Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 21 of 325
Found at i:8120347 original size:23 final size:23
Alignment explanation
Indices: 8120320--8120395 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
8120310 AGTGTTATTG
8120320 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
8120343 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8120366 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
8120389 ATCAGTG
1 ATCAGTG
8120396 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:8123514 original size:34 final size:34
Alignment explanation
Indices: 8123471--8123538 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8123461 CTTTTCTATG
8123471 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
1 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
8123505 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
1 ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
8123539 GCGTGTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (34 bp):
ATATCTCTTCCACAAATGTGAAATAATTTTTTGT
Found at i:8146326 original size:8 final size:8
Alignment explanation
Indices: 8146313--8146339 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8146303 TTATTTTATT
8146313 TATTTTAA
1 TATTTTAA
8146321 TATTTTAA
1 TATTTTAA
8146329 TATTTTAA
1 TATTTTAA
8146337 TAT
1 TAT
8146340 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:8146487 original size:19 final size:18
Alignment explanation
Indices: 8146463--8146526 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
8146453 TTTATTTTAT
8146463 AATAATATAATATCAATTA
1 AATAATATAATATC-ATTA
8146482 AATAATAATAATTAATCATTA
1 AATAAT-ATAA-T-ATCATTA
*
8146503 TAATAATA-AATATCTATTT
1 -AATAATATAATATC-ATTA
8146522 AATAA
1 AATAA
8146527 CAAATATATG
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
18 8 0.21
19 10 0.26
20 6 0.15
21 6 0.15
22 9 0.23
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATATAATATCATTA
Found at i:8146499 original size:22 final size:22
Alignment explanation
Indices: 8146461--8146511 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
8146451 AATTTATTTT
8146461 ATAATAATATAATATCAATTA-A
1 ATAATAATATAATATC-ATTATA
*
8146483 ATAATAATA-ATTAATCATTATA
1 ATAATAATATAAT-ATCATTATA
8146505 ATAATAA
1 ATAATAA
8146512 ATATCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATAATATAATATCATTATA
Found at i:8146526 original size:18 final size:18
Alignment explanation
Indices: 8146459--8146533 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 18
8146449 TTAATTTATT
8146459 TTATAATAATATAATATCAA
1 TTATAATAATA-AATATC-A
*
8146479 TTAAATAATAATAATTAATCA
1 TT--ATAATAATAAAT-ATCA
8146500 TTATAATAATAAATATCTA
1 TTATAATAATAAATATC-A
*
8146519 TT-TAATAACAAATAT
1 TTATAATAATAAATAT
8146534 ATGTATTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 15 0.31
19 14 0.29
20 2 0.04
21 5 0.10
22 12 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAATAATAAATATCA
Found at i:8147048 original size:35 final size:35
Alignment explanation
Indices: 8147003--8147133 Score: 181
Period size: 35 Copynumber: 3.7 Consensus size: 35
8146993 AATATTAACT
8147003 ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
1 ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
* *
8147038 ATACTGAGTTGTGAAACGTAGGTATGATATCAACC
1 ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
* * * *
8147073 ATATTGAGTTGTGAAACGTAAGTATGGTATTATTC
1 ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
** *
8147108 ATACTGAGTTAAGAAACATAGGTATG
1 ATACTGAGTTGTGAAACGTAGGTATG
8147134 ACATTTCCCA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 83 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (35 bp):
ATACTGAGTTGTGAAACGTAGGTATGGTATCATCC
Found at i:8147090 original size:70 final size:70
Alignment explanation
Indices: 8146976--8147134 Score: 210
Period size: 70 Copynumber: 2.3 Consensus size: 70
8146966 AATAGCAAAG
* * * * *
8146976 TGTGAAACGTAATGTATAATATTAACTATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATA
1 TGTGAAACGT-AGGTATGATATCAACCATACTGAGTTGTGAAACGTAAGTATGGTATCATCCATA
8147041 CTGAGT
65 CTGAGT
* * *
8147047 TGTGAAACGTAGGTATGATATCAACCATATTGAGTTGTGAAACGTAAGTATGGTATTATTCATAC
1 TGTGAAACGTAGGTATGATATCAACCATACTGAGTTGTGAAACGTAAGTATGGTATCATCCATAC
8147112 TGAGT
66 TGAGT
** *
8147117 TAAGAAACATAGGTATGA
1 TGTGAAACGTAGGTATGA
8147135 CATTTCCCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
70 67 0.87
71 10 0.13
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (70 bp):
TGTGAAACGTAGGTATGATATCAACCATACTGAGTTGTGAAACGTAAGTATGGTATCATCCATAC
TGAGT
Found at i:8147156 original size:70 final size:70
Alignment explanation
Indices: 8147012--8147158 Score: 168
Period size: 70 Copynumber: 2.1 Consensus size: 70
8147002 TATACTGAGT
* ** * * *
8147012 TGTGAAACGTAGGTATGGTATCATCCATACTGAGTTGTGAAACGTAGGTATGATATCAACCATAT
1 TGTGAAACGTAAGTATGGTATCATCCATACTGAGTTAAGAAACATAGGTATGACATCAACCATAC
* **
8147077 TGAGT
66 CGAAA
* * ***
8147082 TGTGAAACGTAAGTATGGTATTATTCATACTGAGTTAAGAAACATAGGTATGACATTTCCCATAC
1 TGTGAAACGTAAGTATGGTATCATCCATACTGAGTTAAGAAACATAGGTATGACATCAACCATAC
8147147 CGAAA
66 CGAAA
8147152 TGTGAAA
1 TGTGAAA
8147159 TGCAGGTACG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (70 bp):
TGTGAAACGTAAGTATGGTATCATCCATACTGAGTTAAGAAACATAGGTATGACATCAACCATAC
CGAAA
Found at i:8148438 original size:2 final size:2
Alignment explanation
Indices: 8148431--8148455 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8148421 GTTCTTTAGA
8148431 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8148456 GGGGGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8152806 original size:47 final size:47
Alignment explanation
Indices: 8152727--8152822 Score: 149
Period size: 47 Copynumber: 2.0 Consensus size: 47
8152717 ATATATTTTT
*
8152727 ATATAAATATATAATATATCCAGGGAGACTGTCGTTTATGTGTGCCA
1 ATATAAATATATAATATATCCAGGAAGACTGTCGTTTATGTGTGCCA
* *
8152774 ATATATATATATAATATA-CCTAGGAAGGCTGTCGTTTATGTGTGCCA
1 ATATAAATATATAATATATCC-AGGAAGACTGTCGTTTATGTGTGCCA
8152821 AT
1 AT
8152823 TGCAATTAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 2 0.04
47 43 0.96
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (47 bp):
ATATAAATATATAATATATCCAGGAAGACTGTCGTTTATGTGTGCCA
Found at i:8157050 original size:65 final size:66
Alignment explanation
Indices: 8156963--8157095 Score: 196
Period size: 65 Copynumber: 2.0 Consensus size: 66
8156953 TAAAAAGCGG
* *
8156963 TTTTTACATGAAAAAAAGTAATTACTAAAATAAAATAAAAACAAATTATTTACAATAATGTATCA
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTATCA
8157028 T
66 T
* * * * *
8157029 TTTTTACATG-AAAAAATTAATTACGAAAATAAAATAAAAATAAGTTGTTTACAAGAATGTATTA
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTATCA
8157093 T
66 T
8157094 TT
1 TT
8157096 AAAAGACAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
65 50 0.83
66 10 0.17
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (66 bp):
TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTACAAGAATGTATCA
T
Found at i:8157246 original size:33 final size:34
Alignment explanation
Indices: 8157193--8157256 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
8157183 TTTATATTTT
8157193 CTAGTTTTATAATATAATTTTATA-TTTTATTAG
1 CTAGTTTTATAATATAATTTTATAGTTTTATTAG
* *
8157226 CTAGTTTTAT-ATTTATATTTTGTAGTTTTAT
