Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 19 of 52
Found at i:2937417 original size:129 final size:129
Alignment explanation
Indices: 2937118--2937550 Score: 525
Period size: 129 Copynumber: 3.3 Consensus size: 129
2937108 TACAATAGGA
* * * ** *
2937118 GATACTCTAACTCTGTTATTTCCAAGGAGATACTCCAACCTTGGTTTTATTTCTAAAACATCAA-
1 GATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAAT
* * * * * * *
2937182 TTTTCAGCAATCGGAGATACTTTAACTC-CAGTTTTATTTCCAAAACATCGATTTTCCACCAT-T
66 TTTTCA-CAATCGGGGATACTCTAACTCTGA-TTTTATTT-CAAAATATCAATTTTCCATCATCG
2937245 AGG
128 A-G
*
2937248 GATACTCTAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAAT
1 GATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAAT
* * * *
2937313 TTTTCATAATCGGGGATACTCCAACTCTGATTTTACTTCTAAATATCAATTTTCCATCATCGAG
66 TTTTCACAATCGGGGATACTCTAACTCTGATTTTATTTCAAAATATCAATTTTCCATCATCGAG
* *
2937377 GATACTCTAACCTCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAAT
1 GATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAAT
** *
2937442 TTTTCACAATCGGGGATACTCTAACT-TCGATTTTATTTTCAAAATATCAATTTTTTTATAATCG
66 TTTTCACAATCGGGGATACTCTAACTCT-GATTTTA-TTTCAAAATATCAA-TTTTCCATCATCG
2937506 AG
128 AG
* * *
2937508 GATACTCCAACCCCATTATTT-CATCGGGGATACTCCAACCCCG
1 GATACTCTAACCCCGTTATTTCCA-AGGGGATACTCCAACCCCG
2937551 TTATTTTTAA
Statistics
Matches: 264, Mismatches: 32, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
128 1 0.00
129 112 0.42
130 96 0.36
131 55 0.21
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.36
Consensus pattern (129 bp):
GATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAAT
TTTTCACAATCGGGGATACTCTAACTCTGATTTTATTTCAAAATATCAATTTTCCATCATCGAG
Found at i:2937478 original size:51 final size:52
Alignment explanation
Indices: 2937402--2937521 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 52
2937392 TTATTTCCAA
*
2937402 GGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAA-TTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTTCACAATC
* ** * * *
2937453 GGGGATACTCTAACTTCGATTTTATTTTCAAAATATCAATTTTTTTATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTTCACAATC
*
2937505 GAGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2937522 ATTATTTCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 34 0.60
52 23 0.40
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTTCACAATC
Found at i:2937538 original size:28 final size:28
Alignment explanation
Indices: 2937502--2937556 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
2937492 TTTTTTTATA
2937502 ATCGAGGATACTCCAACCCCATTATTTC
1 ATCGAGGATACTCCAACCCCATTATTTC
* *
2937530 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGAGGATACTCCAACCCCATTATTT
2937557 TTAAGGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCATTATTTC
Found at i:2937715 original size:79 final size:79
Alignment explanation
Indices: 2937632--2937830 Score: 215
Period size: 79 Copynumber: 2.5 Consensus size: 79
2937622 ACCCCGGCCT
* * *
2937632 TATTTCTAAATCA-TCGATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTTTAAAGGAATA
1 TATTTCTAAATCACT-GATTTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTAAAGGAATA
*
2937696 CTCCAACCCCGATTG
65 CTCCAACCCCAATTG
* * * ** * * * *
2937711 TATTTTCAAAAT-ACTAATTGTCTATAATTAGGGATACTCCAACCCTGTTATTTCTGAGGGGATA
1 TA-TTTCTAAATCACTGATTTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTAAAGGAATA
*
2937775 CTCCAACCCCAATTT
65 CTCCAACCCCAATTG
*
2937790 TATTTCTAGAA-CACTGATTTTCCATAATCGGGGATACTCCA
1 TATTTCTA-AATCACTGATTTTCTATAATCGGGGATACTCCA
2937831 GCCCTGTTGT
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
78 5 0.05
79 82 0.85
80 9 0.09
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
TATTTCTAAATCACTGATTTTCTATAATCGGGGATACTCCAACCCCGTTATTTCTAAAGGAATAC
TCCAACCCCAATTG
Found at i:2939502 original size:22 final size:22
Alignment explanation
Indices: 2939476--2939540 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
2939466 GTTGCTATCA
2939476 TGCTCATGGAGTTACTGCTAGT
1 TGCTCATGGAGTTACTGCTAGT
