Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 8 of 145
Found at i:2868835 original size:65 final size:65
Alignment explanation
Indices: 2868755--2868883 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 65
2868745 TGTTCCCTTG
* *
2868755 TTTTCTTGGCAACCAAACAGAAAAGAGCCATGTAATCAAAGAAACCATATTGTAAATGCATTGAT
1 TTTTCTTGGCAACCAAACAAAAAAAAGCCATGTAATCAAAGAAACCATATTGTAAATGCATTGAT
*
2868820 TTTTCTTGGCAACCAAACAAAAAAAAGCCATGTAATTAAAGAAACCATATTGTAAATGCATTGA
1 TTTTCTTGGCAACCAAACAAAAAAAAGCCATGTAATCAAAGAAACCATATTGTAAATGCATTGA
2868884 AAAATAAACT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (65 bp):
TTTTCTTGGCAACCAAACAAAAAAAAGCCATGTAATCAAAGAAACCATATTGTAAATGCATTGAT
Found at i:2870428 original size:29 final size:28
Alignment explanation
Indices: 2870396--2870468 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
2870386 TTTATGATTT
* *
2870396 TTTTAATACTTTTTATAAGTTTATATC-AA
1 TTTTAATATTTTTTATAAATTT-TA-CAAA
2870425 TTTTAATATTTTTTTATAAATTTTACAAA
1 TTTTAATA-TTTTTTATAAATTTTACAAA
*
2870454 TTTTATTATTTTTTA
1 TTTTAATATTTTTTA
2870469 AGAATTCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
28 8 0.21
29 19 0.49
30 12 0.31
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTAATATTTTTTATAAATTTTACAAA
Found at i:2871186 original size:20 final size:21
Alignment explanation
Indices: 2871158--2871196 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2871148 CATTTCTTAA
2871158 CATTATTTAATATTTTTATTT
1 CATTATTTAATATTTTTATTT
*
2871179 CATT-TTTAATTTTTTTAT
1 CATTATTTAATATTTTTAT
2871197 AACAGTCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTATTTAATATTTTTATTT
Found at i:2875372 original size:24 final size:23
Alignment explanation
Indices: 2875341--2875385 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
2875331 TATACATACC
* *
2875341 TTATTATATATCTTTATATCTTA
1 TTATTATATATATCTATATCTTA
2875364 TTATGTATATATATCTATATCT
1 TTAT-TATATATATCTATATCT
2875386 CTTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATATATATCTATATCTTA
Found at i:2875711 original size:17 final size:15
Alignment explanation
Indices: 2875673--2875712 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
2875663 TTACGTTTTA
2875673 TTTGTTATTATTATT
1 TTTGTTATTATTATT
2875688 TTT-TTATTATTATT
1 TTTGTTATTATTATT
2875702 GTTTGCTTATT
1 -TTTG-TTATT
2875713 TATTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.50
15 6 0.27
17 5 0.23
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTGTTATTATTATT
Found at i:2880493 original size:13 final size:13
Alignment explanation
Indices: 2880475--2880502 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2880465 ATTTAGTATT
2880475 TATATAATAAATA
1 TATATAATAAATA
2880488 TATATAATAAATA
1 TATATAATAAATA
2880501 TA
1 TA
2880503 CTTTTTATTT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:2881811 original size:11 final size:11
Alignment explanation
Indices: 2881759--2881819 Score: 55
Period size: 12 Copynumber: 6.0 Consensus size: 11
2881749 ATATAATAAA
2881759 AAATATTTTTT
1 AAATATTTTTT
2881770 --ATATTTTTT
1 AAATATTTTTT
2881779 -AA-A--TTTT
1 AAATATTTTTT
2881786 AAA-ATTTTTT
1 AAATATTTTTT
2881796 AAAATATTTTTT
1 -AAATATTTTTT
2881808 AAATACTTTTTT
1 AAATA-TTTTTT
2881820 TAAAAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 10 0.23
10 5 0.12
11 8 0.19
12 13 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:2885436 original size:44 final size:44
Alignment explanation
Indices: 2885388--2885968 Score: 350
Period size: 44 Copynumber: 13.3 Consensus size: 44
2885378 TGAGATAGTG
* * * *
2885388 TTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAAATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * **
2885432 TTGGTTTATTCAGTCTGCTCCACTGCAATTTCATAGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
2885476 CCT-G---ATGCGATCTGC-CCTACTGCAACTTCAGAGAGATAAGA
1 -TTGGTTTATTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGA
*** * * *
2885517 TCCATCATT-TT-AATCTGCTCCGCTGCAACTTCAAGGAGATAGGA
1 TTGGT--TTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
2885561 TTGGTTTATTCAATTTGCTCCACTACAACTTCAGGGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
2885605 TTGGTTTATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
2885649 CCT-G---ATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGA
1 -TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
*** ** * * *
2885690 TCCATCATT-TT-AATCCACTCCGCTGCAACTTCAGAGAGATAGGA
1 TTGGT--TTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
2885734 TTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
2885778 TTGGTTTATTCAGTCTACTCCACTGTAACTTCAAGGGAGATGAGGC
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTC-AGGGAGAT-AAGA
* * *** *
2885824 CT-GATT-TT-AATCCATTCCACTGCAACTTCAGGGAGATAGGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** *
2885865 TT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TTGGTT-TATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *** * * *
2885909 CTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGGGATAAGA
1 -TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
2885954 CTTGCTTTCTTCAAT
1 -TTGGTTTATTCAAT
2885969 TTTAATGCCA
Statistics
Matches: 409, Mismatches: 101, Indels: 53
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.00
41 63 0.15
42 12 0.03
43 23 0.06
44 244 0.60
45 62 0.15
46 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:2885556 original size:85 final size:85
Alignment explanation
Indices: 2885445--2885730 Score: 278
Period size: 85 Copynumber: 3.3 Consensus size: 85
2885435 GTTTATTCAG
*
2885445 TCTGCTCCACTGCAATTTCATA-GAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAG
1 TCTGCTCCACTGCAACTTCA-AGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAG
2885509 AGATAAGATCCATCATTTTAA
65 AGATAAGATCCATCATTTTAA
* * * * * * *
2885530 TCTGCTCCGCTGCAACTTCAAGGAGATAGGA-TTGGTTTATTCAATTTGCTCC-ACTACAACTTC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCT-G---ATGCGATCTGC-CCTACTGCAACTTC
* *** *
2885593 AGGGAGATAAGATTGGT--TTATTCAG
61 AGAGAGATAAGATCCATCATT-TT-AA
* * *
2885618 TCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAGA
2885683 GATAAGATCCATCATTTTAA
66 GATAAGATCCATCATTTTAA
** *
2885703 TCCACTCCGCTGCAACTTC-AGAGAGATA
1 TCTGCTCCACTGCAACTTCAAG-GAGATA
2885731 GGATTGGTTT
Statistics
Matches: 156, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
84 5 0.03
85 79 0.51
86 4 0.03
87 4 0.03
88 61 0.39
89 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAGA
GATAAGATCCATCATTTTAA
Found at i:2885558 original size:173 final size:173
Alignment explanation
Indices: 2885309--2885828 Score: 778
Period size: 173 Copynumber: 3.0 Consensus size: 173
2885299 AAAAGTCTGG
* * * * * * *
2885309 TGCGATATGCTCTATTGCAGCTTCAAAGAGATAATAT-CATCATTTTAATCCGTTCCGCTACAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* *
2885373 TTCAATGAGATAGTG-TTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAAATAAGATTGGT
66 TTCAAGGAGATAG-GATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGT
2885437 TTATTCAGTCTGCTCCACTGCAATTTCATA-GAGATAAGACCTGA
130 TTATTCAGTCTGCTCCACTGCAATTTCA-AGGAGATAAGACCTGA
* *
2885481 TGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCTGCTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
*
2885546 TTCAAGGAGATAGGATTGGTTTATTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
66 TTCAAGGAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
2885611 TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
131 TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
* *
2885654 TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* * *
2885719 TTC-AGAGAGATAGGATTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAGATAAGATTGGT
66 TTCAAG-GAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGT
* * * * *
2885783 TTATTCAGTCTACTCCACTGTAACTTCAAGGGAGATGAGGCCTGA
130 TTATTCAGTCTGCTCCACTGCAATTTCAA-GGAGATAAGACCTGA
2885828 T
1 T
2885829 TTTAATCCAT
Statistics
Matches: 318, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
172 35 0.11
173 269 0.85
174 14 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (173 bp):
TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
TTCAAGGAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
Found at i:2885860 original size:131 final size:129
Alignment explanation
Indices: 2885578--2885909 Score: 352
Period size: 131 Copynumber: 2.6 Consensus size: 129
2885568 ATTCAATTTG
* * * * *
2885578 CTCCACTACAACTTCAGGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAATTTCA-AGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGA-GA
* * *
2885642 GATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTAATCCA
65 GATAAGACCTGATGCGATCTACTCCACTGTAACTTCAGAGAGATAAGAGCCATCATTTTAATCCA
* * * *
2885707 CTCCGCTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGAGAG
* * * * *
2885772 ATAAGA-TTGGTTTATTC-AGTCTACTCCACTGTAACTTCAAGGGAGATGAG-GCC-TGATTTTA
66 ATAAGACCT-G---ATGCGA-TCTACTCCACTGTAACTTC-AGAGAGATAAGAGCCATCATTTTA
2885833 ATCCA
125 ATCCA
* * * * *
2885838 TTCCACTGCAACTTCAGGGAGATAGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTT-TCTTCAATCTGCTCCACTGCAACTTCAGAGA
2885902 GATAAGAC
65 GATAAGAC
2885910 TCGCCATCTT
Statistics
Matches: 168, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
128 1 0.01
129 61 0.36
130 3 0.02
131 72 0.43
132 22 0.13
133 9 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGAGAG
ATAAGACCTGATGCGATCTACTCCACTGTAACTTCAGAGAGATAAGAGCCATCATTTTAATCCA
Found at i:2886046 original size:51 final size:50
Alignment explanation
Indices: 2885986--2886114 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 50
2885976 CCAGGGAGAT
* * *
2885986 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAA
1 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
* * * * *
2886036 CAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAAGAGA
1 -AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
*
2886087 TAGTATTCGCTGCCTTCAGCTTTAATCT
1 AAG-ATTCGCTGCCTTCAGCTTTAATCT
2886115 ACTCAATTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 2 0.03
51 64 0.97
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (50 bp):
AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
Found at i:2886218 original size:123 final size:123
Alignment explanation
Indices: 2885999--2886477 Score: 415
Period size: 123 Copynumber: 3.8 Consensus size: 123
2885989 ATTCGCTGCC
* * *
2885999 TTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
** * * *
2886064 GTTCCACTGTAACACCAAAGAGAT-AGTATTCGCTGCCTTCAGCTTTAATCTACTCAAT
66 GTTCCACTACAACGCCAAGGAAATAAG-ATTCGCTGCCTTCAGCTTTAATCTACTCAAT
* * *
2886122 TTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
* * * * * * * *
2886187 ATTCCACTGCAATGTCAGGGAAATAAGATTCGCTG-CTCTCAG-TCTTAACGCTAGGGAGATAAG
66 GTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCT-TCAGCT-TTAA-TCT----A-CTCA-
2886250 ATT
122 A-T
* ** * * *
2886253 CGCTATCTTAGCTTTAATCTGCTCTGCTACAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTT
1 ---T-TC--AGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * * * ** *
2886318 TAATTTGTTCCACTATAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCAT
60 TAATCTGTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTCAAT
* * * * *
2886382 TTCAGTTTTAATCTATTCCATTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCG
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
* * * *
2886447 GTTCTACTACAATGCTATGGAAATAAGATTC
66 GTTCCACTACAACGCCAAGGAAATAAGATTC