1 CTAGTTTTATAATATA-ATTTTATAGTTTTAT
8157257 AATTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (34 bp):
CTAGTTTTATAATATAATTTTATAGTTTTATTAG
Found at i:8157251 original size:21 final size:21
Alignment explanation
Indices: 8157210--8157267 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
8157200 TATAATATAA
*
8157210 TTTTATATTTTA-TTAGCTAG
1 TTTTATATTTTATTTTGCTAG
8157230 TTTTATATTTATATTTTG-TAG
1 TTTTATATTT-TATTTTGCTAG
8157251 TTTTATAATTTTATTTT
1 TTTTAT-ATTTTATTTT
8157268 ATTTAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.29
21 17 0.50
22 7 0.21
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTATATTTTATTTTGCTAG
Found at i:8157797 original size:24 final size:24
Alignment explanation
Indices: 8157756--8157810 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
8157746 AAACTAACTA
8157756 ATAAAA-TATAAAAT-TATATTATATT
1 ATAAAACTA-AAAATATATA-TATA-T
8157781 ATAAAACTAAAAATATATATATAT
1 ATAAAACTAAAAATATATATATAT
8157805 ATAAAA
1 ATAAAA
8157811 AAAAGGAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAAAACTAAAAATATATATATAT
Found at i:8157811 original size:25 final size:23
Alignment explanation
Indices: 8157756--8157811 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
8157746 AAACTAACTA
*
8157756 ATAAAATATAAAATTATATTATATT
1 ATAAAA-ATAAAAATATATTATA-T
*
8157781 ATAAAACTAAAAATATATATATAT
1 ATAAAAATAAAAATATAT-TATAT
8157805 ATAAAAA
1 ATAAAAA
8157812 AAAGGAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAAATAAAAATATATTATAT
Found at i:8169558 original size:12 final size:12
Alignment explanation
Indices: 8169541--8169566 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8169531 AAATCAACTT
8169541 TAATAATGATAA
1 TAATAATGATAA
8169553 TAATAATGATAA
1 TAATAATGATAA
8169565 TA
1 TA
8169567 TAGCATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATAATGATAA
Found at i:8180021 original size:22 final size:22
Alignment explanation
Indices: 8179970--8180022 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
8179960 AAAACGAGCT
* **
8179970 ATAATTTTAAATCGAGCCCTCG
1 ATAATTTTAAATCGAGCCATAA
8179992 ATAATTTTAAATCGAGCCATAA
1 ATAATTTTAAATCGAGCCATAA
*
8180014 ATATTTTTA
1 ATAATTTTA
8180023 TAAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (22 bp):
ATAATTTTAAATCGAGCCATAA
Found at i:8181996 original size:39 final size:39
Alignment explanation
Indices: 8181950--8182082 Score: 248
Period size: 39 Copynumber: 3.4 Consensus size: 39
8181940 GCTCTGATGA
8181950 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
8181989 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
*
8182028 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
8182067 GCTTCAGTTAGCCTCC
1 GCTTCAGTTAGCCTCC
8182083 TAGATTTCGG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
Found at i:8183807 original size:29 final size:31
Alignment explanation
Indices: 8183741--8183808 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
8183731 TAACAAAACG
*
8183741 ACAATATAAATAACTAAAATATAATATTTTAA
1 ACAA-ATAAATAACTAAAATATAATATTTAAA
* *
8183773 AC--ATAAATCATTAAAATAT-A-ATTTAAA
1 ACAAATAAATAACTAAAATATAATATTTAAA
8183800 ACAAATAAA
1 ACAAATAAA
8183809 AATGATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 8 0.26
28 1 0.03
29 20 0.65
32 2 0.06
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (31 bp):
ACAAATAAATAACTAAAATATAATATTTAAA
Found at i:8184483 original size:6 final size:6
Alignment explanation
Indices: 8184472--8184497 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8184462 CGGCGGTGGA
8184472 GGAGGT GGAGGT GGAGGT GGAGGT GG
1 GGAGGT GGAGGT GGAGGT GGAGGT GG
8184498 TGATTCTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (6 bp):
GGAGGT
Found at i:8188619 original size:12 final size:12
Alignment explanation
Indices: 8188602--8188626 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8188592 ATATTTGATC
8188602 AGAGGATCAAAG
1 AGAGGATCAAAG
8188614 AGAGGATCAAAG
1 AGAGGATCAAAG
8188626 A
1 A
8188627 CGTATGAATT
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:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (12 bp):
AGAGGATCAAAG
Found at i:8191921 original size:11 final size:11
Alignment explanation
Indices: 8191905--8191930 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8191895 TAGAAGAGAC
8191905 GAAACAGGGGA
1 GAAACAGGGGA
8191916 GAAACAGGGGA
1 GAAACAGGGGA
8191927 GAAA
1 GAAA
8191931 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:8192614 original size:18 final size:18
Alignment explanation
Indices: 8192591--8192633 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
8192581 ATGTGAGGTA
8192591 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
8192609 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
*
8192627 ATTATTA
1 AGTATTA
8192634 TTATGAGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:8192619 original size:3 final size:3
Alignment explanation
Indices: 8192593--8192637 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
8192583 GTGAGGTAAG
* * * *
8192593 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8192638 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:8192832 original size:24 final size:24
Alignment explanation
Indices: 8192778--8192849 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
8192768 TGTGTGAAGT
*
8192778 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
8192801 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
8192826 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
8192850 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:8193052 original size:37 final size:39
Alignment explanation
Indices: 8192993--8193088 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
8192983 CGGATAGATT
* * * *
8192993 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
8193030 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
8193069 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
8193089 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:8199611 original size:11 final size:11
Alignment explanation
Indices: 8199595--8199620 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8199585 TAGAAGAGAC
8199595 GAAACAGGGGA
1 GAAACAGGGGA
8199606 GAAACAGGGGA
1 GAAACAGGGGA
8199617 GAAA
1 GAAA
8199621 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:8200301 original size:18 final size:18
Alignment explanation
Indices: 8200278--8200326 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
8200268 ATGTGAGGTA
*
8200278 AGTATTAATATTAGTATT
1 AGTATTATTATTAGTATT
8200296 AGTATTATTATTAGTATT
1 AGTATTATTATTAGTATT
*
8200314 ATTATTATTATTA
1 AGTATTATTATTA
8200327 TTGAGTGGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (18 bp):
AGTATTATTATTAGTATT
Found at i:8200306 original size:3 final size:3
Alignment explanation
Indices: 8200280--8200328 Score: 62
Period size: 3 Copynumber: 16.3 Consensus size: 3
8200270 GTGAGGTAAG
* * * *
8200280 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8200328 T
1 T
8200329 GAGTGGGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8200327 original size:12 final size:12
Alignment explanation
Indices: 8200280--8200328 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
8200270 GTGAGGTAAG
* *
8200280 TATTAATATTAG
1 TATTAGTATTAT
8200292 TATTAGTATTAT
