Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 236 of 328
Found at i:70611936 original size:13 final size:13
Alignment explanation
Indices: 70611918--70611942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70611908 AATAGTTGTG
70611918 TGTTATTTAATTA
1 TGTTATTTAATTA
70611931 TGTTATTTAATT
1 TGTTATTTAATT
70611943 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:70613289 original size:15 final size:15
Alignment explanation
Indices: 70613269--70613325 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 15
70613259 TTTTCTTGCC
*
70613269 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
70613284 TCTCTTTTTGCTTTTCA
1 TCTC-TTTT-CTTTTCA
70613301 TCT-TTTTCTTTTC-
1 TCTCTTTTCTTTTCA
*
70613314 TC-ATTTTCTTTT
1 TCTCTTTTCTTTT
70613326 TACAATAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
13 11 0.29
14 6 0.16
15 8 0.21
16 4 0.11
17 9 0.24
ACGTcount: A:0.05, C:0.21, G:0.04, T:0.70
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:70613297 original size:17 final size:16
Alignment explanation
Indices: 70613268--70613313 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
70613258 CTTTTCTTGC
*
70613268 CTCTCTTTTCTTTTGAT
1 CTCT-TTTTCTTTTCAT
70613285 CTCTTTTTGCTTTTCA-
1 CTCTTTTT-CTTTTCAT
70613301 -TCTTTTTCTTTTC
1 CTCTTTTTCTTTTC
70613314 TCATTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 4 0.15
17 10 0.37
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (16 bp):
CTCTTTTTCTTTTCAT
Found at i:70619700 original size:11 final size:10
Alignment explanation
Indices: 70619684--70619710 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70619674 GTGCGTAAGT
70619684 AAAAAAATTC
1 AAAAAAATTC
70619694 AAAAAAATTC
1 AAAAAAATTC
70619704 AAAAAAA
1 AAAAAAA
70619711 GTGATGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:70625439 original size:71 final size:71
Alignment explanation
Indices: 70625355--70625518 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70625345 CGATTTGTCT
70625355 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70625420 CTTTCA
66 CTTTCA
70625426 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70625491 CTTTCA
66 CTTTCA
70625497 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
70625519 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:70625556 original size:71 final size:70
Alignment explanation
Indices: 70625355--70625552 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
70625345 CGATTTGTCT
* * * *
70625355 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70625420 CTTTCA
65 CTTTCA
* * * *
70625426 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70625491 CTTTCA
65 CTTTCA
* *
70625497 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
70625553 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:70633017 original size:71 final size:71
Alignment explanation
Indices: 70632933--70633096 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
70632923 CGATTTGTCT
70632933 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70632998 CTTTCA
66 CTTTCA
70633004 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
70633069 CTTTCA
66 CTTTCA
70633075 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
70633097 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:70633134 original size:71 final size:70
Alignment explanation
Indices: 70632933--70633130 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
70632923 CGATTTGTCT
* * * *
70632933 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70632998 CTTTCA
65 CTTTCA
* * * *
70633004 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
70633069 CTTTCA
65 CTTTCA
* *
70633075 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
70633131 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:70642108 original size:30 final size:30
Alignment explanation
Indices: 70642038--70642119 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
70642028 TTTTGCTTCA
* *
70642038 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
70642069 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
70642098 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
70642120 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:70642119 original size:18 final size:18
Alignment explanation
Indices: 70642070--70642125 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
70642060 CACTCTCAGA
* *
70642070 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
70642087 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
70642105 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
70642124 TT
1 TT
70642126 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:70642126 original size:12 final size:12
Alignment explanation
Indices: 70642095--70642119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
70642085 TTTTTCAATC
70642095 TCATTTTCTTTT
1 TCATTTTCTTTT
70642107 TCATTTTCTTTT
1 TCATTTTCTTTT
70642119 T
1 T
70642120 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:70642199 original size:5 final size:5
Alignment explanation
Indices: 70642189--70642245 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
70642179 CTCTTGCCTC
*
70642189 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
70642236 TCTTT TCTTT
1 TCTTT TCTTT
70642246 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:70642229 original size:15 final size:14
Alignment explanation
Indices: 70642189--70642245 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
70642179 CTCTTGCCTC
*
70642189 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
70642204 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
70642219 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
70642236 TCTTTTCTTT
1 TCTTTTCTTT
70642246 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:70642246 original size:21 final size:21
Alignment explanation
Indices: 70642189--70642256 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
70642179 CTCTTGCCTC
* *
70642189 TCTTTTCTTTT-TATTTCGTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
70642210 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
70642231 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
70642251 CTCTTT
1 -TCTTT
70642257 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.01, C:0.18, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:70647417 original size:10 final size:10
Alignment explanation
Indices: 70647404--70647449 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
70647394 AGCTCACTTG
70647404 AGCTCGTTTT
1 AGCTCGTTTT
*
70647414 AGCTCGTTTG
1 AGCTCGTTTT
*
70647424 AGCTCGAATTT
1 AGCTCG-TTTT
*
70647435 AGCTCGTTTC
1 AGCTCGTTTT
70647445 AGCTC
1 AGCTC
70647450 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:70647437 original size:21 final size:20
Alignment explanation
Indices: 70647401--70647449 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
70647391 ATCAGCTCAC
*
70647401 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
70647421 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
70647442 TTCAGCTC
1 TTGAGCTC
70647450 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:70647692 original size:13 final size:13
Alignment explanation
Indices: 70647674--70647698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70647664 AATAGTTGTG
70647674 TGTTATTTAATTA
1 TGTTATTTAATTA
70647687 TGTTATTTAATT
1 TGTTATTTAATT
70647699 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:70649186 original size:30 final size:30
Alignment explanation
Indices: 70649152--70649247 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
70649142 AGCTCACTCC
*
70649152 TAGCTCATTTTCAGCTCACGAGCTAAACCT
1 TAGCTCAATTTCAGCTCACGAGCTAAACCT
* * * * * *
70649182 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAATTTCAGCTCACGAGCTAAACCT
* * *
70649212 CAGCTCAATTT-AGCTCATGAGCTAAAGCT
1 TAGCTCAATTTCAGCTCACGAGCTAAACCT
70649241 TAGCTCA
1 TAGCTCA
70649248 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
29 18 0.36
30 32 0.64
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (30 bp):
TAGCTCAATTTCAGCTCACGAGCTAAACCT
Found at i:70650979 original size:11 final size:12
Alignment explanation
Indices: 70650963--70650992 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
70650953 TATACAAGTC
*
70650963 AAAAAAATTCGA
1 AAAAAAATTCAA
70650975 AAAAAAATTCAA
1 AAAAAAATTCAA
70650987 AAAAAA
1 AAAAAA
70650993 TTTTGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:70650993 original size:11 final size:12
Alignment explanation
Indices: 70650963--70650994 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
70650953 TATACAAGTC
70650963 AAAAAAATTCGA
1 AAAAAAATTCGA
70650975 AAAAAAATTC-A
1 AAAAAAATTCGA
70650986 AAAAAAATT
1 AAAAAAATT
70650995 TTGAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:70651008 original size:18 final size:16
Alignment explanation
Indices: 70650985--70651023 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
70650975 AAAAAAATTC
* *
70650985 AAAAAAAATTTTGAAA
1 AAAAAAAAATCTGAAA
70651001 AGAAAAAAAATCTGAAA
1 A-AAAAAAAATCTGAAA