2886478 ACTACCTTTA
Statistics
Matches: 277, Mismatches: 60, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
122 3 0.01
123 165 0.60
124 4 0.01
125 2 0.01
126 1 0.00
128 1 0.00
129 3 0.01
130 2 0.01
131 2 0.01
134 1 0.00
135 2 0.01
136 1 0.00
137 87 0.31
138 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (123 bp):
TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
GTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTCAAT
Found at i:2886292 original size:86 final size:87
Alignment explanation
Indices: 2886146--2886306 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 87
2886136 ATTCCACTGC
* * * *
2886146 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTATTCCACTGCAATGTCAGGGAAAT
1 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
2886211 AAGATTCGCTGCTCTCAGTCTT
66 AAGATTCGCTGCTCTCAGTCTT
* * * * * * **
2886233 AACGCTAGGGAGATAAGATTCGCTATC-TTAGCTTTAATCTGCTCTGCTACAATGCCAGGGAAAC
1 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
2886297 AAGATTCGCT
66 AAGATTCGCT
2886307 ACTTTTAGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 40 0.65
87 22 0.35
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
AAGATTCGCTGCTCTCAGTCTT
Found at i:2886329 original size:260 final size:261
Alignment explanation
Indices: 2885978--2886563 Score: 827
Period size: 260 Copynumber: 2.2 Consensus size: 261
2885968 TTTTAATGCC
* *
2885978 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAACAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
* *
2886043 CGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAAGAGATAGTATTCGCTGCCTTCAGCT
66 CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
*
2886108 TTAATCTACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
131 TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
* * * *
2886173 TTTAGCTTTAATCTATTCCACTGCAATG-TCAGGGAAATAAGATTCGCT-GCTCTCAGTCTTAAC
196 TTTAGCTTTAATCGATTCCACTACAATGCT-AGGGAAATAAGATTCACTACCT-TCAGTCTTAAC
2886236 GCT
259 GCT
** ** * *
2886239 AGGGAGATAAGATTCGCTATCTT-AGCTTTAATCTGCTCTGCTACAATGCCAGGGAAACAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
* * * *
2886303 CGCTACTTTTAGCTTTAATTTGTTCCACTATAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCT
66 CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
* * * * * *
2886368 TTAATCCGCTCCATTTCAGTTTTAATCTATTCCATTGCAACGCTAGGGAAACAAGATTCGCTACC
131 TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
* * * * *
2886433 TTTAGCTTTAATCGGTTCTACTACAATGCTATGGAAATAAGATTCACTACCTTTAGTCTTAATGC
196 TTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAACGC
2886498 T
261 T
* * * *
2886499 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAAATAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
2886564 TGTTGCCTTC
Statistics
Matches: 284, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
260 225 0.79
261 59 0.21
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (261 bp):
AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
TTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAACGC
T
Found at i:2886354 original size:51 final size:51
Alignment explanation
Indices: 2886232--2886380 Score: 147
Period size: 51 Copynumber: 2.9 Consensus size: 51
2886222 CTCTCAGTCT
* * **
2886232 TAACGCTAGGGAGATAAGATTCGCTA-TCTTAGCTTTAATCTGCTCTGCTA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
* * * * * *
2886282 CAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATTTGTTCCACTA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
* * * * * *
2886333 TAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCA
2886381 TTTCAGTTTT
Statistics
Matches: 76, Mismatches: 22, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
50 21 0.28
51 55 0.72
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (51 bp):
TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
Found at i:2886581 original size:51 final size:50
Alignment explanation
Indices: 2886505--2886664 Score: 184
Period size: 51 Copynumber: 3.2 Consensus size: 50
2886495 TGCTAGGGAG
* *
2886505 ATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCC-CTGCAACGCCAAGGAA
* * * * * *
2886556 ATAAGATTTGTTGCCTTCTGCTTTAATCTACT--ATG--ACACCAGGGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCCTGCAACGCCAAGGAA
* *
2886602 ATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCC-CTGCAACGCCAAGGAA
2886653 ATAAGATTCGTT
1 ATAAGATTCGTT
2886665 ATGATAACTT
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
46 35 0.40
48 2 0.02
49 2 0.02
51 49 0.56
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (50 bp):
ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCCTGCAACGCCAAGGAA
Found at i:2887011 original size:24 final size:24
Alignment explanation
Indices: 2886972--2887029 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
2886962 GCCCCCACTA
2886972 TAATCTTCAAGATTCAATCC-TCTG
1 TAATCTTCAAGATTCAATCCAT-TG
* *
2886996 TAATCTTTAAGGTTCAATCCATTG
1 TAATCTTCAAGATTCAATCCATTG
*
2887020 TAATTTTCAA
1 TAATCTTCAA
2887030 ACATAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (24 bp):
TAATCTTCAAGATTCAATCCATTG
Found at i:2888962 original size:11 final size:11
Alignment explanation
Indices: 2888928--2888964 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
2888918 CCTATTGTAG
2888928 GTACAAAAGAAT
1 GTAC-AAAGAAT
*
2888940 ATACAAAGAAT
1 GTACAAAGAAT
2888951 GTACAAAGAAT
1 GTACAAAGAAT
2888962 GTA
1 GTA
2888965 TGAATTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 20 0.87
12 3 0.13
ACGTcount: A:0.57, C:0.08, G:0.16, T:0.19
Consensus pattern (11 bp):
GTACAAAGAAT
Found at i:2904612 original size:41 final size:41
Alignment explanation
Indices: 2904578--2904764 Score: 207
Period size: 41 Copynumber: 4.6 Consensus size: 41
2904568 ACCGACACTT
*
2904578 AGCCTGCTAGA-GATAAAGTCTGATACGTTTCACCGGCATCA
1 AGCCTGCTAGACG-TAAAGTCTGATACGTTTCACCGACATCA
* *
2904619 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACC-AGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGA-CATCA
* * * * * *
2904660 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
* * * *
2904701 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
* *
2904742 AGCCTACTAGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
2904765 ATTACTTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
41 131 0.99
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
Found at i:2904664 original size:82 final size:82
Alignment explanation
Indices: 2904578--2904764 Score: 277
Period size: 82 Copynumber: 2.3 Consensus size: 82
2904568 ACCGACACTT
2904578 AGCCTGCTAGA-GATAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
1 AGCCTGCTAGACG-TAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
2904642 TATGTTTCACCAGCATCA
65 TATGTTTCACCAGCATCA
* * * * * *
2904660 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCAAGCCTGCTAGACGTAATGTCTGGT
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
*
2904725 ATGTTTCACCGGCATCA
66 ATGTTTCACCAGCATCA
* *
2904742 AGCCTACTAGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
2904765 ATTACTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 94 0.99
83 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
ATGTTTCACCAGCATCA
Found at i:2907754 original size:42 final size:42
Alignment explanation
Indices: 2907707--2907795 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
2907697 TAAGTGCTAA
* * * *
2907707 AAAACCCAGAAGGGTTGAACGAAAGCTCATAATAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
* **
2907749 GAAACCCTTAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
2907791 AAAAC
1 AAAAC
2907796 TTATATGAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (42 bp):
AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
Found at i:2913460 original size:16 final size:16
Alignment explanation
Indices: 2913439--2913495 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
2913429 TTTGGTTCGC
*
2913439 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
2913455 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
2913471 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
2913487 TGTAATGGA
1 TGTAATGGA
2913496 AAAGTTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:2913762 original size:18 final size:17
Alignment explanation
Indices: 2913741--2913775 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2913731 TTATTATTAA
*
2913741 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2913759 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2913776 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2919753 original size:18 final size:18
Alignment explanation
Indices: 2919711--2919756 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
2919701 TTTTTTATCT
*
2919711 TTCATGTTCGTTTTACGG
1 TTCATGTTCATTTTACGG
2919729 -TCTATGTTCATTTTACGG
1 TTC-ATGTTCATTTTACGG
2919747 TTCATGTTCA
1 TTCATGTTCA
2919757 AGGTTCGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
TTCATGTTCATTTTACGG
Found at i:2925544 original size:16 final size:16
Alignment explanation
Indices: 2925523--2925558 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
2925513 TAATTTTAAT
2925523 ATTTTTATTTTCATTA
1 ATTTTTATTTTCATTA
*
2925539 ATTTTTATTTTCATTT
1 ATTTTTATTTTCATTA
2925555 ATTT
1 ATTT
2925559 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTATTTTCATTA
Found at i:2926926 original size:21 final size:21
Alignment explanation
Indices: 2926868--2926926 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
2926858 TTCTCTTTAA
*
2926868 ATTTTGTTTAATTTTAAATTTT
1 ATTTT-TTTTATTTTAAATTTT
* * *
2926890 ATTTTTCATTA-GTTAATTTTT
1 ATTTTT-TTTATTTTAAATTTT
2926911 ATTTTTTTTATTTTAA
1 ATTTTTTTTATTTTAA
2926927 GCCTTTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.10
21 19 0.66
22 7 0.24
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (21 bp):
ATTTTTTTTATTTTAAATTTT
Found at i:2931340 original size:16 final size:17
Alignment explanation
Indices: 2931299--2931346 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
2931289 GAAGTCTAAG
*
2931299 AAAATAAAAATAAAACA
1 AAAATAAACATAAAACA
*
2931316 ACTAA-AAACA-AAAACA
1 A-AAATAAACATAAAACA
2931332 AAAATAAACATAAAA
1 AAAATAAACATAAAA
2931347 AGAAAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 9 0.36
18 2 0.08
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAATAAACATAAAACA
Found at i:2936960 original size:18 final size:19
Alignment explanation
Indices: 2936915--2936963 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
2936905 GAATATTTAC
*
2936915 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
2936935 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
2936953 ATAAAAATAAA
1 ATAAAAATAAA
2936964 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:2940124 original size:16 final size:16
Alignment explanation
Indices: 2940103--2940136 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2940093 TATTGTACAT
* *
2940103 ATATATAGGTATTTGA
1 ATATATACGTATGTGA
2940119 ATATATACGTATGTGA
1 ATATATACGTATGTGA
2940135 AT
1 AT
2940137 TTTCACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (16 bp):
ATATATACGTATGTGA
Found at i:2941260 original size:2 final size:2
Alignment explanation
Indices: 2941253--2941282 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2941243 TATGTATTAC
2941253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2941283 GTTAAGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2942812 original size:59 final size:60