* * * *
2939498 TGCTCATGGAATTGCTGTTGGT
1 TGCTCATGGAGTTACTGCTAGT
* *
2939520 TGCTCGTGGAAGCTACTGCTA
1 TGCTCATGG-AGTTACTGCTA
2939541 TCGTGGAAGC
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.35
Consensus pattern (22 bp):
TGCTCATGGAGTTACTGCTAGT
Found at i:2940104 original size:15 final size:15
Alignment explanation
Indices: 2940084--2940130 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
2940074 ATACAATTTT
2940084 TTGTGTATCGATACA
1 TTGTGTATCGATACA
*
2940099 TTGTGTCGATAC-ATACT
1 TTGTGT--AT-CGATACA
2940116 TTGTGTATCGATACA
1 TTGTGTATCGATACA
2940131 AGTTTGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 1 0.04
15 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (15 bp):
TTGTGTATCGATACA
Found at i:2940442 original size:22 final size:22
Alignment explanation
Indices: 2940417--2940462 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2940407 TTAATTGAAT
2940417 AAAACATATTTTTGGTATT-TTC
1 AAAACA-ATTTTTGGTATTATTC
* *
2940439 AAAATAATTTTTGGTTTTATTC
1 AAAACAATTTTTGGTATTATTC
2940461 AA
1 AA
2940463 TCCTTTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.50
Consensus pattern (22 bp):
AAAACAATTTTTGGTATTATTC
Found at i:2940821 original size:39 final size:39
Alignment explanation
Indices: 2940746--2940837 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 39
2940736 TTTTCTTTCT
*
2940746 CCCTTAATTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAATTAAAATAATTTTAACAAATTCG-ACATTCTCC
*
2940786 CCCTTAA-TAAAATAATTTTAGCAAATTTACG-CATTCTCC
1 CCCTTAATTAAAATAATTTTAACAAA-TT-CGACATTCTCC
* *
2940825 CCTTTTATTAAAA
1 CCCTTAATTAAAA
2940838 AAATCTCCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 29 0.64
40 14 0.31
41 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (39 bp):
CCCTTAATTAAAATAATTTTAACAAATTCGACATTCTCC
Found at i:2948878 original size:13 final size:13
Alignment explanation
Indices: 2948860--2948885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2948850 CAATTTTTTG
2948860 TGTATCGATACAT
1 TGTATCGATACAT
2948873 TGTATCGATACAT
1 TGTATCGATACAT
2948886 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2948896 original size:32 final size:33
Alignment explanation
Indices: 2948840--2948903 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2948830 TACAAGCCAA
*
2948840 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
2948873 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
2948904 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:2948897 original size:19 final size:19
Alignment explanation
Indices: 2948840--2948903 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
2948830 TACAAGCCAA
*
2948840 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
2948860 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
2948873 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
2948892 TGTATCGATACA
1 TGTATCGATACA
2948904 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:2951769 original size:13 final size:13
Alignment explanation
Indices: 2951734--2951775 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2951724 GATACTATTC
2951734 ATAATGTATCGAT
1 ATAATGTATCGAT
* *
2951747 ACACTGTATCGAT
1 ATAATGTATCGAT
*
2951760 ATAATATATCGAT
1 ATAATGTATCGAT
2951773 ATA
1 ATA
2951776 TGAACAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (13 bp):
ATAATGTATCGAT
Found at i:2951824 original size:17 final size:17
Alignment explanation
Indices: 2951802--2951836 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2951792 GTGATATGTA
*
2951802 AACAGTTATAAATAGTG
1 AACAGTGATAAATAGTG
2951819 AACAGTGATAAATAGTG
1 AACAGTGATAAATAGTG
2951836 A
1 A
2951837 TGTATCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (17 bp):
AACAGTGATAAATAGTG
Found at i:2951889 original size:10 final size:10
Alignment explanation
Indices: 2951874--2951907 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2951864 ATACATAAAC
2951874 AGTGATGAAT
1 AGTGATGAAT
*
2951884 AGTGATCAAT
1 AGTGATGAAT
*
2951894 AGTGATGAAC
1 AGTGATGAAT