70651018 AAAAAA
1 AAAAAA
70651024 GTATTTAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAAAAAAATCTGAAA
Found at i:70651948 original size:9 final size:10
Alignment explanation
Indices: 70651941--70651997 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
70651931 AAGAGAAAAC
70651941 AAAGAAAAGA
1 AAAGAAAAGA
70651951 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
70651963 AAAGAAGA-A
1 AAAGAAAAGA
70651972 AAAGAAAATGA
1 AAAGAAAA-GA
70651983 AATA-AAAAGA
1 AA-AGAAAAGA
70651993 AAAGA
1 AAAGA
70651998 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:70651964 original size:21 final size:20
Alignment explanation
Indices: 70651930--70651997 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
70651920 ACATTCTTGT
70651930 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
70651951 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
70651972 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
70651993 AAAGA
1 AAAGA
70651998 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:70651965 original size:6 final size:5
Alignment explanation
Indices: 70651941--70651997 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
70651931 AAGAGAAAAC
*
70651941 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
70651988 AAAGA AAAGA
1 AAAGA AAAGA
70651998 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:70651972 original size:15 final size:14
Alignment explanation
Indices: 70651941--70651997 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
70651931 AAGAGAAAAC
70651941 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
70651957 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
70651972 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
70651988 AAAGAAAAGA
1 AAAGAAAAGA
70651998 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:70652097 original size:28 final size:29
Alignment explanation
Indices: 70652066--70652145 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
70652056 TTTGAAAAGC
*
70652066 AAAAAGAAAAAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAAAAAAGAAATATGAGAGTG
* *
70652094 AAAAAGAGAACAAAAAGAAATTTGAGAGTG
1 AAAAAGA-AAAAAAAAGAAATATGAGAGTG
*
70652124 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAA-A-AAAAAAGAAAT
70652146 TGAAACAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 7 0.16
29 12 0.27
30 15 0.34
31 10 0.23
ACGTcount: A:0.68, C:0.01, G:0.20, T:0.11
Consensus pattern (29 bp):
AAAAAGAAAAAAAAAGAAATATGAGAGTG
Found at i:70652120 original size:30 final size:30
Alignment explanation
Indices: 70652066--70652146 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 30
70652056 TTTGAAAAGC
* *
70652066 AAAAAGA-AAAAAAAAGAAA-ATGAGATTG
1 AAAAAGAGAAAAAAAAGAAATTTGAGAGTG
*
70652094 AAAAAGAGAACAAAAAGAAATTTGAGAGTG
1 AAAAAGAGAAAAAAAAGAAATTTGAGAGTG
**
70652124 AAAAAGAAGATGAAAAAGAAATT
1 AAAAAG-AGAAAAAAAAGAAATT
70652147 GAAACAAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 7 0.16
29 11 0.24
30 13 0.29
31 14 0.31
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (30 bp):
AAAAAGAGAAAAAAAAGAAATTTGAGAGTG
Found at i:70654283 original size:30 final size:30
Alignment explanation
Indices: 70654249--70654345 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
70654239 AGCTCACTCC
70654249 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
70654279 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
70654309 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
70654339 TAGCTCA
1 TAGCTCA
70654346 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:70662703 original size:27 final size:27
Alignment explanation
Indices: 70662665--70662963 Score: 377
Period size: 27 Copynumber: 11.1 Consensus size: 27
70662655 GCAGCTCCGA
70662665 TAAAACAGTAATTCTGTAAATCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* *
70662692 TAAAACAGTAATTTTGTAAATAGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* *
70662719 TAAAACAATAATTCTGTCAATCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* *
70662746 TAAAACGGTAATTCTGTAAATTGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* *
70662773 TAAAATAGTAATTTTGTAAATCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
*
70662800 TAAAAC-GATAATTCTATAAATCGAGGG
1 TAAAACAG-TAATTCTGTAAATCGAGGG
* *
70662827 TAAAATAGTAATTCTATAAATCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
*
70662854 TAAAAC-GATAATTTTGTAAATCGAGGG
1 TAAAACAG-TAATTCTGTAAATCGAGGG
* * **
70662881 TAAAACGGTAATTTTGTAAATTAAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* *
70662908 TAAAATAATAATTCTGTAAATCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
* * *
70662935 TAAAATAGTAATTTTGTAATTCGAGGG
1 TAAAACAGTAATTCTGTAAATCGAGGG
70662962 TA
1 TA
70662964 CTTTGATAAT
Statistics
Matches: 236, Mismatches: 32, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 232 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
TAAAACAGTAATTCTGTAAATCGAGGG
Found at i:70662976 original size:81 final size:81
Alignment explanation
Indices: 70662665--70662963 Score: 429
Period size: 81 Copynumber: 3.7 Consensus size: 81
70662655 GCAGCTCCGA
* * * *
70662665 TAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATAGAGGGTAAAACAATAA
1 TAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAA
*
70662730 TTCTGTCAATCGAGGG
66 TTCTGTAAATCGAGGG
** *
70662746 TAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAA
1 TAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAA
*
70662811 TTCTATAAATCGAGGG
66 TTCTGTAAATCGAGGG
* * *
70662827 TAAAATAGTAATTCTATAAATCGAGGGTAAAA-CGATAATTTTGTAAATCGAGGGTAAAACGGTA
1 TAAAATAGTAATTCTGTAAATCGAGGGTAAAATAG-TAATTTTGTAAATCGAGGGTAAAACGATA
* **
70662891 ATTTTGTAAATTAAGGG
65 ATTCTGTAAATCGAGGG
* *
70662908 TAAAATAATAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAATTCGAGGGTA
1 TAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
70662964 CTTTGATAAT
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 193 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (81 bp):
TAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGATAA
TTCTGTAAATCGAGGG
Found at i:70663032 original size:26 final size:27
Alignment explanation
Indices: 70662955--70663057 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
70662945 ATTTTGTAAT
* *
70662955 TCGAGGGTACTTTGATAATTTTACAAG
1 TCGAGGGTACTTTGGTAATTTTACAAA
*
70662982 TCGAGGGTA-TTTCAGTAATTTTACAAA
1 TCGAGGGTACTTT-GGTAATTTTACAAA
*
70663009 TCGAGGATA-TTTGGTAATTTTACAAA
1 TCGAGGGTACTTTGGTAATTTTACAAA
*
70663035 -C--CGGTACTTTGGTAATTTTACAA
1 TCGAGGGTACTTTGGTAATTTTACAA
70663058 CTGGGGTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.04
24 16 0.24
25 1 0.01
26 16 0.24
27 31 0.46
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (27 bp):
TCGAGGGTACTTTGGTAATTTTACAAA
Found at i:70664794 original size:14 final size:14
Alignment explanation
Indices: 70664775--70664805 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
70664765 TGGATAGTTG
70664775 AAGAAAGGCTAAGA
1 AAGAAAGGCTAAGA
*
70664789 AAGAAAGGTTAAGA
1 AAGAAAGGCTAAGA
70664803 AAG
1 AAG
70664806 GTTCAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.29, T:0.10
Consensus pattern (14 bp):
AAGAAAGGCTAAGA
Found at i:70668358 original size:21 final size:20
Alignment explanation
Indices: 70668310--70668367 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
70668300 TCAGCTCAAA
* *
70668310 TCAGCTCGCTTGAGCTTGAT
1 TCAGCTCGTTTGAGCTCGAT
70668330 TCAGCTCGTTTGAGCTCGAAT
1 TCAGCTCGTTTGAGCTCG-AT
* *
70668351 TTAGCTCGTTTCAGCTC
1 TCAGCTCGTTTGAGCTC
70668368 ATTTCTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.16, C:0.26, G:0.22, T:0.36
Consensus pattern (20 bp):
TCAGCTCGTTTGAGCTCGAT
Found at i:70671916 original size:20 final size:21
Alignment explanation
Indices: 70671891--70671947 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
70671881 AATGAGAGTG
**
70671891 GAAAAAGAAAGACCAGAAA-T
1 GAAAAAGAAAGAAAAGAAATT
*
70671911 GAAAAAGAGAGAAAAGAAATT
1 GAAAAAGAAAGAAAAGAAATT
*
70671932 GAAAGAGAAAAGAAAA
1 GAAAAAG-AAAGAAAA
70671948 AGAGTTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 7 0.23
22 7 0.23
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.05
Consensus pattern (21 bp):
GAAAAAGAAAGAAAAGAAATT
Found at i:70673043 original size:20 final size:20
Alignment explanation
Indices: 70673020--70673097 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
70673010 TCAGCTCCAA
*
70673020 TCAGCTCGCTTGAGCTCGAT
1 TCAGCTCGTTTGAGCTCGAT
*
70673040 TCAGCTCGTTTAAGCTCGAT
1 TCAGCTCGTTTGAGCTCGAT
70673060 TCAGCTCGTTTGAGCTCGAAT
1 TCAGCTCGTTTGAGCTCG-AT
* *
70673081 TTAGCTCGTTTTAGCTC
1 TCAGCTCGTTTGAGCTC
70673098 ATTTCTTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
20 35 0.67
21 17 0.33
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.36
Consensus pattern (20 bp):
TCAGCTCGTTTGAGCTCGAT
Found at i:70673097 original size:10 final size:10
Alignment explanation
Indices: 70673008--70673088 Score: 72
Period size: 10 Copynumber: 8.0 Consensus size: 10
70672998 CCCATGCGCC
*
70673008 ATTCAGCTCC
1 ATTCAGCTCG
*