Alignment explanation
Indices: 2942712--2942850 Score: 210
Period size: 59 Copynumber: 2.3 Consensus size: 60
2942702 ATGAAAGCGC
* *
2942712 ATGAAAGCTCTCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
1 ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
* * *
2942772 ATGAAAGGTCCCTAAAAGTTG-GTGACGAGATTGCAAGGATTTCATTTTTGGTGACCAAA
1 ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
2942831 ATGAAAGAGT-CCTAAAAGTT
1 ATGAAAG-GTCCCTAAAAGTT
2942851 TGGAGACCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
59 52 0.71
60 21 0.29
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (60 bp):
ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
Found at i:2943465 original size:22 final size:22
Alignment explanation
Indices: 2943440--2943482 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2943430 TCAAAGGTTG
*
2943440 ATTTTGATTTGCAACCAATTTT
1 ATTTTGATTTGAAACCAATTTT
2943462 ATTTTGATTTGAAACCAATTT
1 ATTTTGATTTGAAACCAATTT
2943483 ACCCTGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (22 bp):
ATTTTGATTTGAAACCAATTTT
Found at i:2944619 original size:89 final size:89
Alignment explanation
Indices: 2944455--2944715 Score: 330
Period size: 89 Copynumber: 2.9 Consensus size: 89
2944445 TTCTAGAGAA
* * * ** * *
2944455 ATTACTATTC-AAAATTTTTGTATTATTTTTGTATCTGTAAATCAAATTTATTCTGTATTATTTG
1 ATTAATATTCTAAAATGTTTGTATT-TTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTG
*
2944519 TTGTTCAAATTTTATATTTTCATGT
65 TTGTTCGAATTTTATATTTTCATGT
* * *
2944544 ATTCATTTTTTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
2944609 TGTTCGAATTTTATATTTTCATGT
66 TGTTCGAATTTTATATTTTCATGT
* * *
2944633 ATTAATATTCTAGAATGTTTGTATTTTCTTGTATATGTAAATTTAATTT-GTTGCGTATTATTAT
1 ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAG-TCCGTATTATT-T
* *
2944697 -TTTTTCGAATTATATATTT
64 GTTGTTCGAATTTTATATTT
2944716 GTTTTGTTAA
Statistics
Matches: 150, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
88 1 0.01
89 135 0.90
90 14 0.09
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (89 bp):
ATTAATATTCTAAAATGTTTGTATTTTCTTGTATCTGTAAATTTAATTTAGTCCGTATTATTTGT
TGTTCGAATTTTATATTTTCATGT
Found at i:2947012 original size:94 final size:93
Alignment explanation
Indices: 2946907--2947202 Score: 416
Period size: 93 Copynumber: 3.2 Consensus size: 93
2946897 TTTAAAGGAA
* * * * *
2946907 AAAAATTAAATAAATAAGGGTTTAGGGTTTCTTAATTAAATTAATTATAATTTTAAAAAATTAGA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
2946972 TTAGGGTTTAGTGTTTATGGTTTTTAAGG
66 TTAGGGTTTAGTGTTTA-GGTTTTTAAGG
* * *
2947001 AAAAATCAAATAAATTAGGGTTTAGGGTAACTTGAGTAAATTAATTATAA-ATTAAAAAAATAGA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
* *
2947065 TTAGAGTTTAGTGTTTAGGGTTTTTAGGG
66 TTAGGGTTTAGTGTTTA-GGTTTTTAAGG
*
2947094 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAAATATAAATTTTAAAAAAATTA
1 AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTT-AAAAAATTA
* *
2947159 GATTGGGGTTTAGTATTTAGAGTTTTTAAGG
64 GATTAGGGTTTAGTGTTTAG-GTTTTTAAGG
2947190 -AAAATCAAATAAA
1 AAAAATCAAATAAA
2947203 GCTAGTTGTT
Statistics
Matches: 179, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
93 84 0.47
94 46 0.26
95 16 0.09
96 33 0.18
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.38
Consensus pattern (93 bp):
AAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTAAAAAATTAGA
TTAGGGTTTAGTGTTTAGGTTTTTAAGG
Found at i:2947022 original size:43 final size:43
Alignment explanation
Indices: 2946971--2947118 Score: 111
Period size: 43 Copynumber: 3.3 Consensus size: 43
2946961 AAAAAATTAG
2946971 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
* ** *** *
2947014 ATTAGGGTTTAGGGTAACTTGAGTAAATTAATTATAAATTAAAA--AAATAG
1 ATTAGGGTTTAGTGT---TT-A-T-GGTT--TT-TAAGGAAAAATCAAATAA
* * *
2947064 ATTAGAGTTTAGTGTTTAGGGTTTTTAGGGAAAAATCAAATAA
1 ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
2947107 ATTAGGGTTTAG
1 ATTAGGGTTTAG
2947119 GGTTACTTGA
Statistics
Matches: 76, Mismatches: 18, Indels: 22
0.66 0.16 0.19
Matches are distributed among these distances:
41 6 0.08
42 2 0.03
43 30 0.39
44 2 0.03
46 3 0.04
47 3 0.04
48 1 0.01
49 2 0.03
50 18 0.24
51 2 0.03
52 7 0.09
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (43 bp):
ATTAGGGTTTAGTGTTTATGGTTTTTAAGGAAAAATCAAATAA
Found at i:2947881 original size:109 final size:107
Alignment explanation
Indices: 2947750--2948038 Score: 425
Period size: 109 Copynumber: 2.7 Consensus size: 107
2947740 GTTAAACGAG
*
2947750 AAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
1 AAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
2947815 TGAAATTTTTAAGAAGGATATTAAGCCATTTAGTTGAACGAGAA
66 TGAAATTTTTAA-AAGGATATT-AGCCATTTAGTTGAACGAGAA
* ** *
2947859 AAATCGACACCCAGCACCTTAGGGCATATTTTCTCGAATTTCTAAACGGCAAAACATTGCCTTAT
1 AAATCGAAACCCAGCACCTTAGGGCA-CGTTTCTCGAATTTCCAAAC-GCAAAACATTGCCTTAT
* * *
2947924 TTTGAAATTTTTGAAAGGATATTAGCTATTTGGTTGAACGAGAA
64 TTTGAAATTTTTAAAAGGATATTAGCCATTTAGTTGAACGAGAA
* * *
2947968 AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAAAGCTAAACATTGCCTTATT
1 AAATCGAAACCCAGCACCTTAGGGCACG-TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
2948033 TAGAAA
65 TTGAAA
2948039 AATTTTCCTT
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
108 22 0.14
109 84 0.52
110 25 0.16
111 30 0.19
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (107 bp):
AAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
TGAAATTTTTAAAAGGATATTAGCCATTTAGTTGAACGAGAA
Found at i:2948503 original size:3 final size:3
Alignment explanation
Indices: 2948497--2948546 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
2948487 TAATGGAAGT
2948497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2948545 AT
1 AT
2948547 GGTNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2950399 original size:44 final size:44
Alignment explanation
Indices: 2950351--2950551 Score: 196
Period size: 44 Copynumber: 4.6 Consensus size: 44
2950341 TTTTAACTTA
*
2950351 CTCCACTGTAACTTCAGGGAGATAAGACTTG-TATATTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGATATATTCAACCTG
* * * *
2950395 CTCCACTGCAACTTCAGGGAGATAAGGTTTGATATTTTGATCC-G
1 CTCCACTGCAACTTCAGGGAGATAA-GATTGATATATTCAACCTG
* * * * * *
2950439 CTTCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATATATTCAACCTG
* * * *
2950483 CTCCACTGCAACTTCAGGGAGATAAGATTG---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGATATATTCAACCTG
* *
2950524 CTCTACTGCAACTTCAGAGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
2950552 CTGTGGTGTT
Statistics
Matches: 131, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
41 33 0.25
43 11 0.08
44 78 0.60
45 9 0.07
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGATATATTCAACCTG
Found at i:2950911 original size:41 final size:43
Alignment explanation
Indices: 2950819--2950937 Score: 116
Period size: 46 Copynumber: 2.7 Consensus size: 43
2950809 TCTGGCTTCA
* * *
2950819 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATATGAAATTCTTCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACATG-AA-T-TGCG
* *
2950865 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG-A-TGCG
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGACATGAATTGCG
** * *
2950906 ATCTACTCTGCTGTAACTTCAGAGAGATAAGA
1 ATCTACTCCACTGTAACCTCAGGGAGATAAGA
2950938 TCTTTTATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 30 0.48
44 1 0.02
46 32 0.51
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
ATCTACTCCACTGTAACCTCAGGGAGATAAGACATGAATTGCG
Found at i:2951153 original size:87 final size:87
Alignment explanation
Indices: 2950998--2951855 Score: 1099
Period size: 86 Copynumber: 9.8 Consensus size: 87
2950988 ACTTCAATTT
* * * *
2950998 GCTCAACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGTAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* * *
2951063 CAAGATCTACGATCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* * * *
2951085 GCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951150 CAAGATCTGCT-TCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
*
2951171 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951236 CAAGATCTGCTATCTTTAACCA
66 CAAGATCTGCTATCTTCAACCA
* *
2951258 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTT-GATCTGCTTCACTGTTAACGCAGGAAG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAACGCAGGAAG
*
2951322 GCAAGATCTGCTATCTTTAACCA
65 GCAAGATCTGCTATCTTCAACCA
* * * *
2951345 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAAGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
2951410 CAAGATCTGCTATCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
* * **
2951432 GCTCCAATACAACCGATGGAGGCAA-GAATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951496 CAAGATCTGCTTTCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
* ** *
2951518 GCTCCACTGCAACCAATGGAGGCAAGATTTTG-TTTCGATCTGCTTCGTTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951582 CAAGATCTGCTTTCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
** *
2951604 GCTCCACTGCAACCGATGGAGGCAAGATTTTG-TTTCGATCTGCTTCGCTGTTAACGTAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951668 CAAGATCTGCTTTCTTCAACCA
66 CAAGATCTGCTATCTTCAACCA
* * * *
2951690 GCTCCA-TCACAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCACTGTCAATCAATG
1 GCTCCACT-GCAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGT---T-AACG
** *
2951752 CAGGAAGGCAAGATCTTTTGTCTTCAACCA
58 CAGGAAGGCAAGATCTGCTATCTTCAACCA
* * * *
2951782 GCTCCA-TCACAACCGA-GAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGG
1 GCTCCACT-GCAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGG
*
2951844 AAGACAAGATCT
62 AAGGCAAGATCT
2951856 TTAACTTCGT
Statistics
Matches: 710, Mismatches: 48, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
85 6 0.01
86 319 0.45
87 265 0.37
88 38 0.05
91 1 0.00
92 81 0.11
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (87 bp):
GCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTATCTTCAACCA
Found at i:2951308 original size:42 final size:41
Alignment explanation
Indices: 2951175--2951395 Score: 124
Period size: 42 Copynumber: 5.1 Consensus size: 41
2951165 TAACCAGCTC
2951175 CACTGCAACCGATGGAGGCAAGGCTTTGT-TTTCGATCTGCTT
1 CACTGCAACC-ATGGAGGCAAGGCTTTGTCTTT-GATCTGCTT
* * * * * * * * * *
2951217 CGCTGTTAATGCA-GGAAGGCAAGATCTGCTATCTTTAACCAGCTC
1 CACTG-CAA-CCATGG-AGGCAAG-GCT-TTGTCTTTGATCTGCTT
2951262 CACTGCAACCAATGGAGGCAAGGCTTTGTCTTTGATCTGCTT
1 CACTGCAACC-ATGGAGGCAAGGCTTTGTCTTTGATCTGCTT
* * * * * * * *
2951304 CACTGTTAACGCA-GGAAGGCAAGATCTGCTATCTTTAACCAGCTC
1 CACTG-CAAC-CATGG-AGGCAAG-GCT-TTGTCTTTGATCTGCTT
*
2951349 CACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTGCTT
1 CACTGCAACC-ATGGAGGCAAGGCTTTGTCTTTGATCTGCTT
2951391 CACTG
1 CACTG
2951396 TTAACGCAAG
Statistics
Matches: 127, Mismatches: 37, Indels: 30
0.65 0.19 0.15
Matches are distributed among these distances:
42 39 0.31
43 27 0.21
44 27 0.21
45 31 0.24
46 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (41 bp):
CACTGCAACCATGGAGGCAAGGCTTTGTCTTTGATCTGCTT
Found at i:2951413 original size:43 final size:43
Alignment explanation
Indices: 2951102--2951413 Score: 154
Period size: 43 Copynumber: 7.2 Consensus size: 43
2951092 TACAACCGAT
* * * *
2951102 GAAGGCAAGGCTTTGTTTTTGATCTGCTTCGCTGTTAATGCAG
1 GAAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAA
* * * * * * * *
2951145 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CGAT
