGAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.03
51 58 0.87
52 7 0.10
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
GAAATAAAATCGGATTGGAGTATCCCCGATTAAGGAAAATGGATGTTTTA
Found at i:1416134 original size:79 final size:79
Alignment explanation
Indices: 1416046--1416220 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 79
1416036 TAAAATCGGA
** * * *
1416046 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTT-GGAAATGAAA-CTGGGATTGGAGTATCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAG-AAT-AAAGCAGGGATTGGAGTATCC
*
1416109 CTTCGGAAATAACGGG
64 CCTCGGAAATAACGGG
* *
1416125 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTGGAGTATCCCC
1416190 TCGGAAATAACGGG
66 TCGGAAATAACGGG
1416204 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
1416221 GATTAACGGG
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 3 0.03
79 82 0.95
80 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTGGAGTATCCCC
TCGGAAATAACGGG
Found at i:1416207 original size:28 final size:27
Alignment explanation
Indices: 1416173--1416247 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
1416163 GAATAAAGCA
**
1416173 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGAGG-AATAAC
* *
1416201 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGAGGAATAAC
*
1416228 GGGGTTAGAGTATCCCCGAG
1 GGGGTTGGAGTATCCCCGAG
1416248 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGAGGAATAAC
Found at i:1418735 original size:13 final size:13
Alignment explanation
Indices: 1418717--1418742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1418707 CAAAGAATAG
1418717 ATGTATCGATACA
1 ATGTATCGATACA
1418730 ATGTATCGATACA
1 ATGTATCGATACA
1418743 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1418739 original size:34 final size:33
Alignment explanation
Indices: 1418696--1418762 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1418686 AACTTCCTAG
*
1418696 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
1418730 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
1418763 TTTCCTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:1418804 original size:13 final size:13
Alignment explanation
Indices: 1418786--1418837 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1418776 AGCTTGTTAG
1418786 CGATACATTGTAT
1 CGATACATTGTAT
1418799 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1418818 CGATACATTGTAT
1 CGATACATTGTAT
1418831 CGATACA
1 CGATACA
1418838 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1418818 original size:19 final size:19
Alignment explanation
Indices: 1418794--1418879 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
1418784 AGCGATACAT
1418794 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1418813 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1418826 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1418845 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1418866 TGTATCGATACAAA
1 TGTATCGATACAAA
1418880 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1418827 original size:32 final size:32
Alignment explanation
Indices: 1418786--1418858 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1418776 AGCTTGTTAG
1418786 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1418818 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1418850 CGATACATT
1 CGATACATT
1418859 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1419540 original size:40 final size:42
Alignment explanation
Indices: 1419496--1419593 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
1419486 TCCACTTTTC
* *
1419496 GAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTT
1 GAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCCTT
* * * *
1419536 GAGGACCAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTT
1 GAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTT
1419578 GAGGACAAAGTGAAAA
1 GAGGACAAAG-GAAAA
1419594 AGAGTACGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 14 0.30
41 4 0.09
42 24 0.52
43 4 0.09
ACGTcount: A:0.42, C:0.12, G:0.30, T:0.16
Consensus pattern (42 bp):
GAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTT
Found at i:1419737 original size:28 final size:28
Alignment explanation
Indices: 1419706--1419792 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
1419696 TGAGGACTAA
1419706 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** ** *
1419734 AAAG-GCGTCCTGCTC-TTTGAGGAC--TG
1 AAAGTGCCACCAACTCGTGTG-GG-CTTTG
*
1419760 AAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAA-GTGCCACCAACTCGTGTGGGCTTTG
1419789 AAAG
1 AAAG
1419793 GCGTCTTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 8 0.20
27 11 0.27
28 14 0.34
29 8 0.20
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:1419761 original size:26 final size:26
Alignment explanation
Indices: 1419732--1419819 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
1419722 GTGTGGGCTT