1 TATTAGTATTAT
8200304 TATTAGTATTAT
1 TATTAGTATTAT
*
8200316 TATTATTATTAT
1 TATTAGTATTAT
8200328 T
1 T
8200329 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (12 bp):
TATTAGTATTAT
Found at i:8200523 original size:24 final size:24
Alignment explanation
Indices: 8200469--8200539 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
8200459 TGTGTGAAGT
*
8200469 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
8200492 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
*
8200517 TGTGAAAATTGTAATTGAATTGA
1 TGTGAAAAATG--ATTGAATTGA
8200540 GAATATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.23
24 15 0.38
25 5 0.13
26 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.34
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:8200742 original size:37 final size:39
Alignment explanation
Indices: 8200683--8200778 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
8200673 CGGATAGATT
* * * *
8200683 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
8200720 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
8200759 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
8200779 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:8214290 original size:12 final size:12
Alignment explanation
Indices: 8214273--8214297 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8214263 GCAGTAGCCC
8214273 CAGTACCAGCAG
1 CAGTACCAGCAG
8214285 CAGTACCAGCAG
1 CAGTACCAGCAG
8214297 C
1 C
8214298 GATAGTGGCT
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:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CAGTACCAGCAG
Found at i:8222488 original size:13 final size:13
Alignment explanation
Indices: 8222470--8222509 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
8222460 AGCTTCCAAG
8222470 ATATTAAGTTCCC
1 ATATTAAGTTCCC
8222483 ATATTAAGTTCCC
1 ATATTAAGTTCCC
8222496 ATATTAAGTTCCC
1 ATATTAAGTTCCC
8222509 A
1 A
8222510 ATCCGAGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (13 bp):
ATATTAAGTTCCC
Found at i:8228922 original size:24 final size:25
Alignment explanation
Indices: 8228895--8228943 Score: 91
Period size: 24 Copynumber: 2.0 Consensus size: 25
8228885 AGAAAAAGCT
8228895 AAGAAACATAGTTACATG-CCTTGA
1 AAGAAACATAGTTACATGCCCTTGA
8228919 AAGAAACATAGTTACATGCCCTTGA
1 AAGAAACATAGTTACATGCCCTTGA
8228944 CATTGCAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (25 bp):
AAGAAACATAGTTACATGCCCTTGA
Found at i:8232007 original size:18 final size:19
Alignment explanation
Indices: 8231980--8232023 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
8231970 ATATTTGAGT
*
8231980 TTTTTTAAGAAAATAAT-A
1 TTTTTAAAGAAAATAATAA
* *
8231998 TTTTTAAAGATAATCATAA
1 TTTTTAAAGAAAATAATAA
8232017 TTTTTAA
1 TTTTTAA
8232024 GGGAGTGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
TTTTTAAAGAAAATAATAA
Found at i:8236356 original size:24 final size:24
Alignment explanation
Indices: 8236328--8236376 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8236318 TATATTTCAA
* *
8236328 ATTTTT-AGCTTCCATATATATAC
1 ATTTTTAAACTTCCATACATATAC
*
8236351 ATTTTTAAATTTCCATACATATAC
1 ATTTTTAAACTTCCATACATATAC
8236375 AT
1 AT
8236377 ATACAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.35, C:0.16, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTTTAAACTTCCATACATATAC
Found at i:8236770 original size:20 final size:20
Alignment explanation
Indices: 8236727--8236770 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
8236717 AAATCCCTTC
* * * *
8236727 AAAGTAAATTCCTTGGATTG
1 AAAGGAAATTCCTTGAAATA
8236747 AAAGGAAATTCCTTGAAATA
1 AAAGGAAATTCCTTGAAATA
8236767 AAAG
1 AAAG
8236771 ATAAGAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (20 bp):
AAAGGAAATTCCTTGAAATA
Found at i:8236813 original size:3 final size:3
Alignment explanation
Indices: 8236805--8236850 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8236795 AGTTTAGTTT
8236805 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8236851 AAGACATCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8238055 original size:7 final size:8
Alignment explanation
Indices: 8238031--8238104 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 8
8238021 TGGTTTACAC
8238031 ATAAAAATT
1 ATAAAAA-T
8238040 ATTAAAAAT
1 A-TAAAAAT
8238049 A-AAAAAT
1 ATAAAAAT
8238056 ATAAAAATT
1 ATAAAAA-T
* *
8238065 ATTAATAT
1 ATAAAAAT
*
8238073 AAAAAAATT
1 ATAAAAA-T
8238082 ATAGAAAAT
1 ATA-AAAAT
*
8238091 ATAAATAT
1 ATAAAAAT
8238099 -TAAAAA
1 ATAAAAA
8238105 ATGAAAATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 12 0.23
8 14 0.27
9 16 0.31
10 10 0.19
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (8 bp):
ATAAAAAT
Found at i:8238079 original size:25 final size:25
Alignment explanation
Indices: 8238031--8238106 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
8238021 TGGTTTACAC
*
8238031 ATAAAAATTATTAA-AAATAAAAAAT
1 ATAAAAATTATTAATATA-AAAAAAT
8238056 ATAAAAATTATTAATATAAAAAAATT
1 ATAAAAATTATTAATATAAAAAAA-T
* *
8238082 ATAGAAAA-TATAAATATTAAAAAAT
1 ATA-AAAATTATTAATATAAAAAAAT
8238107 GAAAATTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
25 21 0.47
26 20 0.44
27 4 0.09
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (25 bp):
ATAAAAATTATTAATATAAAAAAAT
Found at i:8238106 original size:26 final size:26
Alignment explanation
Indices: 8238031--8238106 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
8238021 TGGTTTACAC
*
8238031 ATAAAAATTATTAAA-AATAAAAAA-T
1 ATAAAAATTA-TAAATATTAAAAAATT
* *
8238056 ATAAAAATTATTAATATAAAAAAATT
1 ATAAAAATTATAAATATTAAAAAATT
8238082 ATAGAAAA-TATAAATATTAAAAAAT
1 ATA-AAAATTATAAATATTAAAAAAT
8238107 GAAAATTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.07
25 17 0.40
26 19 0.44
27 4 0.09
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (26 bp):
ATAAAAATTATAAATATTAAAAAATT
Found at i:8238248 original size:22 final size:21
Alignment explanation
Indices: 8238197--8238247 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
8238187 ATTTATATAA
8238197 TTTATAAAACATATTTAAAAT
1 TTTATAAAACATATTTAAAAT
8238218 TTTATAAAAGCATA-TTAAAAT
1 TTTATAAAA-CATATTTAAAAT
8238239 TCTT-TAAAA
1 T-TTATAAAA
8238248 ATCGTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTATAAAACATATTTAAAAT
Found at i:8246716 original size:25 final size:25
Alignment explanation
Indices: 8246682--8246732 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8246672 TCCTTGAGAA
8246682 TATTGAAATTAAGTCTTCTTCATGT
1 TATTGAAATTAAGTCTTCTTCATGT
8246707 TATTGAAATTAAGTCTTCTTCATGT
1 TATTGAAATTAAGTCTTCTTCATGT
8246732 T
1 T
8246733 CACTTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (25 bp):
TATTGAAATTAAGTCTTCTTCATGT
Found at i:8260315 original size:12 final size:12
Alignment explanation
Indices: 8260273--8260316 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
8260263 CTTTTAGAAA
* *
8260273 TAATATTAATTT
1 TAATATTTATAT
* *
8260285 TAATATATATAA
1 TAATATTTATAT
8260297 TAATATTTATAT
1 TAATATTTATAT
8260309 TAATATTT
1 TAATATTT
8260317 TTCTAGCACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:8278521 original size:2 final size:2
Alignment explanation
Indices: 8278516--8278581 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
8278506 TGTGTGTGAA