2951904 AGTG
1 AGTG
2951908 GAAATGAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.29, T:0.26
Consensus pattern (10 bp):
AGTGATGAAT
Found at i:2951953 original size:13 final size:13
Alignment explanation
Indices: 2951935--2951959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2951925 CTGCAAGTTT
2951935 ATGTATCGATACA
1 ATGTATCGATACA
2951948 ATGTATCGATAC
1 ATGTATCGATAC
2951960 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2954156 original size:15 final size:16
Alignment explanation
Indices: 2954123--2954160 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2954113 AAATAATATT
*
2954123 AAAAAATAAATTATCA
1 AAAAAATAAAGTATCA
*
2954139 AAAAAATAAAGTCT-A
1 AAAAAATAAAGTATCA
2954154 AAAAAAT
1 AAAAAAT
2954161 TACTACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAAATAAAGTATCA
Found at i:2955236 original size:3 final size:3
Alignment explanation
Indices: 2955228--2955257 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2955218 ATTACTAAAA
2955228 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2955258 ATTTAAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2956176 original size:18 final size:18
Alignment explanation
Indices: 2956138--2956177 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2956128 ATGATAAGTA
** *
2956138 ATTTTTAAATTTTCTTTT
1 ATTTTTAAATTTAATTAT
2956156 ATTTTTAAATTTAATTAT
1 ATTTTTAAATTTAATTAT
2956174 ATTT
1 ATTT
2956178 GATGATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTAAATTTAATTAT
Found at i:2957489 original size:20 final size:22
Alignment explanation
Indices: 2957435--2957489 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
2957425 ATAAATGTAA
* *
2957435 AATTATTAATATATATAATATT
1 AATTATAAATATATATAAAATT
* *
2957457 AATTATGATTATATA-AAAATT
1 AATTATAAATATATATAAAATT
2957478 AA-TATAAATATA
1 AATTATAAATATA
2957490 AAATATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 8 0.29
21 7 0.25
22 13 0.46
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTATAAATATATATAAAATT
Found at i:2957516 original size:11 final size:11
Alignment explanation
Indices: 2957477--2957553 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
2957467 ATATAAAAAT
*
2957477 TAATATAAATA
1 TAATATAATTA
* *
2957488 TAAAAT-ATTT
1 TAATATAATTA
2957498 TAAATATAATTA
1 T-AATATAATTA
2957510 TAATATAA-TA
1 TAATATAATTA
*
2957520 AAATATATACTTA
1 TAATATA-A-TTA
*
2957533 TAATATAAATA
1 TAATATAATTA
2957544 T-AT-TAATTA
1 TAATATAATTA
2957553 T
1 T
2957554 TTAATTTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
9 6 0.12
10 13 0.25
11 20 0.38
12 5 0.10
13 8 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (11 bp):
TAATATAATTA
Found at i:2957521 original size:20 final size:20
Alignment explanation
Indices: 2957498--2957553 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 20
2957488 TAAAATATTT
2957498 TAAATATAATTATAATATAA
1 TAAATATAATTATAATATAA
2957518 TAAAATATATACTTATAATATAA
1 T-AAATATA-A-TTATAATATAA
*
2957541 -ATATATTAATTAT
1 TAAATA-TAATTAT
2957554 TTAATTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 5 0.16
21 12 0.39
22 3 0.10
23 11 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATATAATTATAATATAA
Found at i:2957902 original size:2 final size:2
Alignment explanation
Indices: 2957897--2957925 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2957887 TTTTTGAATG
2957897 AT AT 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 AT AT A
2957926 ACATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2958250 original size:16 final size:17
Alignment explanation
Indices: 2958223--2958256 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2958213 ATTTACTTAT
2958223 TATTTAAAATATTTTTA
1 TATTTAAAATATTTTTA
2958240 TATTT-AAATATTTTTA
1 TATTTAAAATATTTTTA
2958256 T
1 T
2958257 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTAAAATATTTTTA
Found at i:2958532 original size:20 final size:20
Alignment explanation
Indices: 2958492--2958529 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2958482 TAATTATTAT