70673018 AATCAGCTCG
1 ATTCAGCTCG
* *
70673028 CTTGAGCTCG
1 ATTCAGCTCG
70673038 ATTCAGCTCG
1 ATTCAGCTCG
* *
70673048 TTTAAGCTCG
1 ATTCAGCTCG
70673058 ATTCAGCTCG
1 ATTCAGCTCG
* *
70673068 TTTGAGCTCG
1 ATTCAGCTCG
*
70673078 AATTTAGCTCG
1 -ATTCAGCTCG
70673089 TTTTAGCTCA
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
10 47 0.85
11 8 0.15
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (10 bp):
ATTCAGCTCG
Found at i:70675451 original size:26 final size:26
Alignment explanation
Indices: 70675398--70675452 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
70675388 TTAGTACATG
*
70675398 TTTTAATGTGTCTAGTTAGGACATAA
1 TTTTAATGTGTCTAGTTAGGACAGAA
70675424 TTTTAATGTGTCTAGTTTAGGAC-GAA
1 TTTTAATGTGTCTAG-TTAGGACAGAA
70675450 TTT
1 TTT
70675453 ATTAGCTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (26 bp):
TTTTAATGTGTCTAGTTAGGACAGAA
Found at i:70677796 original size:52 final size:51
Alignment explanation
Indices: 70677739--70677870 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
70677729 ATGAACAAAT
* *
70677739 GAGTTACTTAATGCATGACTTAATTTAATGATGAAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGAAAAC-TTAACTAACATGA
* * * * *
70677791 GAGTTACATAATGCATGTCATAATTT-ATAATGCAAACTTAACTTACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGAAAACTTAACTAACATGA
* * *
70677841 GAGTTACATAATACATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
70677871 CAGAACACAT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 32 0.48
51 11 0.17
52 23 0.35
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGAAAACTTAACTAACATGA
Found at i:70677937 original size:39 final size:39
Alignment explanation
Indices: 70677875--70677963 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
70677865 TAAATGCAGA
* *
70677875 ACACATATTAATAATGTTCAAACTATGACATAATTAAAG
1 ACACATACTAATAATGTTCAAACTACGACATAATTAAAG
* *
70677914 ACTCATACTAATGATGTTCAAACTACGACATAATTAAAG
1 ACACATACTAATAATGTTCAAACTACGACATAATTAAAG
*
70677953 ACACAAACTAA
1 ACACATACTAA
70677964 AATAACTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (39 bp):
ACACATACTAATAATGTTCAAACTACGACATAATTAAAG
Found at i:70683458 original size:27 final size:27
Alignment explanation
Indices: 70683427--70683575 Score: 183
Period size: 27 Copynumber: 5.5 Consensus size: 27
70683417 TTAGTTTACC
*
70683427 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
70683454 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
* *
70683481 AAATTACTGAAATATCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
70683508 AAATTACAGAAATACCCTCAATTTGCA
1 AAATTACTGAAATACCCTCGATTTGTA
*
70683535 AAATTACTGAAATACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
70683562 AAATTATTGAAATA
1 AAATTACTGAAATA
70683576 TTTCTGTAAG
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 95 0.94
28 3 0.03
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:70683562 original size:81 final size:81
Alignment explanation
Indices: 70683427--70683576 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
70683417 TTAGTTTACC
* * *
70683427 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACTGAA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACTGAA
70683492 ATATCCTTGATTTGTA
66 ATATCCTTGATTTGTA
* * * *
70683508 AAATTACAGAAATACCCTCAATTTGCAAAATTACTGAAA-TACCCTCGATTTATAAAATTATTGA
1 AAATTACAGAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCGATTTATAAAATTACTGA
70683572 AATAT
65 AATAT
70683577 TTCTGTAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 58 0.95
82 3 0.05
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCGATTTATAAAATTACTGAA
ATATCCTTGATTTGTA
Found at i:70683620 original size:27 final size:27
Alignment explanation
Indices: 70683601--70683768 Score: 169
Period size: 27 Copynumber: 6.2 Consensus size: 27
70683591 ATTACCATTT
***
70683601 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
70683628 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
70683655 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** *
70683682 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
70683709 TA-CCTCTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
***
70683736 TACCC-CTGATTTGTGAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
70683763 TACCCT
1 TACCCT
70683769 TTTAGGATAG
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.03
27 114 0.95
28 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:70683782 original size:27 final size:27
Alignment explanation
Indices: 70683752--70684108 Score: 412
Period size: 27 Copynumber: 13.3 Consensus size: 27
70683742 TGATTTGTGA
* * *
70683752 AATTACCAAAATACCCTTTTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
70683779 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
70683806 AATTACTGAAATACACTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
70683833 AAATACC-AGAATACCCATGTAGGGTA-
1 AATTACCGA-AATACCCTTGTAGGGTAG
* *
70683859 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
*
70683886 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
70683913 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
70683940 AATTACTAAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
70683967 AATTACCAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
70683994 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
70684021 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
70684048 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * ** *
70684075 AATTATCGAGATACCCTTGGGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
70684102 AATTACC
1 AATTACC
70684109 ATTTTGCCCC
Statistics
Matches: 290, Mismatches: 37, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.08
27 267 0.92
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:70684560 original size:31 final size:31
Alignment explanation
Indices: 70684524--70684595 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
70684514 ACATTTTGAT
70684524 TTTTGATTCTGTTACCTGATACTAATTCCGA
1 TTTTGATTCTGTTACCTGATACTAATTCCGA
* *
70684555 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTAATTCCGA
70684586 TTTTGATTCT
1 TTTTGATTCT
70684596 AATTCTGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTAATTCCGA
Found at i:70686592 original size:27 final size:27
Alignment explanation
Indices: 70686561--70686653 Score: 120
Period size: 26 Copynumber: 3.5 Consensus size: 27
70686551 TTAGTTTACC
*
70686561 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
70686588 AAATTAC-CAAAGTACCCT-GATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
*
70686614 AAATTACTGAAAT-TCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
70686640 AAATTACTGAAATA
1 AAATTACTGAAATA
70686654 TTTCTGTAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 3 0.05
26 37 0.66
27 16 0.29
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:70686696 original size:27 final size:27
Alignment explanation
Indices: 70686666--70686727 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
70686656 TCTGTAAGAT
70686666 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
70686693 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
70686720 AAAATTAC
1 AGAATTAC
70686728 TAAAATACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:70686736 original size:27 final size:27
Alignment explanation
Indices: 70686679--70686846 Score: 167
Period size: 27 Copynumber: 6.2 Consensus size: 27
70686669 ATTACCATTT
* ***
70686679 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
*
70686706 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
70686733 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
** *
70686760 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
70686787 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
***
70686814 TACCC-CTGATTTGTGAAATTACCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
70686841 TACCCT
1 TACCCT
70686847 TGTAGGATAG
Statistics
Matches: 118, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:70686860 original size:27 final size:27
Alignment explanation
Indices: 70686830--70687212 Score: 466
Period size: 27 Copynumber: 14.3 Consensus size: 27
70686820 TGATTTGTGA
* * *
70686830 AATTACCAAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
70686857 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
70686884 AATTACTGAAATACACTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
70686911 AAATA-CTAGAATACCCATGTAGGGTA-
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
70686937 AATTACCGAAATA-CCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
70686963 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
70686990 AATTACTGAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
70687017 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
70687044 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
70687071 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
70687098 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
70687125 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
70687152 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * ** *
70687179 AATTACCTAGATACCCTTGGGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
70687206 AATTACC
1 AATTACC
70687213 ATTTTGCCCT
Statistics
Matches: 309, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
25 11 0.04
26 22 0.07
27 276 0.89
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:70686861 original size:54 final size:53
Alignment explanation
Indices: 70686776--70687212 Score: 414
Period size: 54 Copynumber: 8.1 Consensus size: 53
70686766 CGATCAATAA
* ** * **
70686776 AATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG-ATTTGT-G
1 AATTACCGAAATACCCTT-GTAGGTAGAATTACCAAAATACCCCTGTA-GGGTAG
* * *
70686829 AAATTACCAAAATACCCTTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAG
1 -AATTACCGAAATACCCTTGTAGG-TAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * * *
70686884 AATTACTGAAATACACTTGTAGGGTAGAAATACTAGAATACCCATGTAGGGTA-
1 AATTACCGAAATACCCTTGTA-GGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
70686937 AATTACCGAAATACCC-TGTAGGGTAAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTA-GGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
70686990 AATTACTGAAATACCCCTGTAAGGTGGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGT-AGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
70687044 AATTACTGAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGT-AGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
70687098 AATTACTGAAATACCCCTGTAAGGTAGAATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGT-AGGTAGAATTACCAAAATACCCCTGTAGGGTAG
** * * * * * ** *
70687152 AATTATTGAAATACCCCTATAGGGTAGAATTACCTAGATACCCTTGGGGGGTAA
1 AATTACCGAAATACCCTTGTA-GGTAGAATTACCAAAATACCCCTGTAGGGTAG
70687206 AATTACC
1 AATTACC
70687213 ATTTTGCCCT
Statistics
Matches: 332, Mismatches: 43, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
52 30 0.09
53 33 0.10
54 264 0.80
55 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (53 bp):
AATTACCGAAATACCCTTGTAGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:70686869 original size:81 final size:80
Alignment explanation
Indices: 70686776--70687211 Score: 343
Period size: 81 Copynumber: 5.4 Consensus size: 80
70686766 CGATCAATAA
* ** ** *
70686776 AATTACCAAAATACCCTTGGT-TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAA
1 AATTACCGAAATACCCTT-GTAGGGTAAAATTACTGAAATACCCCTG-TTAGTGAAATTACCAAA
*
70686840 ATACCCTTGTAGGATAG
64 ATACCCCTGTAGGATAG
* * * * *
70686857 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACACTTG-TAGGGTAGAAA-TACTAG
1 AATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTTA--GT-GAAATTACCAA
* *
70686920 AATACCCATGTAGGGTA-
63 AATACCCCTGTAGGATAG
* * **
70686937 AATTACCGAAATACCC-TGTAGGGTAAAATTACCGAAATACCCCTG-TAGGGTAGAATTACTGAA
1 AATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTTAGTG-A-AATTACCAAA
*
70687000 ATACCCCTGTAAGG-TGG
64 ATACCCCTGT-AGGATAG
* * * *
70687017 AATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAG-GTAGAATTACCAAA
1 AATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTTAGTG-A-AATTACCAAA
*
70687081 ATACCCCTGTAGGGTAG
64 ATACCCCTGTAGGATAG
* * * * * ***
70687098 AATTACTGAAATACCCCTGTAAGGTAGAATTA-TCGAAATACCCCTG-TAGGGTAGAATTATTGA
1 AATTACCGAAATACCCTTGTAGGGTAAAATTACT-GAAATACCCCTGTTAGTG-A-AATTACCAA
* *
70687161 AATACCCCTATAGGGTAG
63 AATACCCCTGTAGGATAG
* * **
70687179 AATTACCTAGATACCCTTGGGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAAAATTAC
70687212 CATTTTGCCC
Statistics
Matches: 295, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
76 1 0.00
77 2 0.01
78 2 0.01
79 43 0.15
80 43 0.15
81 198 0.67
82 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (80 bp):
AATTACCGAAATACCCTTGTAGGGTAAAATTACTGAAATACCCCTGTTAGTGAAATTACCAAAAT
ACCCCTGTAGGATAG
Found at i:70687691 original size:31 final size:31
Alignment explanation
Indices: 70687612--70687691 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
70687602 TTGCATTCAC
70687612 ATTCTGATTTTTGATTCTGTTACCTGATACTA
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTA
* * *
70687644 ATTCCGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
70687675 ATTCTGATTTTAATTCT
1 ATTCTGATTTTGATTCT
70687692 AGTTCTGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 36 0.86
32 6 0.14
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:70695550 original size:11 final size:12
Alignment explanation
Indices: 70695534--70695564 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
70695524 ATAAATCACT
70695534 TTTTTTTTCG-A
1 TTTTTTTTCGAA
70695545 TTTTTTTTCGAA
1 TTTTTTTTCGAA
70695557 TTTTTTTT
1 TTTTTTTT
70695565 AAACTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:70697289 original size:10 final size:10
Alignment explanation
Indices: 70697274--70697300 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70697264 TAAGTTGAAG
70697274 TTGAGCTGAT
1 TTGAGCTGAT
70697284 TTGAGCTGAT
1 TTGAGCTGAT
70697294 TTGAGCT
1 TTGAGCT
70697301 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:70698663 original size:13 final size:13
Alignment explanation
Indices: 70698645--70698669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70698635 TAACCTACAA
70698645 AATTAAATAACAT
1 AATTAAATAACAT
70698658 AATTAAATAACA
1 AATTAAATAACA
70698670 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:70703750 original size:30 final size:31
Alignment explanation
Indices: 70703716--70703812 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
70703706 AGCTCACTCC
*
70703716 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
70703746 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
70703776 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
70703806 TAGCTCA
1 TAGCTCA
70703813 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:70705760 original size:71 final size:70
Alignment explanation
Indices: 70705619--70705748 Score: 158
Period size: 71 Copynumber: 1.9 Consensus size: 70
70705609 AGCCGATTTG
* * * * *
70705619 TCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCACGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATG
70705684 TATCTC
65 TATCTC
* *
70705690 TCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTAC
1 TCACGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC
70705749 TCATAGTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
68 21 0.40
70 2 0.04
71 29 0.56
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (70 bp):
TCACGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATGT
ATCTC
Found at i:70715711 original size:17 final size:17
Alignment explanation
Indices: 70715679--70715717 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
70715669 AAAAAAATTC
*
70715679 AAAAAAAATTTCGAAAA
1 AAAAAAAATCTCGAAAA
70715696 GAAAAAAAATCT-GAAAA
1 -AAAAAAAATCTCGAAAA
70715713 AAAAA
1 AAAAA
70715718 GTGTTTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAAAAATCTCGAAAA
Found at i:70716641 original size:5 final size:5
Alignment explanation
Indices: 70716622--70716685 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
70716612 TCTTGTAAAG
* *
70716622 AGAAA ATAAA A-AAA AGAAA AGAAAA AGAAA A-AGA AGAAAA AGAAA ATGAAA
1 AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA AGAAA AG-AAA AGAAA A-GAAA
70716673 TA-AAA AGAAA AGA
1 -AGAAA AGAAA AGA
70716686 GAGCCAAGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
4 8 0.16
5 27 0.55
6 13 0.27
7 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (5 bp):
AGAAA
Found at i:70716658 original size:15 final size:16
Alignment explanation
Indices: 70716632--70716683 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
70716622 AGAAAATAAA
70716632 AAAAAGAAAAGAAAAAG
1 AAAAAG-AAAGAAAAAG
70716649 AAAAAG-AAGAAAAAG
1 AAAAAGAAAGAAAAAG
* *
70716664 AAAATGAAATAAAAAG
1 AAAAAGAAAGAAAAAG
70716680 AAAA
1 AAAA
70716684 GAGAGCCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
15 14 0.44
16 12 0.38
17 6 0.19
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:70716818 original size:31 final size:30
Alignment explanation
Indices: 70716752--70716836 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 30
70716742 CCTTTGAAAA
* *
70716752 GAAAAAAGAAAAAGAAAATGAAA-ATGAGAT
1 GAAAAAAGAGAAAGAAAA-GAAATTTGAGAT
* *
70716782 TAAAAAAGAGAACGAAAAGAAATTTGAGAGT
1 GAAAAAAGAGAAAGAAAAGAAATTTGAGA-T
* *
70716813 GAAAAAGGAG-ATGAAAAAGAAATT
1 GAAAAAAGAGAAAG-AAAAGAAATT
70716837 GAAACAAAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.09
30 22 0.49
31 19 0.42
ACGTcount: A:0.64, C:0.01, G:0.22, T:0.13
Consensus pattern (30 bp):
GAAAAAAGAGAAAGAAAAGAAATTTGAGAT
Found at i:70719167 original size:30 final size:30
Alignment explanation
Indices: 70719072--70719168 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
70719062 AGCTCAATCC
* *
70719072 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
70719102 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
* *
70719132 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
70719162 TAGCTCA
1 TAGCTCA
70719169 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 40 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:70724321 original size:45 final size:43