8278516 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8278558 AG AG AG A- AG AG A- AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
8278582 GCCGGACCTG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 60 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8283818 original size:29 final size:29
Alignment explanation
Indices: 8283776--8283836 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
8283766 CTTACAACGG
*
8283776 TTGAAACTGTTGAGCATGTACTGCTATAT
1 TTGAAACTGTTGAGCACGTACTGCTATAT
8283805 TTGAAACTGTTGAGCACGTACTGCTATAT
1 TTGAAACTGTTGAGCACGTACTGCTATAT
8283834 TTG
1 TTG
8283837 CCCGATTGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (29 bp):
TTGAAACTGTTGAGCACGTACTGCTATAT
Found at i:8285750 original size:86 final size:86
Alignment explanation
Indices: 8285602--8285773 Score: 283
Period size: 86 Copynumber: 2.0 Consensus size: 86
8285592 ATTGTTCAAT
* * * *
8285602 CTGTACCAAGTTCAATGAGTTCACTAGTTATGTAGATGTCATATTGTGATATGCGGTGTGCTCAT
1 CTGTACCAAGTTCAATGAGTTCACAAGTTATGTAGATGCCATATTGTGATATGAGGTATGCTCAT
8285667 GGTATGACCCTGCATATAGCA
66 GGTATGACCCTGCATATAGCA
8285688 CTGTACCAAGTT-AAGTGAGTTCACAAGTTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
1 CTGTACCAAGTTCAA-TGAGTTCACAAGTTATGTAGATGCCATATTGTGATATGAGGTATGCTCA
*
8285752 TGGTATGACGCTGCATATAGCA
65 TGGTATGACCCTGCATATAGCA
8285774 GGAACCTAGT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 2 0.03
86 78 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (86 bp):
CTGTACCAAGTTCAATGAGTTCACAAGTTATGTAGATGCCATATTGTGATATGAGGTATGCTCAT
GGTATGACCCTGCATATAGCA
Found at i:8293409 original size:13 final size:14
Alignment explanation
Indices: 8293391--8293423 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
8293381 CAATATATCT
8293391 ATTATTTAA-CTAA
1 ATTATTTAAGCTAA
*
8293404 ATTATTTAAGGTAA
1 ATTATTTAAGCTAA
8293418 ATTATT
1 ATTATT
8293424 CTCTTGGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (14 bp):
ATTATTTAAGCTAA
Found at i:8304120 original size:24 final size:24
Alignment explanation
Indices: 8304047--8304121 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 24
8304037 TTTAATTTAG
*
8304047 ATACTAAATTAAACATTAAAGTTATTTA
1 ATACTAAATTAAACATTAAA---A-TCA
* *
8304075 ATTACCAAATTGAAACA-AAAAATCA
1 A-TACTAAATT-AAACATTAAAATCA
8304100 ATACTAAATTAAACATTAAAAT
1 ATACTAAATTAAACATTAAAAT
8304122 AAAACTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
23 5 0.13
24 13 0.33
25 3 0.08
26 1 0.03
28 1 0.03
29 11 0.28
30 5 0.13
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.31
Consensus pattern (24 bp):
ATACTAAATTAAACATTAAAATCA
Found at i:8304132 original size:24 final size:25
Alignment explanation
Indices: 8304080--8304132 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
8304070 ATTTAATTAC
*
8304080 CAAATTGAAACAAAAAATCAATACT
1 CAAATTGAAACAAAAAATCAAAACT
*
8304105 -AAATT-AAACATTAAAAT-AAAACT
1 CAAATTGAAACA-AAAAATCAAAACT
8304128 CAAAT
1 CAAAT
8304133 AACAAATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (25 bp):
CAAATTGAAACAAAAAATCAAAACT
Found at i:8307526 original size:15 final size:15
Alignment explanation
Indices: 8307508--8307538 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8307498 CAATAATATG
8307508 TAAAGTTCTAATCAT
1 TAAAGTTCTAATCAT
8307523 TAAAGTTCTAATCAT
1 TAAAGTTCTAATCAT
8307538 T
1 T
8307539 GGGCCTATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAAGTTCTAATCAT
Found at i:8327814 original size:18 final size:18
Alignment explanation
Indices: 8327793--8327827 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8327783 AGAAAATTCG
8327793 AAAAATGATA-AAAATATT
1 AAAAAT-ATATAAAATATT
8327811 AAAAATATATAAAATAT
1 AAAAATATATAAAATAT
8327828 AATATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAATATATAAAATATT
Found at i:8327891 original size:21 final size:22
Alignment explanation
Indices: 8327860--8327902 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
8327850 AATTAATAAA
*
8327860 CATATTTAAAATTTTATAAAAT
1 CATATTTAAAATTCTATAAAAT
8327882 CATA-TTAAAATTCTATAAAAT
1 CATATTTAAAATTCTATAAAAT
8327903 GAAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
CATATTTAAAATTCTATAAAAT
Found at i:8327926 original size:9 final size:9
Alignment explanation
Indices: 8327904--8327944 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8327894 CTATAAAATG
8327904 AAAAATATT
1 AAAAATATT
*
8327913 AAAAAATGTT
1 -AAAAATATT
*
8327923 AAAAATGTT
1 AAAAATATT
8327932 AAAAATATT
1 AAAAATATT
8327941 AAAA
1 AAAA
8327945 TTGCTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:8327962 original size:28 final size:27
Alignment explanation
Indices: 8327873--8327962 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
8327863 ATTTAAAATT
8327873 TTATAAAATCATATTAAAATT-CTATAAA
1 TTATAAAA--ATATTAAAATTGCTATAAA
* * *
8327901 --ATGAAAAATATTAAAAAATGTTAAAAA
1 TTAT-AAAAATATT-AAAATTGCTATAAA
8327928 TGT-TAAAAATATTAAAATTGCTATAAA
1 T-TATAAAAATATTAAAATTGCTATAAA
8327955 CTTATAAA
1 -TTATAAA
8327963 GATTATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
25 5 0.10
26 7 0.15
27 21 0.44
28 14 0.29
29 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
TTATAAAAATATTAAAATTGCTATAAA
Found at i:8328527 original size:17 final size:19
Alignment explanation
Indices: 8328507--8328559 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
8328497 AAATATAATT
8328507 TTTTTATAA-TTTAT-TAA
1 TTTTTATAACTTTATATAA
*
8328524 TTTTTATAACTTTTTATAA
1 TTTTTATAACTTTATATAA
* *
8328543 TATTTATAAGTTTATAT
1 TTTTTATAACTTTATAT
8328560 CGATTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 9 0.30
18 4 0.13
19 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTATAACTTTATATAA
Found at i:8328567 original size:38 final size:38
Alignment explanation
Indices: 8328523--8328597 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
8328513 TAATTTATTA
*
8328523 ATTTTTATAACT-TTTTATAATATTTATAAGTTTATATCG
1 ATTTTAATAACTATTTTATAAT-TTTAT-AGTTTATATCG
* * *
8328562 ATTTTAATAATTATTTTATACTTTTATATTTTATAT
1 ATTTTAATAACTATTTTATAATTTTATAGTTTATAT
8328598 TTTTAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 8 0.26
39 15 0.48
40 8 0.26
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (38 bp):
ATTTTAATAACTATTTTATAATTTTATAGTTTATATCG
Found at i:8328593 original size:15 final size:15
Alignment explanation
Indices: 8328573--8328602 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8328563 TTTTAATAAT
8328573 TATTTTATACTTTTA
1 TATTTTATACTTTTA
*
8328588 TATTTTATATTTTTA
1 TATTTTATACTTTTA
8328603 AATTATTTTA
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTATACTTTTA
Found at i:8329200 original size:23 final size:22
Alignment explanation
Indices: 8329165--8329207 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8329155 GACATGAGCG
8329165 AATTAGAGCTGAAACAAAAAAAC
1 AATTAGAGCTG-AACAAAAAAAC
* *
8329188 AATTGGAGTTGAACAAAAAA
1 AATTAGAGCTGAACAAAAAA
8329208 GGCCTACTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.16
Consensus pattern (22 bp):
AATTAGAGCTGAACAAAAAAAC
Found at i:8338292 original size:22 final size:22
Alignment explanation
Indices: 8338267--8338308 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8338257 AGTCAGGGCC
*
8338267 AAATTGATAAAAAAAATTATAA
1 AAATTAATAAAAAAAATTATAA
**
8338289 AAATTAATAACTAAAATTAT
1 AAATTAATAAAAAAAATTAT