1419732 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
1419758 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
*
1419785 TTTGAAAGGCGTCTTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
1419813 TGAAAGG
1 TGAAAGG
1419820 TGCCACCAAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 18 0.41
27 5 0.11
28 5 0.11
29 11 0.25
30 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:1419770 original size:55 final size:55
Alignment explanation
Indices: 1419686--1420329 Score: 721
Period size: 55 Copynumber: 11.3 Consensus size: 55
1419676 ATAAAGTGTA
* * *
1419686 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1419741 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1419796 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG-TTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * ** *
1419851 TCTTGCTTTTTGAGAACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
1419912 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTC-
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGG-CG
* *
1419967 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1420022 TCCTGCTATTTGGGGACTGAAAGGTGCTACCAACTTGTG-GGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
1420082 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1420137 TCCTGCTCTTTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1420192 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTT-----TGA-AAGGCG
*
1420253 TCCTGCTCCTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1420312 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1420330 AAAAAGCAGA
Statistics
Matches: 516, Mismatches: 39, Indels: 64
0.83 0.06 0.10
Matches are distributed among these distances:
54 17 0.03
55 317 0.61
56 12 0.02
57 2 0.00
59 28 0.05
60 63 0.12
61 77 0.15
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1420143 original size:170 final size:170
Alignment explanation
Indices: 1419686--1420334 Score: 840
Period size: 170 Copynumber: 3.8 Consensus size: 170
1419676 ATAAAGTGTA
* * * *
1419686 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GCGTCCT
1 TCCTGCTATTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
1419745 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
* *
1419810 GACT-GAAAGGTGCCACCAACTTGTGTGGG-TTTTAAGAGGTG
130 GACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
1419851 TCTTGCTTTTTGAGAACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTATTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1419916 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTC-TCCTGCTCTTTG
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGG-CGTCCTGCTCTTTG
1419979 AGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
128 AGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
1420022 TCCTGCTATTTGGGGACTGAAAGGTGCTACCAACTTGTG-GGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTATTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
* * *
1420086 GCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAA
65 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
* **
1420150 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
129 GGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * * * * *
1420192 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGAGAAGGCGTCCT
1 TCCTGCTATTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
1420257 GCTCCTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCT
65 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCTCT
1420321 TTGAGGACTA-AAAA
125 TTGAGGACTAGAAAA
1420335 GCAGAAGGAG
Statistics
Matches: 427, Mismatches: 34, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
165 38 0.09
166 8 0.02
169 3 0.01
170 175 0.41
171 165 0.39
172 10 0.02
174 5 0.01
175 23 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (170 bp):
TCCTGCTATTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGG
ACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1421329 original size:13 final size:12
Alignment explanation
Indices: 1421313--1421367 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 12
1421303 TTTTCTTTAT
1421313 TTTTTTTTGTTCG
1 TTTTTTTTGTT-G
1421326 TTTTTTTTGTTG
1 TTTTTTTTGTTG
1421338 TTTTTTTT-TTG
1 TTTTTTTTGTTG
1421349 CTTTTGTTTT-TT-
1 -TTTT-TTTTGTTG
1421361 TTTTTTT
1 TTTTTTT
1421368 AGAAAAGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.08
11 7 0.17
12 13 0.32
13 17 0.43
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTTG
Found at i:1421367 original size:20 final size:20
Alignment explanation
Indices: 1421330--1421366 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
1421320 TGTTCGTTTT
1421330 TTTTGTTGTTTTTTTTTTGC
1 TTTTGTTGTTTTTTTTTTGC
1421350 TTTTGTT-TTTTTTTTTT
1 TTTTGTTGTTTTTTTTTT
1421367 TAGAAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (20 bp):
TTTTGTTGTTTTTTTTTTGC
Found at i:1431695 original size:4 final size:4
Alignment explanation
Indices: 1431688--1431720 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