Alignment explanation
Indices: 70724226--70724325 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
70724216 TTTTCTCAAA
* **
70724226 TCACCGGCATT-TTGCCTGTTAGGCTCGAGGCCCGATATCAGT
1 TCACCGGCATTATAGCCTACTAGGCTCGAGGCCCGATATCAGT
70724268 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGA-AT-AGTAT
1 TCACCGGCATTATAGCCTACTAGGCTCG-AGGCCCGATATCAG--T
70724312 CTCACCGGCATTAT
1 -TCACCGGCATTAT
70724326 GGTTTGCTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
42 13 0.26
43 15 0.30
44 9 0.18
45 13 0.26
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTACTAGGCTCGAGGCCCGATATCAGT
Found at i:70726489 original size:38 final size:38
Alignment explanation
Indices: 70726446--70726642 Score: 243
Period size: 38 Copynumber: 5.1 Consensus size: 38
70726436 GAAGGCCTGA
* * * * * *
70726446 ATATAATACTAGCACTAGGCCTGCAGGATTTATCCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
70726484 ATATAATACAAGCACGAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
70726522 ATAT-TTGACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAAT-ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
* *
70726562 ATATAATACTAGCACGAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
70726600 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
70726638 ATATA
1 ATATA
70726643 CATCGAATAT
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 99 0.72
39 10 0.07
40 26 0.19
41 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:70726576 original size:78 final size:76
Alignment explanation
Indices: 70726446--70726642 Score: 261
Period size: 78 Copynumber: 2.6 Consensus size: 76
70726436 GAAGGCCTGA
* * * * * *
70726446 ATATAATACTAGCACTAGGCCTGCAGGATTTATCCCAGATATAATACAAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACAAGCACGAAGCCTGCGAG
*
70726511 ATTTAACTCGG
66 ATTTAACCCGG
* * * *
70726522 ATAT-TTGACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACTAGCACGAAGCCTGC
1 ATATAAT-ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCAGATATAATACAAGCACGAAGCCTGC
70726586 GAGATTTAACCCGG
63 GAGATTTAACCCGG
70726600 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATA
70726643 CATCGAATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 29 0.28
77 9 0.09
78 63 0.61
79 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACAAGCACGAAGCCTGCGAG
ATTTAACCCGG
Found at i:70730013 original size:93 final size:93
Alignment explanation
Indices: 70729870--70730080 Score: 305
Period size: 93 Copynumber: 2.3 Consensus size: 93
70729860 GCAGACTCGG
* * * * *
70729870 ACTCAACTCAACGAATACGGATGCCTAGTTACATTTCACGAACTTAGACTCAACTCAATGAGCTC
1 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGCTC
* *
70729935 GGACATTTGTATCCATAAGTGAACTCAA
66 GGACATTCGCATCCATAAGTGAACTCAA
* *
70729963 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTC
1 ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGCTC
* * **
70730028 GGGCATTCGCATCTATAAGTGAACTCGG
66 GGACATTCGCATCCATAAGTGAACTCAA
70730056 ACTCAACTCAACGAGTTCGGATGCC
1 ACTCAACTCAACGAGTTCGGATGCC
70730081 CAAATATCCG
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 105 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (93 bp):
ACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACTCAACTCAACGAGCTC
GGACATTCGCATCCATAAGTGAACTCAA
Found at i:70730019 original size:47 final size:48
Alignment explanation
Indices: 70729855--70730080 Score: 161
Period size: 46 Copynumber: 4.8 Consensus size: 48
70729845 GTAACCCGCC
* *
70729855 CATAAGC-AGACTCGGACTCAACTCAACGAATACGGATGCCTAGTTACAT
1 CATAAGCGA-ACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * ** * * * **
70729904 -TTCA-CGAACTTAGACTCAACTCAATGAGCTCGGA---CATTTGTAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
* **
70729947 CCATAAGTGAACTCAAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* *
70729997 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGG--G-CA-TTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
*
70730040 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 C-ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
70730081 CAAATATCCG
Statistics
Matches: 134, Mismatches: 28, Indels: 30
0.70 0.15 0.16
Matches are distributed among these distances:
42 2 0.01
43 10 0.07
44 2 0.01
45 5 0.04
46 53 0.40
47 48 0.36
48 6 0.04
49 3 0.02
50 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (48 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:70731896 original size:12 final size:12
Alignment explanation
Indices: 70731879--70731931 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
70731869 TCTCAAACTT
70731879 TTTTTCATTCTC
1 TTTTTCATTCTC
70731891 TTTTTCAATT-TC
1 TTTTTC-ATTCTC
*
70731903 TTTTTCAATCTC
1 TTTTTCATTCTC
* *
70731915 ATTTTCACTCTC
1 TTTTTCATTCTC
70731927 TTTTT
1 TTTTT
70731932 GTCCTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.86
13 3 0.09
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTCATTCTC
Found at i:70731903 original size:36 final size:36
Alignment explanation
Indices: 70731863--70731931 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
70731853 TCAACTTCTT
** *
70731863 TTTCTCTCTCAAACTTTTTTTCATTCTCTTTTTCAA
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
* * *
70731899 TTTCTTTTTCAATCTCATTTTCACTCTCTTTTT
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTT
70731932 GTCCTTTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (36 bp):
TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
Found at i:70731906 original size:24 final size:24
Alignment explanation
Indices: 70731879--70731931 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
70731869 TCTCAAACTT
* * *
70731879 TTTTTCATTCTCTTTTTCAATTTC
1 TTTTTCAATCTCATTTTCAATCTC
*
70731903 TTTTTCAATCTCATTTTCACTCTC
1 TTTTTCAATCTCATTTTCAATCTC
70731927 TTTTT
1 TTTTT
70731932 GTCCTTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTCAATCTCATTTTCAATCTC
Found at i:70733784 original size:20 final size:21
Alignment explanation
Indices: 70733735--70733788 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
70733725 AATGAAATAA
* *
70733735 GAAACAAGCTAAAAGGAAGCT
1 GAAACAAGCTCAAACGAAGCT
* *
70733756 AAAATAAGCTCAAACG-AGCT
1 GAAACAAGCTCAAACGAAGCT
70733776 GAAACAAGCTCAA
1 GAAACAAGCTCAA
70733789 GTGAGCTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.52, C:0.19, G:0.19, T:0.11
Consensus pattern (21 bp):
GAAACAAGCTCAAACGAAGCT
Found at i:70735218 original size:36 final size:36
Alignment explanation
Indices: 70735163--70735233 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
70735153 CGAATGAGGC
* *
70735163 TGATGTGTTTTAAAAACTTCAAAACTCATACCTTGT
1 TGATATGTTTTAAAAACTTCAAAACCCATACCTTGT
*
70735199 TGATATGTTTTAAAGACTTCAAAACCCATACCTTG
1 TGATATGTTTTAAAAACTTCAAAACCCATACCTTG
70735234 CTTACCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (36 bp):
TGATATGTTTTAAAAACTTCAAAACCCATACCTTGT
Found at i:70735935 original size:15 final size:16
Alignment explanation
Indices: 70735915--70735946 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
70735905 ATTATATGAA
70735915 TAATTAT-TTTTTATT
1 TAATTATGTTTTTATT
70735930 TAATTATGTTTTTATT
1 TAATTATGTTTTTATT
70735946 T
1 T
70735947 CTTTGTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TAATTATGTTTTTATT
Found at i:70737129 original size:18 final size:18
Alignment explanation
Indices: 70737098--70737160 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
70737088 GTTTTCAATT
70737098 TTCTTTTTC-TTCTCACA
1 TTCTTTTTCATTCTCACA
* *
70737115 TTCTTTTTCACTCTC-GA
1 TTCTTTTTCATTCTCACA
* * *
70737132 TCTCTTTTTCTTTTTCACT
1 T-TCTTTTTCATTCTCACA
70737151 TTCTTTTTCA
1 TTCTTTTTCA
70737161 ATTTCATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 11 0.31
18 23 0.66
19 1 0.03
ACGTcount: A:0.10, C:0.27, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTTTTCATTCTCACA
Found at i:70737143 original size:6 final size:6
Alignment explanation
Indices: 70737134--70737185 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
70737124 ACTCTCGATC
** ** *
70737134 TCTTTT TCTTTT TCACTT TCTTTT TCAATT TCATTTT TCTTTT TCTTAT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT TCTTTT
70737183 TCT
1 TCT
70737186 CTTGTTGCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
6 32 0.89
7 4 0.11
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:70737165 original size:18 final size:19
Alignment explanation
Indices: 70737134--70737178 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
70737124 ACTCTCGATC
**
70737134 TCTTTTTCTTTTTCA-CTT
1 TCTTTTTCAATTTCATCTT
*
70737152 TCTTTTTCAATTTCATTTT
1 TCTTTTTCAATTTCATCTT
70737171 TCTTTTTC
1 TCTTTTTC
70737179 TTATTCTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (19 bp):
TCTTTTTCAATTTCATCTT
Found at i:70740554 original size:51 final size:49
Alignment explanation
Indices: 70740456--70740637 Score: 256
Period size: 49 Copynumber: 3.7 Consensus size: 49
70740446 CTGGTATGCA
* ** * *
70740456 TAGTAGCCTGCACTTATTACTACACATGCGACTAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCGGTACACG
* * * *
70740505 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATATGA-CCAA-TTATCCGGTACACG
70740556 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCGGTACACG
*
70740605 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATATGACC
70740638 TCACAATAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 71 0.60
50 6 0.05
51 41 0.35
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATATGACCAATTATCCGGTACACG
Found at i:70740582 original size:26 final size:26
Alignment explanation
Indices: 70740550--70740631 Score: 75
Period size: 26 Copynumber: 3.3 Consensus size: 26
70740540 AGTTATCGGG
70740550 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * *
70740576 TACACATA-T-GAC--CAATTA-TCC
1 TACACATAGTAGCCTGCACTTAGTAC
*
70740597 GGTACACGTAGTAGCCTGCACTTAGTAC
1 --TACACATAGTAGCCTGCACTTAGTAC
70740625 TACACAT
1 TACACAT
70740632 GTGACCTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
21 2 0.05
22 5 0.12
23 7 0.17
24 3 0.07
25 3 0.07
26 14 0.34
27 5 0.12
28 2 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:70742056 original size:19 final size:19
Alignment explanation
Indices: 70742034--70742075 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
70742024 ATTTAATCAT
*
70742034 AATTAAACAGCAACTAACA
1 AATTAAACAACAACTAACA
* *
70742053 AATTAAATAACAACTAACT
1 AATTAAACAACAACTAACA
70742072 AATT
1 AATT
70742076 TCGGACACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (19 bp):
AATTAAACAACAACTAACA
Found at i:70743159 original size:10 final size:11
Alignment explanation
Indices: 70743107--70743160 Score: 58
Period size: 10 Copynumber: 4.9 Consensus size: 11
70743097 TTTAAAAAAA
*
70743107 TTTTGAATTTT
1 TTTTGAACTTT
70743118 TTTTGAA-TTT
1 TTTTGAACTTT
*
70743128 TTTCGAACATTT
1 TTTTGAAC-TTT
70743140 TTTTGAAACTTT
1 TTTTG-AACTTT
70743152 TTTT-AACTT
1 TTTTGAACTT
70743161 ACTTGATGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 14 0.37
11 7 0.18
12 14 0.37
13 3 0.08
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TTTTGAACTTT
Found at i:70749570 original size:27 final size:26
Alignment explanation
Indices: 70749535--70749646 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
70749525 AGCATGGCTG
** *
70749535 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
70749561 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
70749589 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
70749616 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
70749643 CCAG
1 CCAG
70749647 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:70749626 original size:54 final size:54
Alignment explanation
Indices: 70749535--70749646 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
70749525 AGCATGGCTG
* * *
70749535 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
70749589 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
70749643 CCAG
1 CCAG
70749647 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:70754919 original size:30 final size:30
Alignment explanation
Indices: 70754834--70754930 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
70754824 TAAACTAAAA
* *
70754834 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
70754864 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
70754894 TGAGCTAACG-TTTAGCTCGTGAGCTGAA-T
1 TGAGCTAA-GATTTAGCTCGTGAGCTGAAGT
70754923 ATGAGCTA
1 -TGAGCTA
70754931 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 1 0.02
30 51 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:70757181 original size:5 final size:5
Alignment explanation
Indices: 70757171--70757227 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
70757161 CTCTTGCCTC
*
70757171 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
70757218 TCTTT TCTTT
1 TCTTT TCTTT
70757228 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:70757211 original size:15 final size:14
Alignment explanation
Indices: 70757171--70757227 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
70757161 CTCTTGCCTC
*
70757171 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
70757186 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
70757201 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
70757218 TCTTTTCTTT
1 TCTTTTCTTT
70757228 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:70757237 original size:21 final size:20
Alignment explanation
Indices: 70757169--70757238 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
70757159 GCCTCTTGCC
70757169 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
70757192 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
70757212 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
70757232 TCTCTTT
1 TCTCTTT
70757239 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:70758167 original size:23 final size:24
Alignment explanation
Indices: 70758138--70758203 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
70758128 CACAAATCAT
*
70758138 TTTTTTTTGAAACTTTTTTT-GAA
1 TTTTTTTTGAAATTTTTTTTCGAA
*
70758161 TTTTTTTCG-AATTTTTTTTCGAA
1 TTTTTTTTGAAATTTTTTTTCGAA
*
70758184 TTTTTTTTAAAATTTTTTTT
1 TTTTTTTTGAAATTTTTTTT
70758204 ATACTTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 9 0.24
23 18 0.49
24 10 0.27
ACGTcount: A:0.20, C:0.05, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTTTTGAAATTTTTTTTCGAA
Found at i:70758191 original size:12 final size:12
Alignment explanation
Indices: 70758136--70758203 Score: 77
Period size: 12 Copynumber: 5.8 Consensus size: 12
70758126 TGCACAAATC
*
70758136 ATTTTTTTTTGAA
1 ATTTTTTTTCG-A
*
70758149 ACTTTTTTT-GA
1 ATTTTTTTTCGA
70758160 A-TTTTTTTCGA
1 ATTTTTTTTCGA
70758171 ATTTTTTTTCGA
1 ATTTTTTTTCGA
**
70758183 ATTTTTTTTAAA
1 ATTTTTTTTCGA
70758195 ATTTTTTTT
1 ATTTTTTTT
70758204 ATACTTGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
10 7 0.14
11 5 0.10
12 30 0.60
13 8 0.16
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (12 bp):
ATTTTTTTTCGA
Found at i:70759959 original size:30 final size:30
Alignment explanation
Indices: 70759872--70759968 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
70759862 TAAACTAAAA
* *
70759872 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
70759902 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
70759932 TGAGCTAACG-TTTAGCTCGTGATCTGAA-T
1 TGAGCTAA-GATTTAGCTCGTGAGCTGAAGT
70759961 ATGAGCTA
1 -TGAGCTA
70759969 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:70763026 original size:10 final size:10
Alignment explanation
Indices: 70762999--70763028 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
70762989 ACAGATAGAT
70762999 AATTCAGAAA
1 AATTCAGAAA
70763009 ATATTCAGAAA
1 A-ATTCAGAAA
70763020 AATTCAGAA
1 AATTCAGAA
70763029 TACTTACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (10 bp):
AATTCAGAAA
Found at i:70764122 original size:27 final size:26
Alignment explanation
Indices: 70764087--70764198 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
70764077 AGCATGGCTG
** *
70764087 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
70764113 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
70764141 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
70764168 CCAGATCAGATAATTGTGGTATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
70764195 CCAG
1 CCAG
70764199 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:70764178 original size:54 final size:54
Alignment explanation
Indices: 70764087--70764198 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
70764077 AGCATGGCTG
* * *
70764087 CCAGAACAGATAATGTGATAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
70764141 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGTATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
70764195 CCAG
1 CCAG
70764199 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:70770417 original size:10 final size:10
Alignment explanation
Indices: 70770402--70770428 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
70770392 TACTCCTTCA
70770402 AGCTCAAATC
1 AGCTCAAATC
70770412 AGCTCAAATC
1 AGCTCAAATC
70770422 AGCTCAA
1 AGCTCAA
70770429 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:70787289 original size:38 final size:38
Alignment explanation
Indices: 70787218--70787458 Score: 329
Period size: 38 Copynumber: 6.3 Consensus size: 38
70787208 AGCTCAAAGG
* ** * * *
70787218 CCCGAATATAATACCAATACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
70787256 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
70787294 CTCGGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * * *
70787332 CCCGGATATAATATCAACATGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
70787370 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
70787408 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
70787446 CCCAGATATAATA
1 CCCGGATATAATA
70787459 TTTCGATAAA
Statistics
Matches: 178, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 178 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:70787423 original size:114 final size:114
Alignment explanation
Indices: 70787241--70787459 Score: 375