8338309 TATTATATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATTAATAAAAAAAATTATAA
Found at i:8347495 original size:122 final size:122
Alignment explanation
Indices: 8347354--8347602 Score: 399
Period size: 122 Copynumber: 2.0 Consensus size: 122
8347344 AAAAAATACA
* * *
8347354 AAAAAAAACTAACACAAATATTAGTAGTCATATATTAGATACTCTAGACTACAGTGATATTTCAG
1 AAAAAAAACTAACAAAAATATTAGTAGTCATATATTAGATACTCTAGACCACAGTGATATCTCAG
* *
8347419 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTTTGCATATT
66 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTCTACATATT
* * *
8347476 AAAAAAAACTAACAAAAATATTATTAGTCATATATTAGATACTCTAGACCATAGTGGTATCTCAG
1 AAAAAAAACTAACAAAAATATTAGTAGTCATATATTAGATACTCTAGACCACAGTGATATCTCAG
* *
8347541 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAATAGTACTGCCTTCTACATATT
66 TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTCTACATATT
*
8347598 CAAAA
1 AAAAA
8347603 GCAAAACACA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (122 bp):
AAAAAAAACTAACAAAAATATTAGTAGTCATATATTAGATACTCTAGACCACAGTGATATCTCAG
TTCCTGGAAGTAGTGAAACTTACCTGTACCTAGCAACAGTACTACCTTCTACATATT
Found at i:8350059 original size:22 final size:22
Alignment explanation
Indices: 8350033--8350078 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8350023 GTGTTGGATT
*
8350033 TATAATATGGATAAATTGCAAC
1 TATAATATGGAGAAATTGCAAC
8350055 TATAATATGGAGAAATTGCAAC
1 TATAATATGGAGAAATTGCAAC
8350077 TA
1 TA
8350079 ACTTGAGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (22 bp):
TATAATATGGAGAAATTGCAAC
Found at i:8353106 original size:13 final size:14
Alignment explanation
Indices: 8353090--8353125 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8353080 CAATCTCATA
8353090 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
8353103 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
8353116 TCTC-ATTTCA
1 TCTCAATTTCA
8353126 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:8353115 original size:18 final size:19
Alignment explanation
Indices: 8353077--8353117 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
8353067 TGGTTCATGT
8353077 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
8353096 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
8353114 TTTC
1 TTTC
8353118 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:8353307 original size:21 final size:21
Alignment explanation
Indices: 8353281--8353365 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
8353271 TGATCAGTAT
*
8353281 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
8353302 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
8353323 ACGACACACGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
8353345 TACGACACATAAAGTGCCTAA
1 -ACGACACACAAAGTGCCTAA
8353366 TCGGTAAAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 34 0.65
22 3 0.06
23 15 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:8353331 original size:23 final size:22
Alignment explanation
Indices: 8353279--8353353 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
8353269 CCTGATCAGT
** *
8353279 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
8353300 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
8353321 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTG-A
8353344 ATACGACACA
1 ATACGACACA
8353354 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.27, G:0.21, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:8354106 original size:39 final size:39
Alignment explanation
Indices: 8354061--8354200 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
8354051 ATCATGATCT
** *
8354061 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
* *
8354100 GCAGCCCGAAGGCTAATTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
8354139 GAAGCCCGGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
8354178 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
8354201 TCATCAGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:8354256 original size:20 final size:20
Alignment explanation
Indices: 8354231--8354282 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
8354221 CCCCAAAAGG
* *
8354231 GTTAACTGAAACTCATATGA
1 GTTAACGGAAACTCATACGA
* *
8354251 GTTAACGGAAGCTCGTACGA
1 GTTAACGGAAACTCATACGA
8354271 GTTAAACGGAAA
1 GTT-AACGGAAA
8354283 GCAAACACGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
GTTAACGGAAACTCATACGA
Found at i:8356146 original size:12 final size:12
Alignment explanation
Indices: 8356129--8356162 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
8356119 AACACTCCAT
8356129 AAATATTTATAA
1 AAATATTTATAA
8356141 AAATATTTATAA
1 AAATATTTATAA
8356153 AAATATTTAT
1 AAATATTTAT
8356163 GGCTCAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:8356689 original size:15 final size:15
Alignment explanation
Indices: 8356664--8356721 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
8356654 TCATATATAT
8356664 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
8356680 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
8356695 AATAATTTCAATCAA
1 TATAAATTCAATCAA
8356710 TATAAATTCAAT
1 TATAAATTCAAT
8356722 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:8356706 original size:30 final size:28
Alignment explanation
Indices: 8356667--8356725 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
8356657 TATATATTAT
8356667 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
8356696 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
8356725 A
1 A
8356726 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:8357269 original size:13 final size:13
Alignment explanation
Indices: 8357251--8357278 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8357241 CCTCTTTTTA
8357251 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
8357264 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
8357277 TT
1 TT
8357279 TATATATATA
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:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:8357325 original size:18 final size:18
Alignment explanation
Indices: 8357304--8357340 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8357294 AATAATAACT
*
8357304 ATAATAAAAATTTATTTA
1 ATAACAAAAATTTATTTA
*
8357322 ATAACAAATATTTATTTA
1 ATAACAAAAATTTATTTA
8357340 A
1 A
8357341 CACATGTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAACAAAAATTTATTTA
Found at i:8357780 original size:30 final size:30
Alignment explanation
Indices: 8357726--8357782 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
8357716 GGGTCGTTAC
8357726 AATTATATAATATTATTATTTAACATATAT
1 AATTATATAATATTATTATTTAACATATAT
8357756 AATTAATATAATATT-TT-TTATAACATA
1 AATT-ATATAATATTATTATT-TAACATA
8357783 AGATATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 2 0.08
30 13 0.52
31 10 0.40
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTATATAATATTATTATTTAACATATAT
Found at i:8374454 original size:12 final size:12
Alignment explanation
Indices: 8374437--8374461 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8374427 CTGACTACCT
8374437 GACTAAATTGTA
1 GACTAAATTGTA
8374449 GACTAAATTGTA
1 GACTAAATTGTA
8374461 G
1 G
8374462 GTATTTTTAT
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:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (12 bp):
GACTAAATTGTA
Found at i:8375747 original size:18 final size:18