1 GAAGGCAAGGCTTTG--TCTTTGATCTGCTTCACTGTTAACGC-AA
* * * *
2951188 GGAGGCAAGGCTTTGT-TTTCGATCTGCTTCGCTGTTAATGCAG
1 GAAGGCAAGGCTTTGTCTTT-GATCTGCTTCACTGTTAACGCAA
* * * * * * * *
2951231 GAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTG-CAAC-CAA
1 GAAGGCAAG-GCT-TTGTCTTTGATCTGCTTCACTGTTAACGCAA
* *
2951274 TGGAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAG
1 -GAAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAA
* * * * * * * *
2951318 GAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTG-CAAC-CAA
1 GAAGGCAAG-GCT-TTGTCTTTGATCTGCTTCACTGTTAACGCAA
* *
2951361 TGGAGGCAAGGCTTTGTCTTCGATCTGCTTCACTGTTAACGCAA
1 -GAAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAA
2951405 GAAGGCAAG
1 GAAGGCAAG
2951414 ATCTGCTATC
Statistics
Matches: 186, Mismatches: 65, Indels: 36
0.65 0.23 0.13
Matches are distributed among these distances:
41 3 0.02
42 46 0.25
43 59 0.32
44 48 0.26
45 27 0.15
46 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (43 bp):
GAAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAA
Found at i:2951466 original size:260 final size:257
Alignment explanation
Indices: 2950998--2951855 Score: 1112
Period size: 260 Copynumber: 3.3 Consensus size: 257
2950988 ACTTCAATTT
* * * * *
2950998 GCTCAACTGCAACCGATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGTAGTAAGG
1 GCTCCACTGCAACCAATGGAGGCAAGGCTTTG-TTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* * * * *
2951063 CAAGATCTACGATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTGATCTG
65 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTG-TTTCGATCTG
* * * *
2951128 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGG
129 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCAATACAACCGATGGAGG
* *
2951193 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCA
194 CAA-GATTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCA
* *
2951258 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTTGATCTGCTTCACTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGT-TTCGATCTGCTTCGCTGTTAACGCAGGAAGG
*
2951323 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCAATGGAGGCAAGGCTTTGTCTTCGATCTG
65 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGT-TTCGATCTG
* *
2951388 CTTCACTGTTAACGCAAGAAGGCAAGATCTGCTATCTTCAACCAGCTCCAATACAACCGATGGAG
129 CTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTCAACCAGCTCCAATACAACCGATGGAG
* * *
2951453 GCAAGAATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTTCTTCAACCA
193 GCAAGATTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCA
** *
2951518 GCTCCACTGCAACCAATGGAGGCAAGATTTTGTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGC
1 GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * **
2951583 AAGATCTGCTTTCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGATTTTGTTTCGATCTGCT
66 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTCGATCTGCT
*
2951648 TCGCTGTTAACGTAGGAAGGCAAGATCTGCTTTCTTCAACCAGCTCC-ATCACAACCGA-GAGAG
131 TCGCTGTTAACGCAGGAAGGCAAGATCTGC-TTCTTCAACCAGCTCCAAT-ACAACCGATG-GAG
* * * ** *
2951711 GCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATCAATGCAGGAAGGCAAGATCTTTTGTCTT
193 GCAAGATTTGT-T-TTCGATCTGCTTCGCTGT---T-AATGCAGGAAGGCAAGATCTGCTATCTT
2951776 CAACCA
252 CAACCA
* * * * * *
2951782 GCTCCA-TCACAACCGA-GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
1 GCTCCACT-GCAACCAATG-GAGGCAAGGCTT-TGT-TTCGATCTGCTTCGCTGTTAACGCAGGA
*
2951845 AGACAAGATCT
62 AGGCAAGATCT
2951856 TTAACTTCGT
Statistics
Matches: 529, Mismatches: 53, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
257 3 0.01
258 73 0.14
259 82 0.16
260 246 0.47
261 32 0.06
263 3 0.01
264 53 0.10
265 3 0.01
266 34 0.06
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (257 bp):
GCTCCACTGCAACCAATGGAGGCAAGGCTTTGTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTCGATCTGCT
TCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTCAACCAGCTCCAATACAACCGATGGAGGCA
AGATTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTCAACCA
Found at i:2951500 original size:42 final size:41
Alignment explanation
Indices: 2951451--2951673 Score: 125
Period size: 42 Copynumber: 5.2 Consensus size: 41
2951441 CAACCGATGG
2951451 AGGCAAGAATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAG-ATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
* * * * * *
2951493 AGGCAAGATCTGCTTTCTTCAACCAGCTCCACTG-CAAC-CAATGG-
1 AGGCAAGAT-TG--TT-TTCGATCTGCTTCGCTGTTAACGC-A-GGA
* *
2951537 AGGCAAGATTTTGTTTCGATCTGCTTCGTTGTTAACGCAGGA
1 AGGCAAGATTGT-TTTCGATCTGCTTCGCTGTTAACGCAGGA
* * * * * *
2951579 AGGCAAGATCTGCTTTCTTCAACCAGCTCCACTG-CAAC-CGATGG-
1 AGGCAAGAT-TG--TT-TTCGATCTGCTTCGCTGTTAACGC-A-GGA
* *
2951623 AGGCAAGATTTTGTTTCGATCTGCTTCGCTGTTAACGTAGGA
1 AGGCAAGATTGT-TTTCGATCTGCTTCGCTGTTAACGCAGGA
2951665 AGGCAAGAT
1 AGGCAAGAT
2951674 CTGCTTTCTT
Statistics
Matches: 131, Mismatches: 30, Indels: 40
0.65 0.15 0.20
Matches are distributed among these distances:
41 31 0.24
42 37 0.28
43 6 0.05
44 29 0.22
45 28 0.21
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
AGGCAAGATTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
Found at i:2951807 original size:44 final size:44
Alignment explanation
Indices: 2951665--2951807 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 44
2951655 TAACGTAGGA
*
2951665 AGGCAAGATCTGCTT-TCTTCAACCAGCTCCATCACAACCGAGAG
1 AGGCAAGATCT-TTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * * * * ** * *
2951709 AGGCAAGGT-TTGTGTCTTCGACCTGCTTCACTGTCAATCAATGCAGG
1 AGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGA-G-A-G
2951756 AAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 -AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
2951801 AGGCAAG
1 AGGCAAG
2951808 GTTTGTGTCT
Statistics
Matches: 73, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
42 1 0.01
43 14 0.19
44 21 0.29
45 2 0.03
46 2 0.03
47 2 0.03
48 14 0.19
49 17 0.23
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (44 bp):
AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
Found at i:2951819 original size:43 final size:43
Alignment explanation
Indices: 2951680--2951819 Score: 145
Period size: 43 Copynumber: 3.1 Consensus size: 43
2951670 AGATCTGCTT
2951680 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTG
* * * ** * * * *
2951723 TCTTCGACCTGCTTCACTGTCAATCAATGCAGGAAGGCAAGATCTTTTG
1 TCTTCAACCAGCTCCA-TCACAACCGA-G-A-G-AGGCAAGGT-TTGTG
2951772 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTG
2951815 TCTTC
1 TCTTC
2951820 GACCTGCTTC
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
43 22 0.30
44 14 0.19
45 2 0.03
46 2 0.03
47 2 0.03
48 14 0.19
49 17 0.23
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTG
Found at i:2954630 original size:6 final size:6
Alignment explanation
Indices: 2954619--2954656 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
2954609 TGACCTCTCC
2954619 TTTTCT TTTTCT TTTTCTT TTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTC-T TTTTCT T-TTTCT TTTTCT
2954657 CCTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:2954642 original size:13 final size:13
Alignment explanation
Indices: 2954619--2954654 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
2954609 TGACCTCTCC
2954619 TTTTC-TTTTTCT
1 TTTTCTTTTTTCT
2954631 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
2954644 TCTTTCTTTTT
1 T-TTTCTTTTT
2954655 CTCCTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 5 0.23
13 8 0.36
14 9 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:2954655 original size:13 final size:12
Alignment explanation
Indices: 2954619--2954656 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
2954609 TGACCTCTCC
2954619 TTTTCTTTTTCT
1 TTTTCTTTTTCT
2954631 TTTTCTTTTTTCT
1 TTTTC-TTTTTCT
2954644 TCTTTCTTTTTCT
1 T-TTTCTTTTTCT
2954657 CCTATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 15 0.62
14 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:2954694 original size:7 final size:7
Alignment explanation
Indices: 2954682--2954723 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
2954672 GATTTGATTG
2954682 ATTTTTT
1 ATTTTTT
*
2954689 ATTTTTG
1 ATTTTTT
2954696 ATTTTTT
1 ATTTTTT
2954703 -TATTTTT
1 AT-TTTTT
*
2954710 ATTTTTG
1 ATTTTTT
2954717 ATTTTTT
1 ATTTTTT
2954724 TCTTCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (7 bp):
ATTTTTT
Found at i:2954710 original size:21 final size:21
Alignment explanation
Indices: 2954684--2954724 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
2954674 TTTGATTGAT
2954684 TTTTTATTTTTGATTTTTTTA
1 TTTTTATTTTTGATTTTTTTA
2954705 TTTTTATTTTTGATTTTTTT
1 TTTTTATTTTTGATTTTTTT
2954725 CTTCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.83
Consensus pattern (21 bp):
TTTTTATTTTTGATTTTTTTA
Found at i:2954723 original size:14 final size:14
Alignment explanation
Indices: 2954679--2954722 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
2954669 TTTGATTTGA
2954679 TTGATTTTTTATTT
1 TTGATTTTTTATTT
2954693 TTGATTTTTTTATTT
1 TTGA-TTTTTTATTT
*
2954708 TT-ATTTTTGATTT
1 TTGATTTTTTATTT
2954721 TT
1 TT
2954723 TTCTTCTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 5 0.18
15 12 0.43
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
TTGATTTTTTATTT
Found at i:2956693 original size:34 final size:35
Alignment explanation
Indices: 2956639--2956707 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
2956629 CACTTGTCGG
2956639 AGTATAATCTAGGGAATGGGCATGATCCTTATTAT
1 AGTATAATCTAGGGAATGGGCATGATCCTTATTAT
2956674 AGTATAATCT-GGGAATGGGCATGATCCTTATTAT
1 AGTATAATCTAGGGAATGGGCATGATCCTTATTAT
2956708 CAACCCCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (35 bp):
AGTATAATCTAGGGAATGGGCATGATCCTTATTAT
Found at i:2961233 original size:40 final size:41
Alignment explanation
Indices: 2961135--2961241 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 41
2961125 AAAAACGAAG
* * *
2961135 AAAGTGCTTCCTCAAGGAAGCG-CTT-TGTCCACGTGGACAC
1 AAAGCGCTTCCTTAAGGAAGCGTTTTCTGTCCACGTGGA-AC
*
2961175 AAAGCGC-ACCTTCAAGGAAGCGTTTTCTGTCCACGTGG-AC
1 AAAGCGCTTCCTT-AAGGAAGCGTTTTCTGTCCACGTGGAAC
* *
2961215 AAAGCGCTTCCTTGAGGAAGCATTTTC
1 AAAGCGCTTCCTTAAGGAAGCGTTTTC
2961242 CTGGCTTATC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 3 0.05
40 36 0.64
41 6 0.11
42 11 0.20
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (41 bp):
AAAGCGCTTCCTTAAGGAAGCGTTTTCTGTCCACGTGGAAC
Found at i:2961404 original size:17 final size:17
Alignment explanation
Indices: 2961384--2961416 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2961374 TAAAACTCCA
2961384 TTTTTCATGTCAATTTT
1 TTTTTCATGTCAATTTT
*
2961401 TTTTTCATTTCAATTT
1 TTTTTCATGTCAATTT
2961417 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTCATGTCAATTTT
Found at i:2961731 original size:136 final size:135
Alignment explanation
Indices: 2961374--2962370 Score: 1182
Period size: 136 Copynumber: 7.4 Consensus size: 135
2961364 TTATTTGCCC
* * **
2961374 TAAAACTCCATTTTTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTCCAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* *
2961439 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTAAATTTCATTTTCACTTTTTTTTATT
66 TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCA-TTTCAC-TTTTTTT-CT
2961504 TTTTTAAT
128 TTTTTAAT
* * * *
2961512 TTAAACTTCATTTGTGATGTCAATTTTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAA
1 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAA
* * * *
2961577 TTTCA-ATTTTTCTCATGTTATTTAAATTTCATTTAAATTTTAATTTCATTTCACTTTTTTCCTT
64 TTTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTT
2961641 TTTTAAT
129 TTTTAAT
*
2961648 TAAAACTTCATTTGTCATGTCAA-TTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
*
2961712 TCATTTTTTTTTCTCATGTTATTTGAATTTCATTTCACTTTT--TTT--TTT--C------T-TT
66 TCA--TTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTT
2961764 TTTTAAT
129 TTTTAAT
* * * *
2961771 TAAAACTTCATTTGTGATGTCAA-TTTTTTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAAT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAAT
* *
2961835 TTCA-TTTTTTCTCAGGTTATTTAAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTT
65 TTCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTT
2961899 TTTAAT
130 TTTAAT
*
2961905 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* *
2961970 TCATTTTTTTGCTCATGTTATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTCTTT
66 TCATTTTTTT-CTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTT
2962035 TTTAAT
130 TTTAAT
* * * * *
2962041 TAAAAAATT-ATTTCTTATGTC-A-CTTTTTTTCCTTTCAATTTCTTCTTAAAATTCATTTGAAT
1 T-AAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAAT
* *** *
2962103 TTTATTTTTTTCTCATGTTATTTTTTTTCTCATGTT--ATTTGAATTTCATTTCACTTTTTTTTC
65 TTCATTTTTTTCTCATGTTATTTGAATT-TCAT-TTCAATTTTAATTTCATTTCAC-TTTTTTTC
2962166 TTTTTTAAT
127 TTTTTTAAT
* * * * * *
2962175 TAAAATTTTATTTCTCATGTCAATTTTTTTTTCATTTCAATTTCTTTTTAAATTTAATTTGAATT
1 TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
* * * ** *
2962240 TCATGATTTTTATCATGTTATTTGAATTTCATTTAAATTTTAATTTCATTT-A-AATTTTTATTT
66 TCAT-TTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTT
2962303 TTTAAT
130 TTTAAT
* * * **
2962309 TAAAACTTCATTTG-AATTTCATTTTTTTCTTTTTCATTTCAATTT-TAATTAAAATTTCATTT
1 TAAAACTTCATTTGTCATGTCA--ATTTT-TTTTTCATTTCAATTTCTTCTTAAAA-TTCATTT
2962371 CAGCCAAAAC
Statistics
Matches: 745, Mismatches: 78, Indels: 74
0.83 0.09 0.08
Matches are distributed among these distances:
121 33 0.04
123 49 0.07
124 25 0.03
125 3 0.00
127 1 0.00
130 1 0.00
132 3 0.00
133 70 0.09
134 179 0.24
135 37 0.05
136 195 0.26
137 44 0.06
138 25 0.03
139 55 0.07
140 25 0.03
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (135 bp):
TAAAACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCATTTGAATT
TCATTTTTTTCTCATGTTATTTGAATTTCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTTT
TTAAT
Found at i:2961866 original size:257 final size:256
Alignment explanation
Indices: 2961474--2962273 Score: 1040
Period size: 257 Copynumber: 3.1 Consensus size: 256
2961464 TTTCATTTCA
* * *
2961474 ATTTAAATTTCATTTTCAC--TTTTTTTTATTTTTTTAATTTAAACTTCATTTGTGATGTCAATT
1 ATTTGAATTTCA-TTTCACTTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAA--
*
2961537 TTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCAATTTTTCTCATGTTATTTAA
63 TTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAA
*
2961602 ATTTCATTTAAATTTTAATTTCATTTCACTTTTTTCCTTTTTTAATTAAAACTTCATTTGTCATG
128 ATTTCATTT-AATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATG
2961667 TCAA-TTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATTTCATTTTTTTTTCTCATGT
192 TCAATTTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATTTCA-TTTTTTTTCTCATGT
2961731 T
256 T
2961732 ATTTGAATTTCATTTCACTTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTT
1 ATTTGAATTTCATTTCACTTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTT
* *
2961797 TTTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAATTTCATTTTTTCTCAGGTTATTTAAATT
66 TTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAAATT
2961862 TCATTTCAATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCA
131 TCATTT-AATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCA
* * *
2961927 ATTTTTTTTTCATTTCAATTTCTTCTTAAAATTCGTTTGAATTTCATTTTTTTGCTCATGTT
195 ATTTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATTTCATTTTTTTTCTCATGTT
* *
2961989 ATTTGAATTTCATTTTAATTTGAATTTCATTTCACTTTTTTTC-TTTTTTAATTAAAAAATT-AT
1 ATTTGAATTTC------ATTT-CA---C-TTT---TTTTTTTCTTTTTTTAATT-AAAACTTCAT
* * * * * * *
2962052 TTCTTATGTC-ACTTTTTTTCCTTTCAA-TTTCTTCTTAAAATTCATTTGAATTTTATTTTTTTC
51 TTGTGATGTCAATTTTTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCA-TTTTTTC
*** *
2962115 TCATGTTATTTTTTTTCTCATGTT-ATTTGAATTTCATTTCACTTTTTTTTCTTTTTTAATTAAA
115 TCATGTTATTTAAATT-TCAT-TTAATTTTAATTTCATTTCAC-TTTTTTTCTTTTTTAATTAAA
* * * * *
2962179 ATTTTATTTCTCATGTCAATTTTTTTTTCATTTCAATTTCTTTTTAAATTTAATTTGAATTTCAT
177 ACTTCATTTGTCATGTCAATTTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATTTCAT
** *
2962244 GATTTTTATCATGTT
242 TTTTTTTCTCATGTT
2962259 ATTTGAATTTCATTT
1 ATTTGAATTTCATTT
2962274 AAATTTTAAT
Statistics
Matches: 483, Mismatches: 37, Indels: 38
0.87 0.07 0.07
Matches are distributed among these distances:
257 161 0.33
258 53 0.11
259 40 0.08
263 4 0.01
264 5 0.01
267 1 0.00
268 28 0.06
269 50 0.10
270 125 0.26
271 16 0.03
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.61
Consensus pattern (256 bp):
ATTTGAATTTCATTTCACTTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAATTT
TTTTTCATTTTAATTTTTTTCTTAAAATTCATTTGAATTTCATTTTTTCTCATGTTATTTAAATT
TCATTTAATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAA
TTTTTTTTTCATTTCAATTTCTTCTTAAATTTCATTTGAATTTCATTTTTTTTCTCATGTT
Found at i:2961878 original size:17 final size:17
Alignment explanation
Indices: 2961853--2961891 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2961843 TTCTCAGGTT
*
2961853 ATTTAAATTTCATTTCA
1 ATTTTAATTTCATTTCA
2961870 ATTTTAATTTCATTTCA
1 ATTTTAATTTCATTTCA
*
2961887 CTTTT
1 ATTTT
2961892 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATTTCATTTCA
Found at i:2961917 original size:134 final size:134
Alignment explanation
Indices: 2961732--2962370 Score: 740
Period size: 134 Copynumber: 4.7 Consensus size: 134
2961722 TTCTCATGTT
*
2961732 ATTTGAATTTCATTTCACTTTTTTTTTTCTTTTTTTAATTAAAACTTCATTTGTGATGTCAA-TT
1 ATTTGAATTTCATTTCAC---TTTTTTTC-TTTTTTAATTAAAACTTCATTTGTCATGTCAATTT
* * * * *
2961796 TTTTTTCATTTTAATTTTTTTCTTAAAACTCATTTGAATTTCA-TTTTTTCTCAGGTTATTTAAA
62 TTTTTTCATTTCAA-TTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTCTCATGTTATTTGAA
2961860 TTTCATTTCA
126 TTTCATTT-A
*
2961870 ATTTTAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTTT
1 ATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTTT
*
2961935 TTCATTTCAATTTCTTCTTAAAATTCGTTTGAATTTCATTTTTTTGCTCATGTTATTTGAATTTC
66 TTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTT-CTCATGTTATTTGAATTTC
2962000 ATTTTA
130 A-TTTA
* * * *
2962006 ATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAAAATT-ATTTCTTATGTC-A-CTTTT
1 ATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATT-AAAACTTCATTTGTCATGTCAATTTTTT
* * ***
2962068 TTTCCTTTCAATTTCTTCTTAAAATTCATTTGAATTTTATTTTTTTCTCATGTTATTTTTTTTCT
65 TTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTCTCATGTTATTTGAATT-T
2962133 CATGTT-
129 CAT-TTA
* * *
2962139 ATTTGAATTTCATTTCACTTTTTTTTCTTTTTTAATTAAAATTTTATTTCTCATGTCAATTTTTT
1 ATTTGAATTTCATTTCAC-TTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTT
* * * * *
2962204 TTTCATTTCAATTTCTTTTTAAATTTAATTTGAATTTCATGATTTTTATCATGTTATTTGAATTT
65 TTTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCAT-TTTTTTCTCATGTTATTTGAATTT
2962269 CATTTAA
129 CATTT-A
* ** * * * *
2962276 ATTTTAATTTCATTT-A-AATTTTTATTTTTTAATTAAAACTTCATTTG-AATTTCATTTTTTTC
1 ATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCA--ATTTT-
**
2962338 TTTTTCATTTCAATTT-TAATTAAAATTTCATTT
63 TTTTTCATTTCAATTTCTTCTTAAAA-TTCATTT
2962371 CAGCCAAAAC
Statistics
Matches: 437, Mismatches: 46, Indels: 38
0.84 0.09 0.07
Matches are distributed among these distances:
133 44 0.10
134 162 0.37
135 43 0.10
136 130 0.30
137 41 0.09
138 17 0.04
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.60
Consensus pattern (134 bp):
ATTTGAATTTCATTTCACTTTTTTTCTTTTTTAATTAAAACTTCATTTGTCATGTCAATTTTTTT
TTCATTTCAATTTCTTCTTAAAATTCATTTGAATTTCATTTTTTTCTCATGTTATTTGAATTTCA
TTTA
Found at i:2962129 original size:17 final size:17
Alignment explanation
Indices: 2962107--2962142 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2962097 TTGAATTTTA
2962107 TTTTTTTCTCATGTTAT
1 TTTTTTTCTCATGTTAT
2962124 TTTTTTTCTCATGTTAT
1 TTTTTTTCTCATGTTAT
2962141 TT
1 TT
2962143 GAATTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTTTTCTCATGTTAT
Found at i:2962214 original size:17 final size:17
Alignment explanation
Indices: 2962178--2962223 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
2962168 TTTTAATTAA
*
2962178 AATTTTATTTCTCATGTC
1 AATTTT-TTTTTCATGTC
*
2962196 AATTTTTTTTTCATTTC
1 AATTTTTTTTTCATGTC
2962213 AATTTCTTTTT
1 AATTT-TTTTT
2962224 AAATTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTTTTTCATGTC
Found at i:2962284 original size:17 final size:17
Alignment explanation
Indices: 2962259--2962302 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
2962249 TTATCATGTT
*
2962259 ATTTGAATTTCATTTAA
1 ATTTTAATTTCATTTAA
2962276 ATTTTAATTTCATTTAA
1 ATTTTAATTTCATTTAA
*
2962293 ATTTTTATTT
1 ATTTTAATTT
2962303 TTTAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTTTAATTTCATTTAA
Found at i:2962714 original size:6 final size:6
Alignment explanation
Indices: 2962705--2962796 Score: 109
Period size: 6 Copynumber: 15.7 Consensus size: 6
2962695 ATATAAATTC
* *
2962705 ATTTCA ATTTC- ATTTCA ATTTCA ATTTCA ATTTTA ATTCCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
* * *
2962752 ATTTCA AATTGA ATTTCA A-TTCA A-TACA AGTTTCA ATTTCA ATTT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA A-TTTCA ATTTCA ATTT
2962797 TTTTATATAT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
5 14 0.19
6 55 0.75
7 4 0.05
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (6 bp):
ATTTCA
Found at i:2973088 original size:18 final size:19
Alignment explanation
Indices: 2973056--2973093 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
2973046 TTTAATCTAA
* *
2973056 TATATTTTATGTAA-TATT
1 TATATTTGATATAATTATT
2973074 TATATTTGATATAATTATT
1 TATATTTGATATAATTATT
2973093 T
1 T
2973094 TCATATTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TATATTTGATATAATTATT
Found at i:2973138 original size:22 final size:22
Alignment explanation
Indices: 2973113--2973158 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2973103 AATTTACTTC
2973113 AAATATATAACA-TTATATATTT
1 AAATATATAACAGTTATAT-TTT
* *
2973135 AAATTTATAATAGTTATATTTT
1 AAATATATAACAGTTATATTTT
2973157 AA
1 AA
2973159 TAATATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AAATATATAACAGTTATATTTT
Found at i:2975387 original size:3 final size:3
Alignment explanation
Indices: 2975379--2975435 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
2975369 CCTTCCCTAT
*
2975379 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2975427 GATA ATA AT
1 -ATA ATA AT
2975436 GTACTGGGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 49 0.96
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2976989 original size:30 final size:28
Alignment explanation
Indices: 2976949--2977026 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 28
2976939 TATTATTCGC
2976949 TATT-ATATTGTTACTATTTTGTTTTAT
1 TATTAATATTGTTACTATTTTGTTTTAT
* *
2976976 TGTTTGAATATTGTATAAT-TTTTGTTTTAT
1 T-ATT-AATATTGT-TACTATTTTGTTTTAT
*
2977006 TATTAATTTTGTTACTATTTT
1 TATTAATATTGTTACTATTTT
2977027 AGAGGTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.10