Period size: 114 Copynumber: 1.9 Consensus size: 114
70787231 CCAATACTAG
* * * *
70787241 GCCTACGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAACTCGGATATATT
1 GCCTACGGGATTTAACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
70787306 ACCAGCACGAAGCCTGTGGGATTTAACCCGGATATAATATCAACATGAA
66 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATATCAACATGAA
*
70787355 GCCTACGGGATTTAACCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 GCCTACGGGATTTAACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
70787420 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATAT
66 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATAT
70787460 TTCGATAAAC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (114 bp):
GCCTACGGGATTTAACCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATATCAACATGAA
Found at i:70791678 original size:30 final size:29
Alignment explanation
Indices: 70791635--70791698 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
70791625 CAAGTAGCCG
*
70791635 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
70791664 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
70791694 AAGCT
1 AAGCT
70791699 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:70797761 original size:93 final size:93
Alignment explanation
Indices: 70797649--70797819 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
70797639 GCCCATAAGT
* *
70797649 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70797714 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
70797742 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
70797807 CGAGTTCGGATGC
66 CGAGCTCGGATGC
70797820 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:70797816 original size:46 final size:46
Alignment explanation
Indices: 70797641--70797816 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
70797631 TGTAAACCGC
* *
70797641 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
70797687 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
70797737 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
70797780 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
70797817 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:70802119 original size:27 final size:27
Alignment explanation
Indices: 70802089--70802232 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
70802079 TACTGAAATG
*
70802089 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
70802116 CCCTCGATTTATAAAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
70802143 CCCTCAATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
70802170 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
70802197 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
70802224 CCCTCGATT
1 CCCTCGATT
70802233 GTGAAATTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:70802254 original size:27 final size:26
Alignment explanation
Indices: 70802224--70802366 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 26
70802214 TACCATTTTA
**
70802224 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
*
70802251 CCCTG-TAG-GATAGAATTACCAAAATAC
1 CCCTGATTGTG--A-AATTACCAAAATAC
* *
70802278 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
70802305 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* * *
70802331 CACTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
70802359 CCCTGATT
1 CCCTGATT
70802367 TACAAAATTA
Statistics
Matches: 92, Mismatches: 16, Indels: 17
0.74 0.13 0.14
Matches are distributed among these distances:
24 1 0.01
25 2 0.02
26 8 0.09
27 74 0.80
28 5 0.05
29 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:70802322 original size:54 final size:54
Alignment explanation
Indices: 70802264--70802465 Score: 192
Period size: 54 Copynumber: 3.7 Consensus size: 54
70802254 TGTAGGATAG
***
70802264 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * *
70802318 AATTACCGAAATA-CACTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * ** *
70802372 AATTA-CAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCCT-AGTTTGT-AAAATTACCAAAATACCACTGGTTTACAA
* * * *
70802428 AATTACTAAAATACCCTTAGTTTGTAGATTTACCAAAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
70802466 CACCCTTGTG
Statistics
Matches: 117, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
53 4 0.03
54 61 0.52
55 12 0.10
56 39 0.33
57 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:70802367 original size:27 final size:27
Alignment explanation
Indices: 70802264--70802470 Score: 134
Period size: 27 Copynumber: 7.6 Consensus size: 27
70802254 TGTAGGATAG
70802264 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
70802291 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
70802318 AATTACCGAAATA-CACTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
70802345 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
70802372 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCCTGA-TTTGT-AA
** ** * **
70802401 AATTATAAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
* * *
70802428 AATTACTAAAATA-CCCTTAGTTTGTAG
1 AATTACCAAAATACCCCTGA-TTTGTAA
* *
70802455 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
70802471 TTGTGGGATG
Statistics
Matches: 139, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
26 8 0.06
27 102 0.73
28 11 0.08
29 17 0.12
30 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:70802568 original size:27 final size:27
Alignment explanation
Indices: 70802504--70802568 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
70802494 ACCCCTAATA
* *
70802504 GGTAAAAAGACCGTAAAGCCTCTGTAG
1 GGTAAAATGACCGTAAACCCTCTGTAG
* *
70802531 GGTAAAGTGACCGTAATACCCT-TGTAT
1 GGTAAAATGACCGTAA-ACCCTCTGTAG
70802558 GGTAAAATGAC
1 GGTAAAATGAC
70802569 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAAACCCTCTGTAG
Found at i:70803297 original size:20 final size:20
Alignment explanation
Indices: 70803272--70803358 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
70803262 GATATGATAT
*
70803272 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
70803292 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
70803312 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
70803332 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
70803352 ACATGAT
1 ACATGAT
70803359 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:70803437 original size:26 final size:26
Alignment explanation
Indices: 70803408--70803526 Score: 142
Period size: 25 Copynumber: 4.8 Consensus size: 26
70803398 GAGGAAGTGC
**
70803408 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
70803434 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
70803460 AAAA--G--TAAGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
70803482 AAAAGGGCTT-TGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
70803507 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
70803527 ATTAAAGAGG
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
22 18 0.23
24 2 0.03
25 30 0.38
26 29 0.37
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:70803483 original size:48 final size:47
Alignment explanation
Indices: 70803420--70803511 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 47
70803410 AAGGGCTTAT
*
70803420 GCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGTAA
1 GCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCGAAAAGTAA
70803468 GCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCGAAAAG
1 GCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCGAAAAG
70803512 GGCTTTGCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 19 0.44
48 24 0.56
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (47 bp):
GCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCGAAAAGTAA
Found at i:70803484 original size:22 final size:23
Alignment explanation
Indices: 70803420--70803486 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 23
70803410 AAGGGCTTAT
*
70803420 GCCCCAGTTTATTGAAAAGGGCTTAT
1 GCCCCAGTTTATTGAAAA--GC-TAA
**
70803446 GCCCCAGTTTACCGAAAAG-TAA
1 GCCCCAGTTTATTGAAAAGCTAA
70803468 GCCCCAGTTTATTGAAAAG
1 GCCCCAGTTTATTGAAAAG
70803487 GGCTTTGCCC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 19 0.53
24 1 0.03
26 16 0.44
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (23 bp):
GCCCCAGTTTATTGAAAAGCTAA
Found at i:70803782 original size:31 final size:31
Alignment explanation
Indices: 70803744--70803849 Score: 176
Period size: 31 Copynumber: 3.4 Consensus size: 31
70803734 CGTTTACAGT
* *
70803744 AAAGGCTTCGGGCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
70803775 AAAGGCTTCAGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
70803806 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
70803837 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
70803850 TAATAACCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 69 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:70806991 original size:17 final size:18
Alignment explanation
Indices: 70806969--70807002 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