Alignment explanation
Indices: 8375724--8375786 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
8375714 AATGACTAAA
8375724 TTGAATAAAGAGAAAAAG
1 TTGAATAAAGAGAAAAAG
* * * *
8375742 TTGAATTATATATTAAAAGAA
1 TTGAA-TAAAGA-GAAAA-AG
8375763 TTGAATAAAGAGAAAAAG
1 TTGAATAAAGAGAAAAAG
8375781 TTGAAT
1 TTGAAT
8375787 TATATATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 12 0.35
19 8 0.24
20 8 0.24
21 6 0.18
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (18 bp):
TTGAATAAAGAGAAAAAG
Found at i:8375765 original size:39 final size:39
Alignment explanation
Indices: 8375722--8375801 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
8375712 AAAATGACTA
8375722 AATTGAATAAAGAGAAAAAGTTGAATTATATATTAAAAG
1 AATTGAATAAAGAGAAAAAGTTGAATTATATATTAAAAG
8375761 AATTGAATAAAGAGAAAAAGTTGAATTATATATTAAAAG
1 AATTGAATAAAGAGAAAAAGTTGAATTATATATTAAAAG
8375800 AA
1 AA
8375802 AATATAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (39 bp):
AATTGAATAAAGAGAAAAAGTTGAATTATATATTAAAAG
Found at i:8375767 original size:21 final size:21
Alignment explanation
Indices: 8375742--8375801 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
8375732 AGAGAAAAAG
8375742 TTGAATTATATATTAAAAGAA
1 TTGAATTATATATTAAAAGAA
* * * *
8375763 TTGAA-TAAAGA-GAAAA-AG
1 TTGAATTATATATTAAAAGAA
8375781 TTGAATTATATATTAAAAGAA
1 TTGAATTATATATTAAAAGAA
8375802 AATATAAATG
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
18 6 0.21
19 8 0.29
20 8 0.29
21 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (21 bp):
TTGAATTATATATTAAAAGAA
Found at i:8375994 original size:19 final size:20
Alignment explanation
Indices: 8375972--8376025 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
8375962 AATTGTAATA
*
8375972 TATTTATTTAATTA-ATTTT
1 TATTTATTTAAATAGATTTT
**
8375991 TATTTAAGTAAATAGATTTT
1 TATTTATTTAAATAGATTTT
*
8376011 TATTATATTAAAATA
1 TATT-TATTTAAATA
8376026 TTAAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 11 0.41
20 9 0.33
21 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TATTTATTTAAATAGATTTT
Found at i:8376805 original size:16 final size:17
Alignment explanation
Indices: 8376784--8376816 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8376774 CTATATGTAC
*
8376784 GGTAAGTAA-ATTATGA
1 GGTAAGCAATATTATGA
8376800 GGTAAGCAATATTATGA
1 GGTAAGCAATATTATGA
8376817 AATTGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.30
Consensus pattern (17 bp):
GGTAAGCAATATTATGA
Found at i:8380235 original size:23 final size:21
Alignment explanation
Indices: 8380168--8380241 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
8380158 CCTGATCAAT
* * *
8380168 ATACGGCACATAA-GTGCCTG
1 ATACGACACACAAGGTGCTTG
* *
8380188 AAACGACACACGAGGTGCTTG
1 ATACGACACACAAGGTGCTTG
8380209 ATACGACACACAAGGTGCTTG
1 ATACGACACACAAGGTGCTTG
8380230 AAATACGACACA
1 --ATACGACACA
8380242 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 9 0.20
21 25 0.57
23 10 0.23
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAGGTGCTTG
Found at i:8380249 original size:23 final size:22
Alignment explanation
Indices: 8380174--8380249 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
8380164 CAATATACGG
*
8380174 CACATAAGTGCCTGAA-ACGACA
1 CACA-AAGTGCTTGAATACGACA
* *
8380196 CACGAGGTGCTTG-ATACGACA
1 CACAAAGTGCTTGAATACGACA
*
8380217 CACAAGGTGCTTGAAATACGACA
1 CACAAAGTGCTTG-AATACGACA
*
8380240 CATAAAGTGC
1 CACAAAGTGC
8380250 CTGATCAGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 25 0.56
22 3 0.07
23 16 0.36
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (22 bp):
CACAAAGTGCTTGAATACGACA
Found at i:8380470 original size:23 final size:24
Alignment explanation
Indices: 8380444--8380538 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
8380434 AAATGTCCAA
8380444 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
8380467 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
8380495 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
8380524 CCAAAACACACCAGA
1 CCAAAACACACCAGA
8380539 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:8380540 original size:29 final size:28
Alignment explanation
Indices: 8380458--8380541 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
8380448 AACACACCAG
* *
8380458 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
8380486 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
8380514 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
8380542 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:8383041 original size:12 final size:12
Alignment explanation
Indices: 8383024--8383069 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
8383014 ATAACACTCC
8383024 ATAAATATTTAT
1 ATAAATATTTAT
8383036 ATAAATA-TT-T
1 ATAAATATTTAT
8383046 ATAAATATTTAT
1 ATAAATATTTAT
*
8383058 AAAAATATTTAT
1 ATAAATATTTAT
8383070 GGCTCGTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 8 0.26
11 4 0.13
12 19 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATATTTAT
Found at i:8383049 original size:22 final size:22
Alignment explanation
Indices: 8383024--8383069 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8383014 ATAACACTCC
*
8383024 ATAAATATTTATATAAATATTT
1 ATAAATATTTATAAAAATATTT
8383046 ATAAATATTTATAAAAATATTT
1 ATAAATATTTATAAAAATATTT
8383068 AT
1 AT
8383070 GGCTCGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATATTTATAAAAATATTT
Found at i:8383050 original size:10 final size:10
Alignment explanation
Indices: 8383024--8383060 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
8383014 ATAACACTCC
8383024 ATAAATATTTAT
1 ATAAATA-TT-T
8383036 ATAAATATTT
1 ATAAATATTT
8383046 ATAAATATTT
1 ATAAATATTT
8383056 ATAAA
1 ATAAA
8383061 AATATTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 16 0.64
11 2 0.08
12 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATAAATATTT
Found at i:8384231 original size:19 final size:21
Alignment explanation
Indices: 8384175--8384236 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
8384165 ATTGGGTAGA
8384175 TCAGCTCTTACGAGCTTTTGT
1 TCAGCTCTTACGAGCTTTTGT
* *
8384196 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTTTGT
8384217 TCAGCT-TT-CGAGCTTTTGT
1 TCAGCTCTTACGAGCTTTTGT
8384236 T
1 T
8384237 GGTGTATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.27
20 2 0.05
21 25 0.68
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTTTGT
Found at i:8386779 original size:21 final size:21
Alignment explanation
Indices: 8386737--8386779 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
8386727 TGTTTATGTC
*
8386737 TTTTATCAATTTAATTTTTAT
1 TTTTATCAATTTAATTTATAT
*
8386758 TTTTAT-AGTTTAATTTGATAT
1 TTTTATCAATTTAATTT-ATAT
8386779 T
1 T
8386780 AAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTTATCAATTTAATTTATAT
Found at i:8387462 original size:26 final size:26
Alignment explanation
Indices: 8387410--8387462 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8387400 TTTGCATGTG
* *
8387410 AATAATTGTATTAATTTTTGTAAAAA
1 AATAATTGTATTAATATTTATAAAAA
*
8387436 AATAATTGTATTAATAATTTATGAAAA
1 AATAATTGTATTAAT-ATTTATAAAAA
8387463 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (26 bp):
AATAATTGTATTAATATTTATAAAAA
Found at i:8387479 original size:17 final size:18
Alignment explanation