28 13 0.32
29 2 0.05
30 19 0.46
31 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (28 bp):
TATTAATATTGTTACTATTTTGTTTTAT
Found at i:2983388 original size:35 final size:35
Alignment explanation
Indices: 2983342--2983458 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
2983332 ACTCTCTGTT
* *
2983342 TTGGTGTGTTTTGGTTGGACTAGCTTTTATGAGTA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
* * *
2983377 TTGGTGTGTTTTGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
*** * *
2983412 TTGGTGTGTTTCAAATGGACTGGCTTTTACGAGCA
1 TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
2983447 TCTGGTGTGTTT
1 T-TGGTGTGTTT
2983459 GGGCGGTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 58 0.85
36 10 0.15
ACGTcount: A:0.15, C:0.09, G:0.32, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTTGGATGGACTAGCTTTTATGAGCA
Found at i:2985316 original size:250 final size:250
Alignment explanation
Indices: 2984871--2985360 Score: 684
Period size: 250 Copynumber: 2.0 Consensus size: 250
2984861 CCTCTGGTTT
*
2984871 CCAACCCTATCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTTCACTAGT
1 CCAACCCTATCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTCCACTAGT
* * *
2984936 TATCGTAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCTTTAGACCAGATAACTCATT
66 TATCGCAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATT
* **
2985001 GTTTATAAGAGGACATAACTTGTCTCACAACCATGCTTACTCCACCAACCATGACTCTTACTCCC
131 GTTTATAAGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACACTCCC
* **
2985066 TTAAACCT-GGGTTTTAACCAACAGACGTTGGGTCTTCAACCTCACCCTTGTTGCA
196 TTAAA-CTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCA
* * *
2985121 CCAACCCTGTCACCCTTGTTGCACCAATAGGAACCATTCC-CCTCAGTTACTCTGACTCCACTAG
1 CCAACCCTATCACCCTTGTTGCACCAATAAGAACCATTCCTCC-CAGCTACTCTGACTCCACTAG
* *
2985185 TTATCGCAGTGCCTCAATTGC-AACT-TGGTGTGTCCCCT-ATTGGACCCTTAAACCAGATAACT
65 TTATCGCAATGCCTCAACTGCAAACTAT--TGTGTCCCCTCA-TGGACCCTTAAACCAGATAACT
* * * * * * *
2985247 CATTTTTTGTATGAGGACATAACTTGTCTCACAACCATGCCTGCTCCACCAATCGTTACTCACAC
127 CATTGTTTATAAGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACAC
* *
2985312 TCCCTTAAACTAGGGTTTTCACCAGCAAACGTAAGGTCTTCAACCTCAC
192 TCCCTTAAACTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCAC
2985361 GGCTTAAAAG
Statistics
Matches: 211, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
248 1 0.00
249 9 0.04
250 201 0.95
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (250 bp):
CCAACCCTATCACCCTTGTTGCACCAATAAGAACCATTCCTCCCAGCTACTCTGACTCCACTAGT
TATCGCAATGCCTCAACTGCAAACTATTGTGTCCCCTCATGGACCCTTAAACCAGATAACTCATT
GTTTATAAGAGGACATAACTTGTCTCACAACCATGCCTACTCCACCAACCATGACTCACACTCCC
TTAAACTAGGGTTTTAACCAACAAACGTAAGGTCTTCAACCTCACCCTTGTTGCA
Found at i:2990311 original size:40 final size:42
Alignment explanation
Indices: 2990242--2990354 Score: 112
Period size: 40 Copynumber: 2.8 Consensus size: 42
2990232 GCCGTTTGGA
* *
2990242 TAAAAAACACCGCTAAAAATC-AATCATTAGCGGCT-C-TATC
1 TAAAAAACGCCGCTAAAAATCGAGT-ATTAGCGGCTGCTTATC
* * *
2990282 TAAAAAACGCCGCTAAAGATCGAGTATTAGTGG-TGCTTTTC
1 TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGCTGCTTATC
* *
2990323 T-AAAAATGCCGCTAAAAAT-GAGAATTAGCGGC
1 TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGC
2990355 GTTTTCCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
39 11 0.18
40 43 0.72
41 6 0.10
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
TAAAAAACGCCGCTAAAAATCGAGTATTAGCGGCTGCTTATC
Found at i:2990373 original size:39 final size:40
Alignment explanation
Indices: 2990244--2990377 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 40
2990234 CGTTTGGATA
* * ** * * *
2990244 AAAAACACCGCTAAAAATCAATCATTAGCGGCTC-TATCTA
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTC-C
* * * * *
2990284 AAAAACGCCGCTAAAGATCGAGTATTAGTGGTGCTTTTCT
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
*
2990324 AAAAATGCCGCTAAAAAT-GAGAATTAGCGGCG-TTTTCC
1 AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
2990362 AAAAAGCGCCGC-AAAA
1 AAAAA-CGCCGCTAAAA
2990378 CCTAAACCTA
Statistics
Matches: 75, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
38 14 0.19
39 16 0.21
40 42 0.56
41 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGAATTAGCGGCGCTTTTCC
Found at i:2990537 original size:21 final size:23
Alignment explanation
Indices: 2990512--2990556 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
2990502 TAATTTGTTT
2990512 ATTTATAT-TAAATGAA-ATTTA
1 ATTTATATCTAAATGAATATTTA
* *
2990533 ATTTATTTCTAATTGAATATTTA
1 ATTTATATCTAAATGAATATTTA
2990556 A
1 A
2990557 AATCTTCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 7 0.35
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTATATCTAAATGAATATTTA
Found at i:2990812 original size:15 final size:15
Alignment explanation
Indices: 2990775--2990808 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2990765 AGGATTTTTA
2990775 GTTTAGGGAGTATGG
1 GTTTAGGGAGTATGG
*
2990790 GTTTAGGGATTAT-G
1 GTTTAGGGAGTATGG
2990804 GTTTA
1 GTTTA
2990809 AGGGTTGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
GTTTAGGGAGTATGG
Found at i:2990829 original size:21 final size:20
Alignment explanation
Indices: 2990795--2990835 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2990785 TATGGGTTTA
*
2990795 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
2990815 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
2990836 AAAAGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:2990858 original size:15 final size:15
Alignment explanation
Indices: 2990803--2990860 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
2990793 TAGGGATTAT
2990803 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
* *
2990817 GATTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
* *
2990832 GGTTAAAAGGTTAGG
1 GGTTTAAGGGTTAGG
*
2990847 GGTTTAGGGGTTAG
1 GGTTTAAGGGTTAG
2990861 ACGTGTTAGG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
14 10 0.29
15 24 0.71
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:2994569 original size:7 final size:7
Alignment explanation
Indices: 2994559--2994591 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
2994549 TTTATTATTT
2994559 TAAATTC
1 TAAATTC
2994566 TAAATT-
1 TAAATTC
2994572 TAAATTC
1 TAAATTC
2994579 TAAATT-
1 TAAATTC
2994585 TAAATTC
1 TAAATTC
2994592 ATTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (7 bp):
TAAATTC
Found at i:2994573 original size:13 final size:13
Alignment explanation
Indices: 2994557--2994591 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2994547 AATTTATTAT
2994557 TTTAAATTCTAAA
1 TTTAAATTCTAAA
2994570 TTTAAATTCTAAA
1 TTTAAATTCTAAA
2994583 TTTAAATTC
1 TTTAAATTC
2994592 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTAAATTCTAAA
Found at i:2994723 original size:15 final size:16
Alignment explanation
Indices: 2994701--2994732 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2994691 TTTTATCATA
2994701 GAAAAAAATTTTATTT
1 GAAAAAAATTTTATTT
2994717 GAAAAAAATTTTATTT
1 GAAAAAAATTTTATTT
2994733 TTTTTAAAAG
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
GAAAAAAATTTTATTT
Found at i:2994865 original size:43 final size:42
Alignment explanation
Indices: 2994750--2994989 Score: 270
Period size: 43 Copynumber: 5.6 Consensus size: 42
2994740 AAGATATATT
**
2994750 TTTAGCGGCGTTT-TCAAAAAAGCGCCGCTAAAGGTCTAT--TC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTC-ATGGTC
* * * *
2994791 TATAGCGACGTGTGTGTGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
2994834 TTTAGTGGCATTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCATGGTC
*
2994877 TTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTG-TGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
2994920 TTTAGCGGCGTTTGTGGGAATAGCGCCGCTAAAGCTCTTGGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCATGGTC
2994963 TTTAGCGGCGTTTGTGGGAAAAGCGCC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCC
2994990 ACAAATAGTT
Statistics
Matches: 170, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
41 12 0.07
42 20 0.12
43 137 0.81
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:2995043 original size:22 final size:22
Alignment explanation
Indices: 2995011--2995053 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2995001 TAGCGGCGCT
*
2995011 AAAAAACGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
*
2995033 AAAAAATGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
2995054 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:2996730 original size:50 final size:51
Alignment explanation
Indices: 2996644--2996751 Score: 175
Period size: 50 Copynumber: 2.1 Consensus size: 51
2996634 GATCAATTAT
*
2996644 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGTGG-CAAGTGGC
1 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAG-GGACAAGTGAC
*
2996695 AAGTGATAAGTGGTAGCT-TAGCTACACTTATCTGATCAGGGACAAGTGAT
1 AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGGGACAAGTGAC
2996745 AAGTGAT
1 AAGTGAT
2996752 CATACGTAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
49 2 0.04
50 34 0.63
51 18 0.33
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
AAGTGATAAGTGGTAGCTGTAGCTACACTTATCTGATCAGGGACAAGTGAC
Found at i:3001431 original size:216 final size:217
Alignment explanation
Indices: 3001044--3001485 Score: 868
Period size: 216 Copynumber: 2.0 Consensus size: 217
3001034 ATTTTATTTT
3001044 TAATATTATTTTAATATAATATAGTAATTAATTTATATCAAAAGCTATAAGTGATTAAATGACTT
1 TAATATTATTTTAATATAATATAGTAATTAATTTATATCAAAAGCTATAAGTGATTAAATGACTT
3001109 ATCTTAAATACATAATTCAACATGTTTACTCATTTAATATTTTATAAATCATTATCAATATTTTT
66 ATCTTAAATACATAATTCAACATGTTTACTCATTTAATATTTTATAAATCATTATCAATATTTTT
3001174 ATTATTATGGATATTAGTAGTATAAAGCCTATAGTTTAGTCGTGCATATAGTGGCCTACTTTTAT
131 ATTATTATGGATATTAGTAGTATAAAGCCTATAGTTTAGTCGTGCATATAGTGGCCTACTTTTAT
3001239 GTTTCTTTTCAATTAAATAAGA
196 GTTTCTTTTCAATTAAATAAGA
3001261 TAATATTATTTT-ATATAATATAGTAATTAATTTATATCAAAAGCTATAAGTGATTAAATGACTT
1 TAATATTATTTTAATATAATATAGTAATTAATTTATATCAAAAGCTATAAGTGATTAAATGACTT
3001325 ATCTTAAATACATAATTCAACATGTTTACTCATTTAATATTTTATAAATCATTATCAATATTTTT
66 ATCTTAAATACATAATTCAACATGTTTACTCATTTAATATTTTATAAATCATTATCAATATTTTT
3001390 ATTATTATGGATATTAGTAGTATAAAGCCTATAGTTTAGTCGTGCATATAGTGGCCTACTTTTAT
131 ATTATTATGGATATTAGTAGTATAAAGCCTATAGTTTAGTCGTGCATATAGTGGCCTACTTTTAT
3001455 GTTTCTTTTCAATTAAATAAGA
196 GTTTCTTTTCAATTAAATAAGA
3001477 TAAATATTA
1 T-AATATTA
3001486 ATTAAAACAA
Statistics
Matches: 224, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
216 205 0.92
217 19 0.08
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (217 bp):
TAATATTATTTTAATATAATATAGTAATTAATTTATATCAAAAGCTATAAGTGATTAAATGACTT
ATCTTAAATACATAATTCAACATGTTTACTCATTTAATATTTTATAAATCATTATCAATATTTTT
ATTATTATGGATATTAGTAGTATAAAGCCTATAGTTTAGTCGTGCATATAGTGGCCTACTTTTAT
GTTTCTTTTCAATTAAATAAGA
Found at i:3005456 original size:75 final size:76
Alignment explanation
Indices: 3005355--3005507 Score: 299
Period size: 75 Copynumber: 2.0 Consensus size: 76
3005345 GTGAATTTGT
3005355 TTTAAATTTGTGTTTAATTTATTAGAACGAAAATTATATTTTTCAAATTTTAAAATTAAATTAAA
1 TTTAAATTTGTGTTTAATTTATTAGAACGAAAATTATATTTTTCAAATTTTAAAATTAAATTAAA
3005420 TTAATTGTTAA
66 TTAATTGTTAA
3005431 TTTAAATTTGTG-TTAATTTATTAGAACGAAAATTATATTTTTCAAATTTTAAAATTAAATTAAA
1 TTTAAATTTGTGTTTAATTTATTAGAACGAAAATTATATTTTTCAAATTTTAAAATTAAATTAAA
3005495 TTAATTGTTAA
66 TTAATTGTTAA