1431678 AAACAAACAG
1431688 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1431721 CACCTCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:1433857 original size:52 final size:50
Alignment explanation
Indices: 1433795--1433915 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 50
1433785 TAATAATGGG
* *
1433795 GTTGGAGTATCCCCGATT-GTGAAAATTTGGTGTTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAG-GAAAA-TTGGTGTTTTGA-AAATAAAACCGGA
* *
1433847 GTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--AGGAAAATTGGTGTTTTGAAAATAAAACCGGA
*
1433899 GTTGGAGTATTCCCGAT
1 GTTGGAGTATCCCCGAT
1433916 GATGAGAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
52 43 0.72
53 11 0.18
54 5 0.08
55 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTAGGAAAATTGGTGTTTTGAAAATAAAACCGGA
Found at i:1434012 original size:27 final size:28
Alignment explanation
Indices: 1433947--1434024 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
1433937 AAATAAAGCT
*
1433947 GGGGTTGGAGTATCCCCTCA-GAGGTAAC
1 GGGGTTGGAGTATCCCC-AATGAGGTAAC
* * *
1433975 GGGGTTTGAGTATCCCCGATGA-TTAAC
1 GGGGTTGGAGTATCCCCAATGAGGTAAC
1434002 GGGGTTGGAGTATCCCCAATGAG
1 GGGGTTGGAGTATCCCCAATGAG
1434025 AAATTGATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCAATGAGGTAAC
Found at i:1434077 original size:102 final size:105
Alignment explanation
Indices: 1433895--1434082 Score: 256
Period size: 102 Copynumber: 1.8 Consensus size: 105
1433885 AAAATAAAAC
* * * *
1433895 CGGGGTTGGAGTATTCCCGATGATGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATTCCCCA-GATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
**
1433960 CCCCTCAGAGGTAACGGGGTTTGAGTATCCCCGATGATTAA
65 CCCCTCAGAAATAACGGGGTTTGAGTATCCCCGATGATTAA
** *
1434001 CGGGGTTGGAGTA-TCCCCA-ATGAGAAATTGATA-TTTAGAAATAAAACCGGGGTTGGAGTGTC
1 CGGGGTTGGAGTATTCCCCAGATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
*
1434063 CCCTCATAAATAACGGGGTT
66 CCCTCAGAAATAACGGGGTT
1434083 GAAATATCCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
102 42 0.58
103 12 0.17
105 5 0.07
106 13 0.18
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (105 bp):
CGGGGTTGGAGTATTCCCCAGATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTTGAGTATCCCCGATGATTAA
Found at i:1434143 original size:51 final size:50
Alignment explanation
Indices: 1434108--1434250 Score: 196
Period size: 51 Copynumber: 2.8 Consensus size: 50
1434098 GTGAAAAGTC
* * *
1434108 GGTGCTTTGGAAATAAAATCGGCGTTGGAGTATCCCCGATTATGGAAAAT
1 GGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAAT
* *
1434158 GAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCACGATTATAGAAAATT
1 G-GTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAA-T
* * *
1434210 AGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 GGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
1434251 GCGGAGAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 79 0.98
52 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (50 bp):
GGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAAT
Found at i:1436634 original size:34 final size:33
Alignment explanation
Indices: 1436591--1436654 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
1436581 AACTTCCTAG
*
1436591 ATGTATCGATACAAAGAATAGATGTATCGATTCA
1 ATGTATCGATACAAAGAA-AAATGTATCGATTCA
*
1436625 ATGTATCGATACACAGAAAAATGTATCGAT
1 ATGTATCGATACAAAGAAAAATGTATCGAT
1436655 ACATTTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATTCA
Found at i:1436713 original size:19 final size:19
Alignment explanation
Indices: 1436689--1436761 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
1436679 AGCGATACAT
1436689 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1436708 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1436727 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1436748 TGTATCGATACAAA
1 TGTATCGATACAAA
1436762 TTATTGGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.65
20 3 0.07
21 13 0.28
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1438226 original size:20 final size:20
Alignment explanation
Indices: 1438186--1438239 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1438176 TTCTACAATT
* *
1438186 TGTATCGATACAATTAGTGAA
1 TGTATTGATAC-ATAAGTGAA
1438207 TGTATTGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
1438227 TGTATTGATACAT
1 TGTATTGATACAT
1438240 GTCTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 21 0.68
21 10 0.32
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:1439970 original size:20 final size:20
Alignment explanation
Indices: 1439927--1439982 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1439917 ACATTATGCT
* *
1439927 TTGTATCGATACATG-TTTA
1 TTGTATCGATACATGAATAA
1439946 TTGTATCGATACATGAATAA
1 TTGTATCGATACATGAATAA
1439966 TTGTATCGATACATGAA
1 TTGTATCGATACATGAA
1439983 ACAAGCAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGAATAA
Found at i:1446952 original size:21 final size:23
Alignment explanation
Indices: 1446911--1446960 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
1446901 TGAAAATAAA
*
1446911 TTTTTATCAAGGAGGAGAAATTT
1 TTTTTATCAAAGAGGAGAAATTT
1446934 TTTTTATCAAAG-GGA-AAATTT
1 TTTTTATCAAAGAGGAGAAATTT
1446955 TTTTTA
1 TTTTTA
1446961 CGAGAGCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.46
22 3 0.12
23 11 0.42
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (23 bp):
TTTTTATCAAAGAGGAGAAATTT
Found at i:1447571 original size:20 final size:20
Alignment explanation
Indices: 1447546--1447583 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1447536 GTATCAATAC
1447546 ATTGTATCGATACATGAAGA
1 ATTGTATCGATACATGAAGA
1447566 ATTGTATCGATACATGAA
1 ATTGTATCGATACATGAA
1447584 ACTGACAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGAAGA
Found at i:1447668 original size:33 final size:32
Alignment explanation
Indices: 1447611--1447674 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1447601 TACCACTATT
*
1447611 TGTATCGATACAATGACATTGTATCGATACAA
1 TGTATCGACACAATGACATTGTATCGATACAA
1447643 TGTATCGACACATGATGA-ATTGTATCGATACA
1 TGTATCGACACA--ATGACATTGTATCGATACA
1447675 TTGCTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 11 0.38
33 14 0.48
34 4 0.14
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCGACACAATGACATTGTATCGATACAA
Found at i:1450080 original size:24 final size:24
Alignment explanation
Indices: 1450037--1450085 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1450027 TTATGTTCCC
* *
1450037 TATCTCTCCAGGGCGTATATGAGA
1 TATCTCTCCAGGGCGCATATAAGA
*
1450061 TATCTCTCCAGGGTGCATATAAGA
1 TATCTCTCCAGGGCGCATATAAGA
1450085 T
1 T
1450086 TAAAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
TATCTCTCCAGGGCGCATATAAGA
Found at i:1451899 original size:18 final size:18
Alignment explanation
Indices: 1451861--1451913 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
1451851 TGGGAAAAGA
1451861 AAAAT-AAAAATAAAAAAT
1 AAAATAAAAAAT-AAAAAT
*
1451879 AAAATAAAAAATAAAATT
1 AAAATAAAAAATAAAAAT
1451897 AAAATGAAATAAATAAA
1 AAAAT-AAA-AAATAAA
1451914 TAAAAGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.48
19 9 0.29
20 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAAAAATAAAAAT
Found at i:1452687 original size:32 final size:32
Alignment explanation
Indices: 1452527--1452999 Score: 110
Period size: 32 Copynumber: 15.1 Consensus size: 32
1452517 AAAACTAATT
* * *
1452527 AAAA-GTGACTAAGGCGAAACC--TTAGTCGA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
* * * *
1452556 AGAAGATGACTAGAGCAAAACCTA-AAGTC-A
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
* * * * *
1452586 AAAAGGCGACTAGGGCGAAACCTAATGGTAAAA
1 AAAAGGTGACTAGGGCAAAACCTATTAGT-CAA
* * * * * *
1452619 AAAAAGTGACTTGAGCGAAGCCTGTT-GTCCAGA
1 AAAAGGTGACTAGGGCAAAACCTATTAGT-CA-A
1452652 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
* * *
1452684 AAAAGGTGACTGGGGC---ACATATTAGTCGA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
* **** * * * * *
1452713 AATAGGTGACTAGTATGAAGCTTAATGGTTGAA
1 AAAAGGTGACTAGGGCAAAACCTATTAG-TCAA
* * * *
1452746 AAAA-GTGACAAAGGCAAAATCTATTAGTTGAA
1 AAAAGGTGACTAGGGCAAAACCTATTAG-TCAA
* ** * *
1452778 AAGAA--TGAATAACG-AGAAA-TTGATTAGTTAA
1 AA-AAGGTGACTAGGGCA-AAACCT-ATTAGTCAA
* * ** *
1452809 GAGAGACGACTAGGGCGAAACCTATTAG--AA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
*
1452839 AAGAA-GTGACTAGGGCAAAACCTATTAAT-AA
1 AA-AAGGTGACTAGGGCAAAACCTATTAGTCAA
* * * **
1452870 GGAGAA-GTG-CTTAGGACAACACCTATTAGTTGA
1 --AAAAGGTGAC-TAGGGCAAAACCTATTAGTCAA
* * **
1452903 AATAGGTGACTAAGGCGGAACC-ATTTAGT-AA
1 AAAAGGTGACTAGGGCAAAACCTA-TTAGTCAA
** * *
1452934 AAAAAATGACTACGGCAAAACCTATTAGACGAA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTC-AA
* *
1452967 AAAA-GTGAATAGGGCAACACCTATTAGTCAA
1 AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
1452998 AA
1 AA
1453000 GAGGCAATAA
Statistics
Matches: 314, Mismatches: 99, Indels: 60
0.66 0.21 0.13
Matches are distributed among these distances:
29 25 0.08
30 56 0.18
31 44 0.14
32 127 0.40
33 60 0.19
34 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (32 bp):
AAAAGGTGACTAGGGCAAAACCTATTAGTCAA
Found at i:1452898 original size:94 final size:94
Alignment explanation
Indices: 1452800--1453052 Score: 237
Period size: 94 Copynumber: 2.7 Consensus size: 94
1452790 CGAGAAATTG
* *
1452800 ATTAGTTAAGAGAGACGACTAGGGCGAAACCTATTAG-AAAAGAAGTGACTAGGGCAAAACCTAT
1 ATTAGTTAA-AGAGGCGACTAAGGCGAAACCTATTAGTAAAAGAAGTGACTAGGGCAAAACCTAT
* * **
1452864 TA-A-TAAGGAGAAGTGCTTAGGACAACACCT
65 TAGACGAA--AAAAGTGAATAGGACAACACCT
* * * * * *
1452894 ATTAGTTGAAATAGGTGACTAAGGCGGAACC-ATTTAGTAAAAAAAATGACTACGGCAAAACCTA
1 ATTAGTT-AAAGAGGCGACTAAGGCGAAACCTA-TTAGTAAAAGAAGTGACTAGGGCAAAACCTA
*
1452958 TTAGACGAAAAAAGTGAATAGGGCAACACCT
64 TTAGACGAAAAAAGTGAATAGGACAACACCT
* * * * * * *
1452989 ATTAGTCAAAAGAGGC-AATAAGGTGAAACTTTTTAGTTAAAGAAGTGACTAGGGCAGAACCTAT