Indices: 8387459--8387496 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8387449 ATAATTTATG
*
8387459 AAAA-TTAAATTAAATTA
1 AAAATTTAAATAAAATTA
*
8387476 AAAATTTATATAAAATTA
1 AAAATTTAAATAAAATTA
8387494 AAA
1 AAA
8387497 TTTTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATTTAAATAAAATTA
Found at i:8387504 original size:19 final size:18
Alignment explanation
Indices: 8387470--8387512 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
8387460 AAATTAAATT
*
8387470 AAATTAAAAATTTATATA
1 AAATTAAAAATTTATAAA
*
8387488 AAATTAAAATTTTTATAAA
1 AAATTAAAA-ATTTATAAA
8387507 AAATTA
1 AAATTA
8387513 TATATTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTAAAAATTTATAAA
Found at i:8387508 original size:18 final size:18
Alignment explanation
Indices: 8387470--8387507 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
8387460 AAATTAAATT
8387470 AAATTAAAAATTTATATA
1 AAATTAAAAATTTATATA
*
8387488 AAATT-AAAATTTTTATA
1 AAATTAAAAATTTATATA
8387505 AAA
1 AAA
8387508 AATTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTAAAAATTTATATA
Found at i:8387528 original size:31 final size:30
Alignment explanation
Indices: 8387475--8387539 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
8387465 AAATTAAATT
** *
8387475 AAAAATTTATATAAAATTAAAATTTTTATA
1 AAAAATTTATATAAAACCAAAATTGTTATA
* *
8387505 AAAAATTATATATTAAACCAAAATTGTTATG
1 AAAAATT-TATATAAAACCAAAATTGTTATA
8387536 AAAA
1 AAAA
8387540 TTTGAGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAATTTATATAAAACCAAAATTGTTATA
Found at i:8393118 original size:14 final size:14
Alignment explanation
Indices: 8393099--8393131 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
8393089 TTTGTAGAGT
8393099 AATTTTTAGATTAA
1 AATTTTTAGATTAA
*
8393113 AATTTTTAGATTCA
1 AATTTTTAGATTAA
8393127 AATTT
1 AATTT
8393132 AAAAATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (14 bp):
AATTTTTAGATTAA
Found at i:8395300 original size:59 final size:59
Alignment explanation
Indices: 8395165--8395315 Score: 159
Period size: 60 Copynumber: 2.6 Consensus size: 59
8395155 CAGTGTTAAC
* *
8395165 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGTCTCTTACAGTAACAGAGTATAT
1 TGGGCCTT-GCCCATATCAATATCAATCTGGGCCATAGTCCCTTACAGT-ACAGAGTATAT
* * * *
8395226 TGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAG-CCCTATACAAGT-C-GAGATATAT
1 TGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGTCCCT-TAC-AGTACAGAG-TATAT
*
8395285 TGGGCCTTGCCCATATCAACA-CAAT-TGGGCC
1 TGGGCCTTGCCCATATCAATATCAATCTGGGCC
8395316 CATTTCAATA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
57 6 0.08
58 7 0.09
59 26 0.34
60 28 0.36
61 10 0.13
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (59 bp):
TGGGCCTTGCCCATATCAATATCAATCTGGGCCATAGTCCCTTACAGTACAGAGTATAT
Found at i:8396632 original size:18 final size:18
Alignment explanation
Indices: 8396602--8396657 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
8396592 GAAAATCGGC
8396602 AAGAGGAGAAAGAAAAGAG
1 AAGAGG-GAAAGAAAAGAG
* *
8396621 AAGAGGGAAAGAGATGAG
1 AAGAGGGAAAGAAAAGAG
* *
8396639 -AGAAGGAAAGAAAATAG
1 AAGAGGGAAAGAAAAGAG
8396656 AA
1 AA
8396658 AATAAAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 13 0.43
18 11 0.37
19 6 0.20
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.04
Consensus pattern (18 bp):
AAGAGGGAAAGAAAAGAG
Found at i:8399670 original size:53 final size:53
Alignment explanation
Indices: 8399589--8399739 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
8399579 CTTACATGGT
* *
8399589 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
8399644 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
8399697 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
8399740 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:8402833 original size:29 final size:30
Alignment explanation
Indices: 8402796--8402852 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8402786 TCCGAGCCTT
*
8402796 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
8402825 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
8402853 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:8403082 original size:13 final size:13
Alignment explanation
Indices: 8403064--8403095 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8403054 TTTCCAGCAA
8403064 TTATGAATTTATT
1 TTATGAATTTATT
8403077 TTATGAATTTATT
1 TTATGAATTTATT
*
8403090 TGATGA
1 TTATGA
8403096 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:8403303 original size:50 final size:50
Alignment explanation
Indices: 8403190--8403421 Score: 198
Period size: 56 Copynumber: 4.7 Consensus size: 50
8403180 ATTTGGGTAA
* * *
8403190 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
8403246 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
8403296 AGAGGTCCCATGTAAGACCATGTC-----C---G--TTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
8403336 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
** * *
8403386 AGAACATCCCATGTAAGGCTATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
8403422 TTTGGCATGT
Statistics
Matches: 146, Mismatches: 18, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
40 34 0.23
42 1 0.01
45 2 0.01
48 1 0.01
49 1 0.01
50 35 0.24
51 27 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.27
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:8403328 original size:40 final size:40
Alignment explanation
Indices: 8403284--8403359 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
8403274 ACATGGCATG
*
8403284 GGCACCGAGACGAGAGGTCCCATGTAAGACCATGTCCGTT
1 GGCACCGAGACGAGAGGTCCCATATAAGACCATGTCCGTT
* *
8403324 GGCACCGAGATGAGAGGTCCCCTATAAGACCATGTC
1 GGCACCGAGACGAGAGGTCCCATATAAGACCATGTC
8403360 TGGGACATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (40 bp):
GGCACCGAGACGAGAGGTCCCATATAAGACCATGTCCGTT
Found at i:8405545 original size:50 final size:50
Alignment explanation
Indices: 8405421--8405669 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
8405411 GATAATAACA
* * ** * *
8405421 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
8405472 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8405522 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8405572 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
8405627 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8405670 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8405599 original size:100 final size:104
Alignment explanation
Indices: 8405420--8405669 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
8405410 TGATAATAAC
**
8405420 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
8405485 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
8405522 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
8405585 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
8405627 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8405670 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8405785 original size:13 final size:13
Alignment explanation
Indices: 8405764--8405795 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8405754 GCTTGGATCA
*
8405764 TCATCAAATAAAT
1 TCATAAAATAAAT
8405777 TCATAAAATAAAT
1 TCATAAAATAAAT
8405790 TCATAA
1 TCATAA
8405796 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8406042 original size:30 final size:30