3005506 TT
1 TT
3005508 ATGAATTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 65 0.84
76 12 0.16
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (76 bp):
TTTAAATTTGTGTTTAATTTATTAGAACGAAAATTATATTTTTCAAATTTTAAAATTAAATTAAA
TTAATTGTTAA
Found at i:3007196 original size:14 final size:14
Alignment explanation
Indices: 3007177--3007216 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3007167 TTGATAGCCA
3007177 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
3007191 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
3007205 GGAAAATGTTTT
1 GTAAAATGTTTT
3007217 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:3007225 original size:20 final size:20
Alignment explanation
Indices: 3007200--3007239 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3007190 CGTAAAATGA
*
3007200 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
3007220 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
3007240 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:3007229 original size:34 final size:35
Alignment explanation
Indices: 3007185--3007251 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
3007175 CAGTAAAATG
*
3007185 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
3007219 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
3007252 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:3007255 original size:14 final size:15
Alignment explanation
Indices: 3007179--3007255 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
3007169 GATAGCCAGT
* *
3007179 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
3007193 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
3007207 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
3007227 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
3007242 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
3007256 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:3013556 original size:20 final size:20
Alignment explanation
Indices: 3013519--3013556 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3013509 TAAAAAATTA
*
3013519 TAAAAAAAACATAAAAAACG
1 TAAAAAAAACAAAAAAAACG
3013539 TAAAAAAAA-AAAAGAAAA
1 TAAAAAAAACAAAA-AAAA
3013557 TCAACAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (20 bp):
TAAAAAAAACAAAAAAAACG
Found at i:3022507 original size:15 final size:16
Alignment explanation
Indices: 3022477--3022509 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3022467 AAAAAATTTG
3022477 TTGAAAAAACAACAAA
1 TTGAAAAAACAACAAA
*
3022493 TTGAAGAAA-AACAAA
1 TTGAAAAAACAACAAA
3022508 TT
1 TT
3022510 TCAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (16 bp):
TTGAAAAAACAACAAA
Found at i:3024924 original size:238 final size:238
Alignment explanation
Indices: 3024506--3024981 Score: 952
Period size: 238 Copynumber: 2.0 Consensus size: 238
3024496 AGCTTCATTT
3024506 TCCTTAGTTGTTTTTTCAACTAAAAATAATGAAAACTGTGTAAGAGCTCTTCTGAAATGGGCTCT
1 TCCTTAGTTGTTTTTTCAACTAAAAATAATGAAAACTGTGTAAGAGCTCTTCTGAAATGGGCTCT
3024571 TTGATTTGAAATATGGGTTTTCCATATCTCGTTTATAAAACCATAAAATTCTGGTGGTATACCAG
66 TTGATTTGAAATATGGGTTTTCCATATCTCGTTTATAAAACCATAAAATTCTGGTGGTATACCAG
3024636 GATTATAAAAATCTTTTATTTTTGAAATTTCTTTTTCTTCTTCAGTTCGTTGTTTTTTCAACAAA
131 GATTATAAAAATCTTTTATTTTTGAAATTTCTTTTTCTTCTTCAGTTCGTTGTTTTTTCAACAAA
3024701 TTTTCTGATCCTTTGATCATTTCAGCATAAATGGTTTGTGATG
196 TTTTCTGATCCTTTGATCATTTCAGCATAAATGGTTTGTGATG
3024744 TCCTTAGTTGTTTTTTCAACTAAAAATAATGAAAACTGTGTAAGAGCTCTTCTGAAATGGGCTCT
1 TCCTTAGTTGTTTTTTCAACTAAAAATAATGAAAACTGTGTAAGAGCTCTTCTGAAATGGGCTCT
3024809 TTGATTTGAAATATGGGTTTTCCATATCTCGTTTATAAAACCATAAAATTCTGGTGGTATACCAG
66 TTGATTTGAAATATGGGTTTTCCATATCTCGTTTATAAAACCATAAAATTCTGGTGGTATACCAG
3024874 GATTATAAAAATCTTTTATTTTTGAAATTTCTTTTTCTTCTTCAGTTCGTTGTTTTTTCAACAAA
131 GATTATAAAAATCTTTTATTTTTGAAATTTCTTTTTCTTCTTCAGTTCGTTGTTTTTTCAACAAA
3024939 TTTTCTGATCCTTTGATCATTTCAGCATAAATGGTTTGTGATG
196 TTTTCTGATCCTTTGATCATTTCAGCATAAATGGTTTGTGATG
3024982 CTAAATATGG
Statistics
Matches: 238, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 238 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.44
Consensus pattern (238 bp):
TCCTTAGTTGTTTTTTCAACTAAAAATAATGAAAACTGTGTAAGAGCTCTTCTGAAATGGGCTCT
TTGATTTGAAATATGGGTTTTCCATATCTCGTTTATAAAACCATAAAATTCTGGTGGTATACCAG
GATTATAAAAATCTTTTATTTTTGAAATTTCTTTTTCTTCTTCAGTTCGTTGTTTTTTCAACAAA
TTTTCTGATCCTTTGATCATTTCAGCATAAATGGTTTGTGATG
Found at i:3028512 original size:24 final size:24
Alignment explanation
Indices: 3028467--3028512 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
3028457 TTCTTCTCCC
* * * *
3028467 CTTTCCCCTTCTCCTTCTCCTTCA
1 CTTTCCCCTACCCCTACCCCTTCA
3028491 CTTTCCCCTACCCCTACCCCTT
1 CTTTCCCCTACCCCTACCCCTT
3028513 TCCCCTTCTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.07, C:0.54, G:0.00, T:0.39
Consensus pattern (24 bp):
CTTTCCCCTACCCCTACCCCTTCA
Found at i:3028520 original size:31 final size:31
Alignment explanation
Indices: 3028485--3028543 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3028475 TTCTCCTTCT
*
3028485 CCTTCACTTTCCCCTACCCCTACCCCTTTCC
1 CCTTCACCTTCCCCTACCCCTACCCCTTTCC
* * *
3028516 CCTTCTCCTTCCCTTTCCCCTACCCCTT
1 CCTTCACCTTCCCCTACCCCTACCCCTT
3028544 CCTTTTCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.07, C:0.58, G:0.00, T:0.36
Consensus pattern (31 bp):
CCTTCACCTTCCCCTACCCCTACCCCTTTCC
Found at i:3028520 original size:37 final size:36
Alignment explanation
Indices: 3028471--3028542 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
3028461 TCTCCCCTTT
*
3028471 CCCCTTCTCCTTCTCCTTCACTTTCCCCTACCCCTA
1 CCCCTTCCCCTTCTCCTTCACTTTCCCCTACCCCTA
*
3028507 CCCCTTTCCCCTTCTCCTTCCCTTTCCCCTACCCCT
1 CCCC-TTCCCCTTCTCCTTCACTTTCCCCTACCCCT
3028543 TCCTTTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.06, C:0.58, G:0.00, T:0.36
Consensus pattern (36 bp):
CCCCTTCCCCTTCTCCTTCACTTTCCCCTACCCCTA
Found at i:3028531 original size:18 final size:18
Alignment explanation
Indices: 3028485--3028551 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
3028475 TTCTCCTTCT
*
3028485 CCTTCACTTTCCCCTACC
1 CCTTCCCTTTCCCCTACC
* * *
3028503 CCTACCCCTTTCCCCTTCT
1 CCT-TCCCTTTCCCCTACC
3028522 CCTTCCCTTTCCCCTACC
1 CCTTCCCTTTCCCCTACC
*
3028540 CCTTCCTTTTCC
1 CCTTCCCTTTCC
3028552 TGTTCCGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 26 0.65
19 14 0.35
ACGTcount: A:0.06, C:0.57, G:0.00, T:0.37
Consensus pattern (18 bp):
CCTTCCCTTTCCCCTACC
Found at i:3029887 original size:30 final size:30
Alignment explanation
Indices: 3029851--3029908 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
3029841 GCATTTGTAC
* *
3029851 AAGACCATAAGTTCCAATTTGCTATGACAT
1 AAGACCATAAGTACCAACTTGCTATGACAT
3029881 AAGACCATAAGTACCAACTTGCTATGAC
1 AAGACCATAAGTACCAACTTGCTATGAC
3029909 TGGCATGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (30 bp):
AAGACCATAAGTACCAACTTGCTATGACAT
Found at i:3035726 original size:30 final size:30
Alignment explanation
Indices: 3035690--3035748 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
3035680 CTCAATTGTT
*
3035690 TGAAGCAAAATTAGAGATTGGGATTTTCAG
1 TGAAGCAAAATTACAGATTGGGATTTTCAG
3035720 TGAAGCAAAATTACAGATTGGGATTTTCA
1 TGAAGCAAAATTACAGATTGGGATTTTCA
3035749 ATGCTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (30 bp):
TGAAGCAAAATTACAGATTGGGATTTTCAG
Found at i:3039700 original size:69 final size:69
Alignment explanation
Indices: 3039580--3039828 Score: 288
Period size: 69 Copynumber: 3.6 Consensus size: 69
3039570 ATTCTATCAT
* * * * *
3039580 CCTACAATTACATACAAAAAGTTATATTA-CTCCACCACTACATCCAATTACACATACAAAAAGT
1 CCTACAATTACATATAAAAAGTTATATTAGC-CCACCACCACACCCATTTACACATAAAAAAAGT
3039644 GACAA
65 GACAA
* *
3039649 CCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAAAGTG
1 CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
*
3039714 TCAA
66 ACAA
*** * *
3039718 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACACGCATTTACACATAAAAAAAGTA
1 CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
3039783 ACAA
66 ACAA
* ** * *
3039787 CCCT-CTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
1 -CCTACAATTACATATAAAAAGTTATATT-AGCCCACCACCACA
3039829 GCTACATGGG
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
69 151 0.97
70 5 0.03
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (69 bp):
CCTACAATTACATATAAAAAGTTATATTAGCCCACCACCACACCCATTTACACATAAAAAAAGTG
ACAA
Found at i:3039828 original size:138 final size:138
Alignment explanation
Indices: 3039580--3039828 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
3039570 ATTCTATCAT
* * *
3039580 CCTACAATTACATACAAAAAGTTATATTACTCCACCACTACATCCAATTACACATACAAAAAGTG
1 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATAAAAAAAGTA
* *
3039645 ACAACCTACAATTACATATAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
66 ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
3039710 AGTGTCAA
131 AGTGTCAA
* * ** *
3039718 CCTACAATTACATATAAAAAGTTATATTAGTTTACCACCACA-CGCATTTACACATAAAAAAAGT
1 CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATC-CAATTACACATAAAAAAAGT
* * * *
3039782 AACAACCCT-CTATGGCATACAAAAAGTTATATTCA-TCCACCACCACA
65 AACAA-CCTACAATGACATACAAAAAGTGATATT-AGCCCACCACCACA
3039829 GCTACATGGG
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
137 1 0.01
138 89 0.95
139 4 0.04
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (138 bp):
CCTACAATTACATACAAAAAGTTATATTACTCCACCACCACATCCAATTACACATAAAAAAAGTA
ACAACCTACAATGACATACAAAAAGTGATATTAGCCCACCACCACACCCATTTACACATAGAAAA
AGTGTCAA
Found at i:3046245 original size:21 final size:22
Alignment explanation
Indices: 3046186--3046245 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
3046176 CAGAAGCAGT
* *
3046186 ATACCACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
** *
3046208 A-ACGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
3046228 ATACGACACATATAGTGC
1 ATACGACACATATAGTGC
3046246 ATGATCGGCA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:3046725 original size:17 final size:18
Alignment explanation
Indices: 3046693--3046726 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3046683 AATTTCTTTT
3046693 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
3046711 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
3046727 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:3047340 original size:7 final size:7
Alignment explanation
Indices: 3047328--3047352 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3047318 TGTTTTACTT
3047328 AATAATA
1 AATAATA
3047335 AATAATA
1 AATAATA
3047342 AATAATA
1 AATAATA
3047349 AATA
1 AATA
3047353 TCTATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:3058614 original size:16 final size:16
Alignment explanation
Indices: 3058574--3058623 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
3058564 TATAATTGGT
3058574 ATGTATTT-TTTTAAA
1 ATGTATTTATTTTAAA
* *
3058589 ATAGT-CTTATTTTATA
1 AT-GTATTTATTTTAAA
3058605 ATGTATTTATTTTTAAA
1 ATGTATTTA-TTTTAAA
3058622 AT
1 AT
3058624 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (16 bp):
ATGTATTTATTTTAAA
Found at i:3060106 original size:26 final size:26
Alignment explanation
Indices: 3060077--3060138 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
3060067 CATCATCTTC
3060077 TTCTTCAGAGCAACTGAAGAAGACGA
1 TTCTTCAGAGCAACTGAAGAAGACGA
* *
3060103 TTCTTCAGAGGAGCTGAAGAAGACGA
1 TTCTTCAGAGCAACTGAAGAAGACGA
*
3060129 TGCTTCAGAG
1 TTCTTCAGAG
3060139 AAAAAAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (26 bp):