1 ATTAGT-TAAAGAGGCGACTAAGGCGAAACCTATTAGTAAAAGAAGTGACTAGGGCAAAACCTAT
1453053 CCATCGAGAA
Statistics
Matches: 126, Mismatches: 26, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
93 1 0.01
94 64 0.51
95 58 0.46
96 1 0.01
97 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (94 bp):
ATTAGTTAAAGAGGCGACTAAGGCGAAACCTATTAGTAAAAGAAGTGACTAGGGCAAAACCTATT
AGACGAAAAAAGTGAATAGGACAACACCT
Found at i:1455606 original size:35 final size:37
Alignment explanation
Indices: 1455567--1455654 Score: 107
Period size: 35 Copynumber: 2.5 Consensus size: 37
1455557 CTGTAGAATG
1455567 GCTAAGATAAGAACCTCTT-TC-TTATC-TTTTCACAA
1 GCTAAGATAAGAACCTCTTCTCTTTATCTTTTTCA-AA
*
1455602 GCTAAGACAA-AACCT-TTCTCTTTATCTTTTTCAAA
1 GCTAAGATAAGAACCTCTTCTCTTTATCTTTTTCAAA
1455637 GACTAAGAT-AGAACCTCT
1 G-CTAAGATAAGAACCTCT
1455655 CAATCACTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
33 2 0.04
34 7 0.16
35 18 0.40
36 17 0.38
37 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (37 bp):
GCTAAGATAAGAACCTCTTCTCTTTATCTTTTTCAAA
Found at i:1455652 original size:36 final size:34
Alignment explanation
Indices: 1455567--1455654 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 34
1455557 CTGTAGAATG
1455567 GCTAAGATAAGAACCTCTTTCTTATCTTTTCACAA
1 GCTAAGAT-AGAACCTCTTTCTTATCTTTTCACAA
* *
1455602 GCTAAGACAAAACCT-TTCTCTTTATCTTTTTCA-AA
1 GCTAAGATAGAACCTCTT-TC-TTATC-TTTTCACAA
1455637 GACTAAGATAGAACCTCT
1 G-CTAAGATAGAACCTCT
1455655 CAATCACTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 2 0.05
34 8 0.18
35 15 0.34
36 18 0.41
37 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (34 bp):
GCTAAGATAGAACCTCTTTCTTATCTTTTCACAA
Found at i:1456102 original size:20 final size:20
Alignment explanation
Indices: 1456073--1456110 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1456063 CCATTGGGCT
1456073 TAATGGATCGATACAATTCA
1 TAATGGATCGATACAATTCA
*
1456093 TAATGTATCGATACAATT
1 TAATGGATCGATACAATT
1456111 ATAGTCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (20 bp):
TAATGGATCGATACAATTCA
Found at i:1456339 original size:21 final size:21
Alignment explanation
Indices: 1456313--1456355 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1456303 TCAACCTTTC
1456313 TGTATCAATACAA-ATAGTATA
1 TGTATCAATACAACAT-GTATA
*
1456334 TGTATCGATACAACATGTATA
1 TGTATCAATACAACATGTATA
1456355 T
1 T
1456356 TTTCTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCAATACAACATGTATA
Found at i:1457272 original size:16 final size:17
Alignment explanation
Indices: 1457251--1457284 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1457241 CAACGAAAGT
*
1457251 AAGCATGT-AGCAAACA
1 AAGCATGTGAGAAAACA
1457267 AAGCATGTGAGAAAACA
1 AAGCATGTGAGAAAACA
1457284 A
1 A
1457285 CATATTCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.12
Consensus pattern (17 bp):
AAGCATGTGAGAAAACA
Found at i:1457661 original size:13 final size:13
Alignment explanation
Indices: 1457643--1457667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1457633 ATATTGCTTA
1457643 GTATCGATACATT
1 GTATCGATACATT
1457656 GTATCGATACAT
1 GTATCGATACAT
1457668 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1457666 original size:33 final size:32
Alignment explanation
Indices: 1457622--1457685 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
1457612 CACACCCAGA
1457622 TGTATCAATACATATTGC-TTAGTATCGATACAT
1 TGTATCAATACATATT-CATT-GTATCGATACAT
* *
1457655 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCAATACATATTCATTGTATCGATACA
1457686 CCTTGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTATCAATACATATTCATTGTATCGATACAT
Found at i:1463154 original size:42 final size:42
Alignment explanation
Indices: 1463102--1463193 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 42
1463092 GGGAGAAGTC
*
1463102 ATTAAAGAGGAG-AAGTATGAGTTTTA-AAAAGAGGGAAAATTT
1 ATTAAGGAGGAGAAAGT-T-AGTTTTATAAAAGAGGGAAAATTT
* *
1463144 ATTAAGGAGGAGAAAAGTTATTTTTATAAAAGAGGGATAATTT
1 ATTAAGGAGGAG-AAAGTTAGTTTTATAAAAGAGGGAAAATTT
*
1463187 GTTAAGG
1 ATTAAGG
1463194 GAGTATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
42 17 0.40
43 22 0.51
44 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (42 bp):
ATTAAGGAGGAGAAAGTTAGTTTTATAAAAGAGGGAAAATTT
Found at i:1464925 original size:123 final size:122
Alignment explanation
Indices: 1464700--1464953 Score: 490
Period size: 123 Copynumber: 2.1 Consensus size: 122
1464690 TGGTTCATTC
1464700 AATCCTTGACCTTACATAGTCAAGTACAAAGAAACTAATCCTACGAACATTCAACTACTCCTATC
1 AATCCTTGACCTTACATAGTCAAGTACAAAGAAACTAATCCTACGAACATTCAACTACTCCTATC
*
1464765 AAAGTGACTAATCCTATGACTAATCGTTGGTAGGGTTAGTTAGACCACGTCGAATGT
66 AAAGTGACTAATCCTATGACTAATCGTTGGTAGGGTTAGTCAGACCACGTCGAATGT
1464822 AATCCTATGACCTTACATAGTCAAGTACAAAGAAACTAATCCTACGAACATTCAACTACTCCTAT
1 AATCCT-TGACCTTACATAGTCAAGTACAAAGAAACTAATCCTACGAACATTCAACTACTCCTAT
1464887 CAAAGTGACTAATCCTATGACTAATCGTTGGTAGGGTTAGTCAGACCACGTCGAATGT
65 CAAAGTGACTAATCCTATGACTAATCGTTGGTAGGGTTAGTCAGACCACGTCGAATGT