70806959 CACATTGAAG
70806969 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
70806986 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
70807003 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:70808419 original size:28 final size:28
Alignment explanation
Indices: 70808379--70808489 Score: 116
Period size: 28 Copynumber: 3.9 Consensus size: 28
70808369 TGGGAAGTAG
* *
70808379 TTGGGTCTGATGGGCCATATGAATGTAA
1 TTGGGCCTAATGGGCCATATGAATGTAA
* *
70808407 TTGGGCCTAATGGGCCATATGAATATGA
1 TTGGGCCTAATGGGCCATATGAATGTAA
* * *
70808435 TTGGGCCTGATGGGCCATGTGAACG-AGA
1 TTGGGCCTAATGGGCCATATGAATGTA-A
* *
70808463 TTGGGCCTAAAGGGGCCAAATGAATGT
1 TTGGGCCT-AATGGGCCATATGAATGT
70808490 GTGGATCCGT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
28 54 0.82
29 12 0.18
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGTAA
Found at i:70808445 original size:56 final size:57
Alignment explanation
Indices: 70808379--70808487 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 57
70808369 TGGGAAGTAG
* * * *
70808379 TTGGGTCTGATGGGCCATATGAATGTA-ATTGGGCCT-AATGGGCCATATGAATATGA
1 TTGGGCCTGATGGGCCATATGAACG-AGATTGGGCCTAAAGGGGCCAAATGAATATGA
*
70808435 TTGGGCCTGATGGGCCATGTGAACGAGATTGGGCCTAAAGGGGCCAAATGAAT
1 TTGGGCCTGATGGGCCATATGAACGAGATTGGGCCTAAAGGGGCCAAATGAAT
70808488 GTGTGGATCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.02
56 31 0.67
57 14 0.30
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (57 bp):
TTGGGCCTGATGGGCCATATGAACGAGATTGGGCCTAAAGGGGCCAAATGAATATGA
Found at i:70808814 original size:27 final size:27
Alignment explanation
Indices: 70808792--70809038 Score: 277
Period size: 27 Copynumber: 9.2 Consensus size: 27
70808782 AGAAATTATT
70808792 AAAATACCCTCGATTTGTAAAATTACTC
1 AAAATACCCTCGATTTGTAAAATTAC-C
*
70808820 -AAATACCCTCGATTATG--AAATTACT
1 AAAATACCCTCGATT-TGTAAAATTACC
* * * *
70808845 AAAATGCCCTCAATTTGTGAAATTACT
1 AAAATACCCTCGATTTGTAAAATTACC
* * * *
70808872 GAAACACCCTCTATTTGTAAAATTATC
1 AAAATACCCTCGATTTGTAAAATTACC
* *
70808899 GAAATACCCTAGA-TTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* *
70808925 AAAACACCCTCGATTTGTAAAATTGCC
1 AAAATACCCTCGATTTGTAAAATTACC
*
70808952 AAAATACCCTCAATTTGTAAAATTACC
1 AAAATACCCTCGATTTGTAAAATTACC
* *
70808979 AAAATACCCTCAATTTGTAAAATTATC
1 AAAATACCCTCGATTTGTAAAATTACC
* * *
70809006 GAAACACCCTCGATTTGTAAAATTATC
1 AAAATACCCTCGATTTGTAAAATTACC
70809033 AAAATA
1 AAAATA
70809039 TCCTTGTAGT
Statistics
Matches: 187, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 41 0.22
27 142 0.76
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATACCCTCGATTTGTAAAATTACC
Found at i:70808868 original size:53 final size:53
Alignment explanation
Indices: 70808784--70809036 Score: 239
Period size: 53 Copynumber: 4.7 Consensus size: 53
70808774 TAATAAAGAG
* * *
70808784 AAATTATTAAAATACCCTCGATTTGTAAAATTACTC-AAATACCCTCGATTATG-
1 AAATTACTAAAATACCCTCAATTTGTAAAATTAC-CAAAACACCCTCGATT-TGA
* * ** *
70808837 AAATTACTAAAATGCCCTCAATTTGTGAAATTACTGAAACACCCTCTATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTCGATTTG-A
*
70808891 AAATTA-TCGAAATACCCT-AGA-TTGTAAAATTACCAAAACACCCTCGATTTGTA
1 AAATTACT-AAAATACCCTCA-ATTTGTAAAATTACCAAAACACCCTCGATTTG-A
* * * *
70808944 AAATTGCCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTCGATTTG-A
* * * *
70808998 AAATTA-TCGAAACACCCTCGATTTGTAAAATTATCAAAA
1 AAATTACT-AAAATACCCTCAATTTGTAAAATTACCAAAA
70809037 TATCCTTGTA
Statistics
Matches: 167, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.01
53 87 0.52
54 78 0.47
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCTCGATTTGA
Found at i:70808921 original size:80 final size:79
Alignment explanation
Indices: 70808783--70809038 Score: 264
Period size: 80 Copynumber: 3.2 Consensus size: 79
70808773 ATAATAAAGA
* * * * * *
70808783 GAAATTATTAAAATACCCTCGATTTGTAAAATTACTCAAATACCCTCGATTATGAAATTACTAAA
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTA-TCAAATACCCTAGATTGTAAAATTACCAAA
**
70808848 ATGCCCTCAATTTGT
65 ACACCCTCAATTTGT
* * *
70808863 GAAATTACTGAAACACCCTCTATTTGTAAAATTATCGAAATACCCTAGATTGTAAAATTACCAAA
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTATC-AAATACCCTAGATTGTAAAATTACCAAA
*
70808928 ACACCCTCGATTTGT
65 ACACCCTCAATTTGT
* * * * * *
70808943 AAAATTGCCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCA-ATTTGTAAAATTATCG
1 GAAATTACTAAAATACCCTCAATTTGTAAAATTATC-AAATACCCT-AGA-TTGTAAAATTACCA
*
70809007 AAACACCCTCGATTTGT
63 AAACACCCTCAATTTGT
*
70809024 AAAATTA-TCAAAATA
1 GAAATTACT-AAAATA
70809039 TCCTTGTAGT
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.01
80 105 0.70
81 42 0.28
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (79 bp):
GAAATTACTAAAATACCCTCAATTTGTAAAATTATCAAATACCCTAGATTGTAAAATTACCAAAA
CACCCTCAATTTGT
Found at i:70809054 original size:54 final size:53
Alignment explanation
Indices: 70808784--70809069 Score: 210
Period size: 54 Copynumber: 5.3 Consensus size: 53
70808774 TAATAAAGAG
** *
70808784 AAATTATTAAAATACCCTCGATTTGTAAAATTACTC-AAATACCCTCGATTATG--
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAC-CAAAATA-CCTTGATT-TGTA
* * * * ** *
70808837 AAATTA-CTAAAATGCCCTCAATTTGTGAAATTACTGAAACACCCTCT-ATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCAAAATA-CCT-TGATTTGTA
* * *
70808891 AAATTATCGAAATACCCTAGA-TTGTAAAATTACCAAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCTTGATTTGTA
** * * **
70808944 AAATTGCCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCTTGATTTGTA
* * * *
70808998 AAATTATCGAAACACCCTCGATTTGTAAAATTATCAAAATATCCTTG-TAGTATA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATA-CCTTGAT-TTGTA
70809052 AAATTA-CTGAAATACCCT
1 AAATTATC-GAAATACCCT
70809070 TGTGTAAAAT
Statistics
Matches: 189, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
52 2 0.01
53 85 0.45
54 101 0.53
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (53 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCAAAATACCTTGATTTGTA
Found at i:70809054 original size:81 final size:80
Alignment explanation
Indices: 70808792--70809069 Score: 238
Period size: 80 Copynumber: 3.5 Consensus size: 80
70808782 AGAAATTATT
* * * * * * * **
70808792 AAAATACCCTCGATTTGTAAAATTACTC-AAATACCCTCGATTATGAAATTACTAAAATGCCCTC
1 AAAATACCCTCAATGTATAAAATTAC-CGAAATACCCTAGATTGTAAAATTACCAAAACACCCTC
* * *
70808856 AATTTGTGAAATTACT
65 GATTTGTAAAATTACC
* * * * * *
70808872 GAAACACCCTCTATTTGTAAAATTATCGAAATACCCTAGATTGTAAAATTACCAAAACACCCTCG
1 AAAATACCCTCAATGTATAAAATTACCGAAATACCCTAGATTGTAAAATTACCAAAACACCCTCG
*
70808937 ATTTGTAAAATTGCC
66 ATTTGTAAAATTACC
* * * * *
70808952 AAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCA-ATTTGTAAAATTATCGAAACACCCT
1 AAAATACCCTCAATGTATAAAATTACCGAAATACCCT-AGA-TTGTAAAATTACCAAAACACCCT
*
70809016 CGATTTGTAAAATTATC
64 CGATTTGTAAAATTACC
* ** *
70809033 AAAATATCCT-TGTAGTATAAAATTACTGAAATACCCT
1 AAAATACCCTCAAT-GTATAAAATTACCGAAATACCCT
70809070 TGTGTAAAAT
Statistics
Matches: 164, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 98 0.60
81 65 0.40
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (80 bp):
AAAATACCCTCAATGTATAAAATTACCGAAATACCCTAGATTGTAAAATTACCAAAACACCCTCG
ATTTGTAAAATTACC
Found at i:70817999 original size:2 final size:2
Alignment explanation
Indices: 70817992--70818022 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70817982 AACCCATGCC
70817992 TA TA 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 TA TA T
70818023 CATGGCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70818045 original size:21 final size:20
Alignment explanation
Indices: 70818019--70818063 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
70818009 ATATATATAT
70818019 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATG-GC
*
70818040 ATATCATGGCATATTATGGC
1 ATATCATGGCATATCATGGC
70818060 ATAT
1 ATAT
70818064 TATGTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
ATATCATGGCATATCATGGC
Found at i:70818067 original size:10 final size:10
Alignment explanation
Indices: 70818019--70818063 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
70818009 ATATATATAT
70818019 ATATCATGGC
1 ATATCATGGC
70818029 ATATCATGTGC
1 ATATCATG-GC
70818040 ATATCATGGC
1 ATATCATGGC
*
70818050 ATATTATGGC
1 ATATCATGGC
70818060 ATAT
1 ATAT
70818064 TATGTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:70821737 original size:2 final size:2
Alignment explanation
Indices: 70821730--70821756 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
70821720 TAATGGTATT
70821730 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
70821757 GATTATGTTG
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
Found at i:70822154 original size:22 final size:22
Alignment explanation
Indices: 70822129--70822173 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
70822119 GATGTGACCA
70822129 TAGATGTTTGGTAATGGAGTTG
1 TAGATGTTTGGTAATGGAGTTG
*
70822151 TAGATGTTTGGTGATGGAGTTG
1 TAGATGTTTGGTAATGGAGTTG
70822173 T
1 T
70822174 GAGTAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (22 bp):
TAGATGTTTGGTAATGGAGTTG
Done.