TTCTTCAGAGCAACTGAAGAAGACGA
Found at i:3061022 original size:10 final size:10
Alignment explanation
Indices: 3061007--3061103 Score: 78
Period size: 10 Copynumber: 9.8 Consensus size: 10
3060997 TTTTGTTAAA
3061007 ATTAAAAATT
1 ATTAAAAATT
3061017 ATTAAAAA-T
1 ATTAAAAATT
3061026 A-TAAAAATTT
1 ATTAAAAA-TT
3061036 ATTTAAAAATT
1 A-TTAAAAATT
*
3061047 ATTAAGAATT
1 ATTAAAAATT
3061057 A-TAAGAAATT
1 ATTAA-AAATT
* *
3061067 ATAAAAAAGT
1 ATTAAAAATT
*
3061077 GTGT--AAATT
1 AT-TAAAAATT
3061086 ATTAAAAATT
1 ATTAAAAATT
*
3061096 AATAAAAA
1 ATTAAAAA
3061104 AATTTAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.10
9 10 0.14
10 41 0.59
11 5 0.07
12 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:3061044 original size:30 final size:32
Alignment explanation
Indices: 3061008--3061066 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
3060998 TTTGTTAAAA
3061008 TTAAAAATTATTAA-AAATATAA-AAATTTAT
1 TTAAAAATTATTAAGAAATATAAGAAATTTAT
*
3061038 TTAAAAATTATTAAGAATTATAAGAAATT
1 TTAAAAATTATTAAGAAATATAAGAAATT
3061067 ATAAAAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 14 0.54
31 7 0.27
32 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAAATTATTAAGAAATATAAGAAATTTAT
Found at i:3061113 original size:29 final size:29
Alignment explanation
Indices: 3061048--3061115 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
3061038 TTAAAAATTA
*
3061048 TTAAGAATTATAAGAAATTATAAAAAAGTG
1 TTAA-AATTATAAGAAATTATAAAAAAATG
3061078 TGT-AAATTATTAA-AAATTAATAAAAAAAT-
1 T-TAAAATTA-TAAGAAATT-ATAAAAAAATG
3061107 TTAAAATTA
1 TTAAAATTA
3061116 CAATAACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
28 1 0.03
29 17 0.52
30 14 0.42
31 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (29 bp):
TTAAAATTATAAGAAATTATAAAAAAATG
Found at i:3077515 original size:17 final size:16
Alignment explanation
Indices: 3077457--3077517 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 16
3077447 ATGTTTATTT
*
3077457 TTTAATTTAACTCGAA
1 TTTAATTTCACTCGAA
*
3077473 --CAATTTCACTCG-A
1 TTTAATTTCACTCGAA
3077486 TTTAA-TTCGACTCGAA
1 TTTAATTTC-ACTCGAA
3077502 TTTTAATTTCACTCGA
1 -TTTAATTTCACTCGA
3077518 CTCGATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
13 1 0.03
14 13 0.36
15 7 0.19
16 1 0.03
17 11 0.31
18 3 0.08
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (16 bp):
TTTAATTTCACTCGAA
Found at i:3081512 original size:15 final size:15
Alignment explanation
Indices: 3081492--3081521 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3081482 TCTTTAGGCA
*
3081492 CGCATTTCATGCATT
1 CGCATTACATGCATT
3081507 CGCATTACATGCATT
1 CGCATTACATGCATT
3081522 AAAGTCCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
CGCATTACATGCATT
Found at i:3083245 original size:137 final size:139
Alignment explanation
Indices: 3082984--3083262 Score: 535
Period size: 137 Copynumber: 2.0 Consensus size: 139
3082974 CATCAACATG
3082984 GGTATTGTCAAGTTGGGTGACTCATCTAATGCAGAAATTCCACTACCCAATCATGATTGACAATA
1 GGTATTGTCAAGTTGGGTGACTCATCTAATGCAGAAATTCCACTACCCAATCATGATTGACAATA
3083049 AGGTAAATGCACTGCATGAAGAGATGTTGAGAAACGCTCTGTGATAGCCCGAAATAGGGCCTAAT
66 AGGTAAATGCACTGCATGAAGAGATGTTGAGAAACGCTCTGTGATAGCCCGAAATAGGGCCTAAT
3083114 CGGAATAGT
131 CGGAATAGT
3083123 GGTATTGTCAAG-T-GGTGACTCATCTAATGCAGAAATTCCACTACCCAATCATGATTGACAATA
1 GGTATTGTCAAGTTGGGTGACTCATCTAATGCAGAAATTCCACTACCCAATCATGATTGACAATA
*
3083186 AGGTAAATGCACTGCATGAAGAGATGTTGAGAGACGCTCTGTGATAGCCCGAAATAGGGCCTAAT
66 AGGTAAATGCACTGCATGAAGAGATGTTGAGAAACGCTCTGTGATAGCCCGAAATAGGGCCTAAT
3083251 CGGAATAGT
131 CGGAATAGT
3083260 GGT
1 GGT
3083263 TTCGTAACCA
Statistics
Matches: 139, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
137 126 0.91
138 1 0.01
139 12 0.09
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (139 bp):
GGTATTGTCAAGTTGGGTGACTCATCTAATGCAGAAATTCCACTACCCAATCATGATTGACAATA
AGGTAAATGCACTGCATGAAGAGATGTTGAGAAACGCTCTGTGATAGCCCGAAATAGGGCCTAAT
CGGAATAGT
Found at i:3089073 original size:87 final size:87
Alignment explanation
Indices: 3088803--3089187 Score: 578
Period size: 87 Copynumber: 4.4 Consensus size: 87
3088793 AGATCAGTGA
* * * *
3088803 AGATCAGAAAAC-AAAGCCTTGCCTCAATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTT
1 AGATC-GAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTT
*
3088867 GCATTCCTGCATTAACAGCGAAGC
64 GCCTTCCTGCATTAACAGCGAAGC
* *
3088891 AGATCGAAAAC-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGCTAAAGA-AACAGATCTTG
1 AGATCGAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTG
*
3088954 TCTTCCTGCATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
3088977 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* *
3089042 CTTCCTACATTAACAGCGAAGT
66 CTTCCTGCATTAACAGCGAAGC
* *
3089064 AGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
3089129 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
3089151 AGATAGAAAACGAAGCCTTGCCTCCATCGGTTATAGT
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGT
3089188 AGCAGATTTT
Statistics
Matches: 275, Mismatches: 20, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
86 76 0.28
87 194 0.71
88 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:3089108 original size:173 final size:174
Alignment explanation
Indices: 3088803--3089187 Score: 594
Period size: 173 Copynumber: 2.2 Consensus size: 174
3088793 AGATCAGTGA
* * * *
3088803 AGATCAGAAAAC-AAAGCCTTGCCTCAATCGGTTGTAGTGGAGCTGGTTAAATATAGCGGATCTT
1 AGATC-GAAAACGAAA-CCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTT
*
3088867 GCATTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
64 GCATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
*
3088932 CTGGCTAAAGA-AACAGATCTTGTCTTCCTGCATTAACAGCGAAGC
129 CTGGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
3088977 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * * *
3089042 CTTCCTACATTAACAGCGAAGTAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCT
66 ATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
* * *
3089107 GGTTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGC
131 GGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
* * *
3089151 AGATAGAAAACGAAGCCTTGCCTCCATCGGTTATAGT
1 AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGT
3089188 AGCAGATTTT
Statistics
Matches: 193, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
173 120 0.62
174 73 0.38
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (174 bp):
AGATCGAAAACGAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
ATTCCTACATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCT
GGCTAAAGATAACAGATCTTGCCTTCCTGCATTAACAGCGAAGC
Found at i:3089340 original size:44 final size:43
Alignment explanation
Indices: 3089214--3089350 Score: 147
Period size: 40 Copynumber: 3.2 Consensus size: 43
3089204 CAGCATTAAC
* *
3089214 AGTGGAGCAGAAGAAAAAAAACCAGATCTTATCTCCCTAGGCAGT
1 AGTGGAGCAGACG--AAAAAACCAGATCTTATCTCCCTAAGCAGT
* * * *
3089259 AGTGGAGCAGATC---ACATCAAG-TCTTATCTCCCCAAGCAGT
1 AGTGGAGCAGA-CGAAAAAACCAGATCTTATCTCCCTAAGCAGT
*
3089299 AGTGGAGCAGACGAAAGAAACCAGATCTTATCTCCCTAAGCAAT
1 AGTGGAGCAGACGAAA-AAACCAGATCTTATCTCCCTAAGCAGT
3089343 AGTGGAGC
1 AGTGGAGC
3089351 GGATCGAAGA
Statistics
Matches: 75, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
39 1 0.01
40 28 0.37
41 5 0.07
42 1 0.01
43 4 0.05
44 25 0.33
45 11 0.15
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (43 bp):
AGTGGAGCAGACGAAAAAACCAGATCTTATCTCCCTAAGCAGT
Found at i:3089422 original size:87 final size:87
Alignment explanation
Indices: 3089327--3089754 Score: 730
Period size: 87 Copynumber: 4.9 Consensus size: 87
3089317 AACCAGATCT
3089327 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
3089392 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* ** *
3089414 TATCTCCCTAAGCAATAGTGAAGCGGATCGAAGACGGAAAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
3089479 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* * * * * *
3089501 TATCTCCCTAAGTAATAGTGGAGTGGATCGAAGATGGTGAATCCCATCTTCCCCAGAAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
3089566 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
*
3089588 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCTAGGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
3089653 AACAGATTTAAGCCATTAATCC
66 AACAGATTTAAGCCATTAATCC
* *
3089675 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGATGGCGAATCTCATCTTCCCCAAGAGTAGGGA
1 TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
*
3089740 AACAGATTCAAGCCA
66 AACAGATTTAAGCCA
3089755 CAAATACTAC
Statistics
Matches: 317, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 317 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (87 bp):
TATCTCCCTAAGCAATAGTGGAGCGGATCGAAGACGGCGAATCTCATCTTCCCCAGGAGTAGGGA
AACAGATTTAAGCCATTAATCC
Found at i:3101249 original size:3 final size:3
Alignment explanation
Indices: 3101243--3101307 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
3101233 ATTAAACTGC
* *
3101243 ATT ATT ATT ATT -GT ATT ATT -GT ATT ATCT ATT ATTT ATT ATCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT ATT AT-T ATT
*
3101289 ATT ATT ATT AGT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
3101308 CTTCCATACG
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 2 0.04
3 40 0.78
4 9 0.18
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3101262 original size:14 final size:13
Alignment explanation
Indices: 3101243--3101307 Score: 69
Period size: 14 Copynumber: 4.8 Consensus size: 13
3101233 ATTAAACTGC
*
3101243 ATTATTATTATTGT
1 ATTATTATTA-TCT
3101257 ATTATTGTATTATCT
1 ATTA-T-TATTATCT
3101272 ATTATTTATTATCT
1 ATTA-TTATTATCT
3101286 ATTATTATTAT-T
1 ATTATTATTATCT
*
3101298 AGTATTATTA
1 ATTATTATTA
3101308 CTTCCATACG
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
12 10 0.21
13 7 0.15
14 16 0.34
15 9 0.19
16 5 0.11
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (13 bp):
ATTATTATTATCT
Found at i:3101276 original size:7 final size:7
Alignment explanation
Indices: 3101264--3101296 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
3101254 TGTATTATTG
3101264 TATTATC
1 TATTATC
*
3101271 TATTATT
1 TATTATC
3101278 TATTATC
1 TATTATC
3101285 TATTAT-
1 TATTATC
3101291 TATTAT
1 TATTAT
3101297 TAGTATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (7 bp):
TATTATC
Found at i:3103512 original size:1 final size:1
Alignment explanation
Indices: 3103473--3103504 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
3103463 CCCAATTTCA
3103473 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3103505 GTGTTTTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3105971 original size:32 final size:32
Alignment explanation
Indices: 3105930--3105994 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
3105920 TGAGTATTGC
3105930 AAATTATCTACAAATGCTTTCCATCTAAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
*
3105962 AAATTATCTACAAATGCTTTCCATCTGAAACA
1 AAATTATCTACAAATGCTTTCCATCTAAAACA
3105994 A
1 A
3105995 GCTTGTCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.31
Consensus pattern (32 bp):
AAATTATCTACAAATGCTTTCCATCTAAAACA
Found at i:3107940 original size:2 final size:2
Alignment explanation
Indices: 3107933--3107959 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3107923 TGGTTTATTT
3107933 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3107960 TCTCGACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.