1464945 AATCCTTGA
1 AATCCTTGA
1464954 TTGCGGTGAA
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
122 9 0.07
123 121 0.93
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (122 bp):
AATCCTTGACCTTACATAGTCAAGTACAAAGAAACTAATCCTACGAACATTCAACTACTCCTATC
AAAGTGACTAATCCTATGACTAATCGTTGGTAGGGTTAGTCAGACCACGTCGAATGT
Found at i:1466514 original size:19 final size:19
Alignment explanation
Indices: 1466473--1466518 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1466463 AGTCAAAATG
*
1466473 TATCGATACAATTCTAATG
1 TATCGATACAATTCTAATA
*
1466492 TATCGATACAATTTCT-TTA
1 TATCGATACAA-TTCTAATA
1466511 TATCGATA
1 TATCGATA
1466519 GATCCAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (19 bp):
TATCGATACAATTCTAATA
Found at i:1467977 original size:32 final size:33
Alignment explanation
Indices: 1467919--1467983 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1467909 CATATCTAGA
* *
1467919 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTAGCGATACATTATGCATTGTATCGATACAT
*
1467952 TGTAGCGATACA-TATTCATTGTATCGATACAT
1 TGTAGCGATACATTATGCATTGTATCGATACAT
1467984 GTACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTAGCGATACATTATGCATTGTATCGATACAT
Found at i:1467994 original size:20 final size:19
Alignment explanation
Indices: 1467947--1468004 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
1467937 TTTGTATCGA
* *
1467947 TACATTGTAGCGATACATA
1 TACATTGTATCGATACATG
*
1467966 TTCATTGTATCGATACATG
1 TACATTGTATCGATACATG
1467985 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
1468005 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:1468057 original size:19 final size:20
Alignment explanation
Indices: 1468033--1468085 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1468023 CTACCATTGT
* *
1468033 TTGTATCGATACATGCA-CA
1 TTGTATCGATACATGAAGAA
1468052 TTGTATCGATACATGAAGAA
1 TTGTATCGATACATGAAGAA
*
1468072 TTATATCGATACAT
1 TTGTATCGATACAT
1468086 TGTCCCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATGAAGAA
Found at i:1468080 original size:20 final size:19
Alignment explanation
Indices: 1468036--1468085 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
1468026 CCATTGTTTG
* * *
1468036 TATCGATACATGCACATTG
1 TATCGATACATGAAAATTA
1468055 TATCGATACATGAAGAATTA
1 TATCGATACATGAA-AATTA
1468075 TATCGATACAT
1 TATCGATACAT
1468086 TGTCCCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
TATCGATACATGAAAATTA
Found at i:1469557 original size:33 final size:32
Alignment explanation
Indices: 1469502--1469566 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1469492 TTTGAAGCAA
*
1469502 TGTATCGATACAATTCATCATGTATTGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
1469535 TGTATCGATACAATGTGC-CATGTATCGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
1469567 AACAATGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:1469642 original size:19 final size:18
Alignment explanation
Indices: 1469596--1469651 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
1469586 CTGCCAGTTT
*
1469596 CATGTATCGATACAATTGT
1 CATGTATCGATACAA-TGA
*
1469615 CTGTGTATCGATACAATGAA
1 C-ATGTATCGATACAATG-A
1469635 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1469652 TATCGATGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
CATGTATCGATACAATGA
Found at i:1470273 original size:21 final size:20
Alignment explanation
Indices: 1470222--1470274 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
1470212 TAAGGCTCTC
* * *
1470222 ATAAAAAATTTTTCCCCTTG
1 ATAAAAAATTTCTCCCCCTA
1470242 ATAAAATAAATTTCTCCCTCCTA
1 AT-AAA-AAATTTCTCCC-CCTA
1470265 ATAAAAAATT
1 ATAAAAAATT
1470275 ATTTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 13 0.48
23 4 0.15
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (20 bp):
ATAAAAAATTTCTCCCCCTA
Found at i:1472004 original size:22 final size:21
Alignment explanation
Indices: 1471971--1472020 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1471961 TTTGTTGATG
*
1471971 ATTTT-AA-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1471991 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1472012 AATTTGAAG
1 ATTTTGAAG
1472021 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1472017 original size:21 final size:22
Alignment explanation
Indices: 1471978--1472020 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1471968 ATGATTTTAA
* *
1471978 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1472000 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1472021 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1478342 original size:13 final size:13
Alignment explanation
Indices: 1478324--1478348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1478314 CAATTCATCA
1478324 TGTATCGATACAT
1 TGTATCGATACAT
1478337 TGTATCGATACA
1 TGTATCGATACA
1478349 AATTTGCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1479666 original size:15 final size:15
Alignment explanation