Alignment explanation
Indices: 8406007--8406064 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8405997 CCTCGACTCT
*
8406007 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8406037 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8406065 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8413124 original size:50 final size:49
Alignment explanation
Indices: 8413000--8413190 Score: 242
Period size: 50 Copynumber: 3.8 Consensus size: 49
8412990 GATAATAACA
* ** *
8413000 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGA-CCTCTCGT-CTCGG
* * *
8413051 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCGTCTCGG
*
8413101 TGCCAACGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCGTCTCGG
*
8413150 TGCC-ATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCT
8413191 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
48 26 0.21
49 29 0.23
50 36 0.29
51 33 0.27
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGACCTCTCGTCTCGG
Found at i:8413306 original size:13 final size:13
Alignment explanation
Indices: 8413285--8413316 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8413275 GCTTGGATCA
*
8413285 TCATCAAATAAAT
1 TCATAAAATAAAT
8413298 TCATAAAATAAAT
1 TCATAAAATAAAT
8413311 TCATAA
1 TCATAA
8413317 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8413563 original size:30 final size:30
Alignment explanation
Indices: 8413528--8413585 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8413518 CCTCGACTCT
*
8413528 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8413558 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8413586 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8420700 original size:50 final size:51
Alignment explanation
Indices: 8420533--8420769 Score: 267
Period size: 47 Copynumber: 4.7 Consensus size: 51
8420523 ACATGCCAAA
*
8420533 GCCATGTCCCAGACATGGTCTTACATGGGA--TGT--TCTCGTGATTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG-GA-TGCCCAT
* * *
8420582 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG-TG-CCA-
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGATGCCCAT
*
8420630 -ACATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG-TGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGATGCCCAT
* * *
8420679 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGGATGCCCAT
*
8420735 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8420770 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
47 40 0.25
48 3 0.02
49 31 0.19
50 35 0.22
51 2 0.01
52 2 0.01
53 7 0.04
54 1 0.01
55 2 0.01
56 39 0.24
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGATGCCCAT
Found at i:8420700 original size:97 final size:101
Alignment explanation
Indices: 8420525--8420770 Score: 310
Period size: 97 Copynumber: 2.4 Consensus size: 101
8420515 TGATAATAAC
*
8420525 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTCTCGTGATTGCCCATGCCATGT
1 ATGCC-AA-CCATGTCCCAGACATGGTCTTACATGGGACTCTTCTCGTGA-TGCCCATGCCATGT
* *
8420589 CCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
63 CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
8420625 -TGCCAA-CATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCG-G-TGCCCATGCCATGT
1 ATGCCAACCATGTCCCAGACATGGTCTTACATGGGA-CTCT--TCTCGTGATGCCCATGCCATGT
8420686 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
63 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
8420727 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 ATGCCAA--CCATGTCCCAGACATGGTCTTACATGGGA-CTCTT
8420771 TACCCAAATG
Statistics
Matches: 129, Mismatches: 4, Indels: 22
0.83 0.03 0.14
Matches are distributed among these distances:
96 28 0.22
97 42 0.33
98 4 0.03
99 5 0.04
100 8 0.06
101 1 0.01
102 2 0.02
103 6 0.05
104 1 0.01
106 32 0.25
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (101 bp):
ATGCCAACCATGTCCCAGACATGGTCTTACATGGGACTCTTCTCGTGATGCCCATGCCATGTCCC
AGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:8420885 original size:13 final size:13
Alignment explanation
Indices: 8420864--8420895 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8420854 GCTTGGATCA
*
8420864 TCATCAAATAAAT
1 TCATAAAATAAAT
8420877 TCATAAAATAAAT
1 TCATAAAATAAAT
8420890 TCATAA
1 TCATAA
8420896 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8421142 original size:30 final size:30
Alignment explanation
Indices: 8421107--8421164 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8421097 CCTCGACTCT
*
8421107 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
8421137 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
8421165 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:8426247 original size:39 final size:39
Alignment explanation
Indices: 8426189--8426451 Score: 445
Period size: 39 Copynumber: 6.7 Consensus size: 39
8426179 TTCCAACACA
* *
8426189 AATGCCTTCGGGTCTTAGCCCGGATATAGCACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
8426228 AATACCTTCGGGACTTAGCCCGAATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
8426267 AATACCTTCGGGACTTAGCCCGGATATGACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
8426306 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
8426345 AATGCCTTCGAGACTTAGCCCGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
8426384 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
8426423 AATGCCTTTGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
8426452 ATCACACACA
Statistics
Matches: 211, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:8435580 original size:14 final size:14
Alignment explanation
Indices: 8435561--8435587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8435551 ATACTTTATT
8435561 TATATACACATATA
1 TATATACACATATA
8435575 TATATACACATAT
1 TATATACACATAT
8435588 GGATGTCACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (14 bp):
TATATACACATATA
Found at i:8438441 original size:5 final size:5
Alignment explanation
Indices: 8438420--8438472 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
8438410 TGTTAAAATA
* *
8438420 TATAT TAAAT TATTAT TATAT TATAG TATAT TATATT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATA-T -TATAT TATAT
8438468 TATAT
1 TATAT
8438473 AAATAAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.76
6 6 0.15
7 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:8438451 original size:10 final size:9
Alignment explanation
Indices: 8438417--8438473 Score: 59
Period size: 8 Copynumber: 6.6 Consensus size: 9
8438407 ATGTGTTAAA
8438417 ATATATATT
1 ATATATATT
*
8438426 AAAT-TATT
1 ATATATATT
8438434 AT-TATATT
1 ATATATATT
8438442 ATAGTATATT
1 ATA-TATATT
8438452 ATAT-TA-T
1 ATATATATT
8438459 ATATTATATT
1 ATA-TATATT
8438469 ATATA
1 ATATA
8438474 AATAAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.35
9 8 0.20
10 13 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:8438463 original size:12 final size:12
Alignment explanation
Indices: 8438418--8438473 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
8438408 TGTGTTAAAA
*
8438418 TATATATTAAAT
1 TATATATTATAT
8438430 TAT-TATTATATT
1 TATATATTATA-T
8438442 ATAGTATATTATAT
1 -TA-TATATTATAT
8438456 TATATATTATAT
1 TATATATTATAT
8438468 TATATA
1 TATATA
8438474 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Done.