Indices: 1479646--1479680 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1479636 AACAATCAAA
1479646 GATGATCAAGATAAT
1 GATGATCAAGATAAT
* *
1479661 GATGATGATGATAAT
1 GATGATCAAGATAAT
1479676 GATGA
1 GATGA
1479681 AGTTGACTCG
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:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (15 bp):
GATGATCAAGATAAT
Found at i:1480495 original size:40 final size:40
Alignment explanation
Indices: 1480433--1480511 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
1480423 CCTTTGAGAA
1480433 AGAAACAAAATTTTAAAATTTTTTTTTCAAGCATAATCCT
1 AGAAACAAAATTTTAAAATTTTTTTTTCAAGCATAATCCT
1480473 AGAAA-AAAA-TTTAAGAATTTTTTTTTCAAGCATAATCCT
1 AGAAACAAAATTTTAA-AATTTTTTTTTCAAGCATAATCCT
1480512 CGATATGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 5 0.13
39 28 0.74
40 5 0.13
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.39
Consensus pattern (40 bp):
AGAAACAAAATTTTAAAATTTTTTTTTCAAGCATAATCCT
Found at i:1483965 original size:13 final size:13
Alignment explanation
Indices: 1483947--1483971 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1483937 CATAAAGTGT
1483947 TGTATCGATACAA
1 TGTATCGATACAA
1483960 TGTATCGATACA
1 TGTATCGATACA
1483972 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1483965 original size:33 final size:33
Alignment explanation
Indices: 1483927--1483993 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1483917 TTCAACAATT
1483927 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1483960 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1483993 T
1 T
1483994 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1484110 original size:32 final size:32
Alignment explanation
Indices: 1484069--1484143 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 32
1484059 CTGATCTTTG
*
1484069 TATCGATACATGCAGGCAAATTTGCCCAGATA
1 TATCGATACATGCAAGCAAATTTGCCCAGATA
*
1484101 TATCGATACATGCAAGCAAATTTGCCCAGATG
1 TATCGATACATGCAAGCAAATTTGCCCAGATA
1484133 TATCGATACAT
1 TATCGATACAT
1484144 TATAAAATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (32 bp):
TATCGATACATGCAAGCAAATTTGCCCAGATA
Found at i:1484183 original size:52 final size:52
Alignment explanation
Indices: 1484102--1484227 Score: 189
Period size: 52 Copynumber: 2.4 Consensus size: 52
1484092 GCCCAGATAT
* *
1484102 ATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATAAAATGT
1 ATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAATGC
* **
1484154 ATTGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTCAATGC
1 ATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAATGC
* *
1484206 ATCGATACATGCAGGTAAATTT
1 ATCGATACATGCAAGCAAATTT
1484228 TCATATTTTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
ATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAATGC
Found at i:1487871 original size:20 final size:21
Alignment explanation
Indices: 1487846--1487885 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1487836 ATTTTCTAGA
1487846 ATGTATCGATACA-TTGAAAG
1 ATGTATCGATACATTTGAAAG
1487866 ATGTATCGATACATTTGAAA
1 ATGTATCGATACATTTGAAA
1487886 AAACTCAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTTGAAAG
Found at i:1490353 original size:10 final size:10
Alignment explanation
Indices: 1490316--1490353 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
1490306 ACTAGCTTAG
1490316 TTTTTTCTAT
1 TTTTTTCTAT
*
1490326 TTTTTCCTAT
1 TTTTTTCTAT
*
1490336 TTTCTTCTAT
1 TTTTTTCTAT
1490346 TTTTTTCT
1 TTTTTTCT
1490354 TGCTTTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:1490684 original size:15 final size:15
Alignment explanation
Indices: 1490659--1490692 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
1490649 ATAAACTCGT
1490659 AAAATTTTACA-AGA
1 AAAATTTTACATAGA
1490673 AAAATCTTTACATAGA
1 AAAAT-TTTACATAGA
1490689 AAAA
1 AAAA
1490693 ATCAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 6 0.33
16 7 0.39
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAATTTTACATAGA
Found at i:1493619 original size:20 final size:20
Alignment explanation
Indices: 1493594--1493672 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
1493584 ACTGCCAAGG
1493594 AAATGTATCGATACATTACC
1 AAATGTATCGATACATTACC
*
1493614 AAATGTATTGATACATGTTTA-C
1 AAATGTATCGATACA---TTACC
* *
1493636 AATTGTATCGATACATTTCTC
1 AAATGTATCGATACATTAC-C
*
1493657 -ATTGTATCGATACATT
1 AAATGTATCGATACATT
1493673 CTGGGTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.04
20 30 0.60
21 1 0.02
22 14 0.28
23 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTACC
Found at i:1501414 original size:20 final size:21
Alignment explanation
Indices: 1501389--1501427 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1501379 TTCCCGTGTA
1501389 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
1501409 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
1501428 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:1501500 original size:13 final size:13
Alignment explanation
Indices: 1501482--1501507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1501472 CAATTTTTTG
1501482 TGTATCGATACAT
1 TGTATCGATACAT
1501495 TGTATCGATACAT
1 TGTATCGATACAT
1501508 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1501572 original size:21 final size:21
Alignment explanation
Indices: 1501546--1501621 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1501536 CTGCCAAGAA
*
1501546 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1501567 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1501587 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1501608 ATGTATCGATACAT
1 ATGTATCGATACAT
1501622 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1501592 original size:20 final size:20
Alignment explanation
Indices: 1501567--1501639 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1501557 CATCTTTTTT
1501567 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1501587 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1501608 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1501628 ATGTATCGATAC
1 ATGTATCGATAC
1501640 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1501603 original size:41 final size:41
Alignment explanation
Indices: 1501546--1501639 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1501536 CTGCCAAGAA
*
1501546 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1501587 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1501628 ATGTATCGATAC
1 ATGTATCGATAC
1501640 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1504100 original size:13 final size:13
Alignment explanation
Indices: 1504082--1504120 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1504072 ATAATCACCC
*
1504082 TGTATCGATACAG
1 TGTATCGATACAA
1504095 TGTATCGATACAA
1 TGTATCGATACAA
1504108 TGTATCGATACAA
1 TGTATCGATACAA
1504121 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1504131 original size:20 final size:20
Alignment explanation
Indices: 1504106--1504184 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1504096 GTATCGATAC
1504106 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1504126 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1504151 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1504171 CATGTATCGATACA
1 AATGTATCGATACA
1504185 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1510223 original size:20 final size:21
Alignment explanation
Indices: 1510198--1510236 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1510188 TTCCCGTGTA
1510198 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
1510218 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
1510237 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:1510309 original size:13 final size:13
Alignment explanation
Indices: 1510291--1510316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1510281 CAATTTTTTG
1510291 TGTATCGATACAT
1 TGTATCGATACAT
1510304 TGTATCGATACAT
1 TGTATCGATACAT
1510317 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1510381 original size:21 final size:21
Alignment explanation
Indices: 1510355--1510430 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1510345 CTGCCAAGAA
*
1510355 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1510376 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1510396 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1510417 ATGTATCGATACAT
1 ATGTATCGATACAT
1510431 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1510401 original size:20 final size:20
Alignment explanation
Indices: 1510376--1510448 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1510366 CATCTTTTTT
1510376 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1510396 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1510417 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1510437 ATGTATCGATAC
1 ATGTATCGATAC
1510449 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1510412 original size:41 final size:41
Alignment explanation
Indices: 1510355--1510448 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1510345 CTGCCAAGAA
*
1510355 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1510396 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1510437 ATGTATCGATAC
1 ATGTATCGATAC
1510449 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1510817 original size:52 final size:52
Alignment explanation
Indices: 1510739--1510847 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
1510729 GATCCTAACA
* *
1510739 ATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCG
1 ATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCG
*
1510791 ATACATTTTATAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCG
1 ATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCG
1510843 ATACA
1 ATACA
1510848 AAGATCAGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
ATACATTTAATAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCG
Done.