2958492 TTATAAATATACATTTTAAA
1 TTATAAATATACATTTTAAA
2958512 TTATAAATA-A-ATTTTAAA
1 TTATAAATATACATTTTAAA
2958530 AATAAGCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTATAAATATACATTTTAAA
Found at i:2958885 original size:10 final size:10
Alignment explanation
Indices: 2958852--2958885 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
2958842 TAATATATAT
2958852 ATTTAAAAT-
1 ATTTAAAATA
2958861 ATTTAAAATTA
1 ATTTAAAA-TA
2958872 ATTTAAAATA
1 ATTTAAAATA
2958882 ATTT
1 ATTT
2958886 TTTATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 7 0.30
11 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTAAAATA
Found at i:2958941 original size:21 final size:22
Alignment explanation
Indices: 2958917--2958957 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
2958907 TGTTTTAAAA
2958917 AAATATTTTTATA-TAATATTT
1 AAATATTTTTATATTAATATTT
2958938 AAATATTTTTATATTAATAT
1 AAATATTTTTATATTAATAT
2958958 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATTTTTATATTAATATTT
Found at i:2958979 original size:22 final size:23
Alignment explanation
Indices: 2958911--2958988 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 23
2958901 TATTTATGTT
*
2958911 TTAAAAAAATATTTTTATATAATA
1 TTAAAAAAATATTTATAT-TAATA
* * *
2958935 TT-TAAATATTTTTATATTAATA
1 TTAAAAAAATATTTATATTAATA
* *
2958957 -TAAAAAAATATTTATTTTTATA
1 TTAAAAAAATATTTATATTAATA
*
2958979 TTATAAAAAT
1 TTAAAAAAAT
2958989 TTAAAAATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
21 1 0.02
22 20 0.48
23 19 0.45
24 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAAAAAAATATTTATATTAATA
Found at i:2959077 original size:42 final size:39
Alignment explanation
Indices: 2959003--2959109 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 39
2958993 AAATTTTAAA
* * *
2959003 AAAATTTAATTAAATT-TATATAATTATAATTTTTAAT-TT
1 AAAATTAAATTAAATTAAATA-AAATAT-ATTTTTAATATT
2959042 ATAAATTAAAAATTATAATTAAATAAAATATATTTTTAATATT
1 A-AAATT--AAATTA-AATTAAATAAAATATATTTTTAATATT
*
2959085 AAAATTAAATTAAATTAAATTAAAT
1 AAAATTAAATTAAATTAAATAAAAT
2959110 TAAATTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
39 13 0.22
40 11 0.19
42 19 0.33
43 12 0.21
44 3 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (39 bp):
AAAATTAAATTAAATTAAATAAAATATATTTTTAATATT
Found at i:2959096 original size:5 final size:5
Alignment explanation
Indices: 2959086--2959186 Score: 107
Period size: 5 Copynumber: 19.8 Consensus size: 5
2959076 TTTAATATTA
*
2959086 AAATT AAATT AAATT AAATT AAATT AAATTT AAA-T CAATT -AATT AAATTT
1 AAATT AAATT AAATT AAATT AAATT AAA-TT AAATT AAATT AAATT AAA-TT
* * * *
2959136 AAATC AAATT TAATT AAATTT AAATT AAATTT AAATC AAATT TAATT AAAT
1 AAATT AAATT AAATT AAA-TT AAATT AAA-TT AAATT AAATT AAATT AAAT
2959187 ATTATAATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
4 7 0.09
5 54 0.67
6 20 0.25
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (5 bp):
AAATT
Found at i:2959746 original size:2 final size:2
Alignment explanation
Indices: 2959733--2959770 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2959723 CGAAAGAGTC
*
2959733 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2959771 AAGAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2960289 original size:12 final size:12
Alignment explanation
Indices: 2960274--2960315 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
2960264 GGAAAGGGAA
2960274 AGAGAACGTGAT
1 AGAGAACGTGAT
*
2960286 AGAGAGCGTGAT
1 AGAGAACGTGAT
*
2960298 AGAGAACGCGAT
1 AGAGAACGTGAT
2960310 AGAGAA
1 AGAGAA
2960316 AGAGAACGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.36, T:0.12
Consensus pattern (12 bp):
AGAGAACGTGAT
Found at i:2966039 original size:17 final size:18
Alignment explanation
Indices: 2966017--2966051 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
2966007 ATACAGGGAA
2966017 AAAGAAAA-AGATTTAGC
1 AAAGAAAACAGATTTAGC
2966034 AAAGAAAACGAGATTTAG
1 AAAGAAAAC-AGATTTAG
2966052 TTAGATTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAGAAAACAGATTTAGC
Found at i:2967936 original size:20 final size:20
Alignment explanation
Indices: 2967897--2967937 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2967887 AATTATTATA
*
2967897 TTATATTTATAATATTATTT
1 TTATATTTATAATATAATTT
2967917 TTATATTTATTAA-ATAATTT
1 TTATATTTA-TAATATAATTT
2967937 T
1 T
2967938 CATTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATATTTATAATATAATTT
Found at i:2967984 original size:2 final size:2
Alignment explanation
Indices: 2967977--2968027 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2967967 CATTTAGGGG
2967977 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
2968019 GA GA GA GA G
1 GA GA GA GA G
2968028 GTAGGTGTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2969685 original size:18 final size:18
Alignment explanation
Indices: 2969659--2969700 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2969649 TTATAATAAA
* **
2969659 TTATTTAACAAATTGATT
1 TTATATAACAAATCAATT
2969677 TTATATAACAAATCAATT
1 TTATATAACAAATCAATT
2969695 TTATAT
1 TTATAT
2969701 CTTTTAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (18 bp):
TTATATAACAAATCAATT
Found at i:2976411 original size:21 final size:20
Alignment explanation
Indices: 2976375--2976415 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2976365 AAGGCCATAT
**
2976375 TTATTTATTTTGTTTTGATTA
1 TTATTTATTTAATTTT-ATTA
2976396 TTATTTATTTAATTTTATTA
1 TTATTTATTTAATTTTATTA
2976416 AAAAAACATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TTATTTATTTAATTTTATTA
Found at i:2979002 original size:47 final size:46
Alignment explanation
Indices: 2978914--2979005 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 46
2978904 TTGTCTGGGC
* *
2978914 GAGAACCATCATGTCAAACGAGGTATCAAAGAAGTTTGACCAGGGT
1 GAGAACCATCATGTCAAAAGAGATATCAAAGAAGTTTGACCAGGGT
*
2978960 GAGAACCATCATGTCAAATAGAGATATCAAAGGAGTTTGACCAGGG
1 GAGAACCATCATGTCAAA-AGAGATATCAAAGAAGTTTGACCAGGG
2979006 CGAAAGCCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 18 0.43
47 24 0.57
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (46 bp):
GAGAACCATCATGTCAAAAGAGATATCAAAGAAGTTTGACCAGGGT
Found at i:2979231 original size:242 final size:242
Alignment explanation
Indices: 2978794--2979245 Score: 688
Period size: 242 Copynumber: 1.9 Consensus size: 242
2978784 TAGACATAAT
* * * * *
2978794 TTTGTCCGTTGCTGATAATGAGGAACAGGATAAAGACTAAGTAGACATAATGTTGTTTGGGTTGT
1 TTTGTCCGTTGCTGATAATGAGGAACAGGATAAAGACCAAATAGACACAATGTTGTCTAGGTTGT
* **** *
2978859 ATAGTATTAAAACACAATATGAACATATAAATTATCCAATGCATTTTGTCTGGGCGAGAACCATC
66 ATAGTATTAAAACACAATATGAACATATAAATTATCAAATGCATTTTGTCTAAAAGAAAACCATC
* *
2978924 ATGTCAAACGAGGTATCAAAGAAGTTTGACCAGGGTGAGAACCATCATGTCAAATAGAGATATCA
131 ATGTCAAACGAGGTATCAAAGAAGTTTGACCAGGGCGAGAACCATCACGTCAAATAGAGATATCA
2978989 AAGGAGTTTGACCAGGGCGAAAGCCATTTTGTTTGTGTTTATCCTTG
196 AAGGAGTTTGACCAGGGCGAAAGCCATTTTGTTTGTGTTTATCCTTG
* * * * * *
2979036 TTTGTCTGTTGTTGATAATTAGGAATAGGATAAAGACCAAATAGATACAATTTTGTCTAGGTTGT
1 TTTGTCCGTTGCTGATAATGAGGAACAGGATAAAGACCAAATAGACACAATGTTGTCTAGGTTGT
* * * *
2979101 ATAGTATTAAAACATAATATGAACATATACATTATGAAATGCATTTTGTTTAAAAGAAAACCATC
66 ATAGTATTAAAACACAATATGAACATATAAATTATCAAATGCATTTTGTCTAAAAGAAAACCATC
*
2979166 ATGTCAAACGAGGTATCAAAGAAGTTTGACTAGGGCGAGAACCATCACGTCAAATAGAGATATCA
131 ATGTCAAACGAGGTATCAAAGAAGTTTGACCAGGGCGAGAACCATCACGTCAAATAGAGATATCA
2979231 AAGGAGTTTGACCAG
196 AAGGAGTTTGACCAG
2979246 CGTGAAAACC
Statistics
Matches: 186, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
242 186 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (242 bp):
TTTGTCCGTTGCTGATAATGAGGAACAGGATAAAGACCAAATAGACACAATGTTGTCTAGGTTGT
ATAGTATTAAAACACAATATGAACATATAAATTATCAAATGCATTTTGTCTAAAAGAAAACCATC
ATGTCAAACGAGGTATCAAAGAAGTTTGACCAGGGCGAGAACCATCACGTCAAATAGAGATATCA
AAGGAGTTTGACCAGGGCGAAAGCCATTTTGTTTGTGTTTATCCTTG
Found at i:2979289 original size:46 final size:46
Alignment explanation
Indices: 2979156--2979537 Score: 271
Period size: 46 Copynumber: 8.4 Consensus size: 46
2979146 TTGTTTAAAA
* * * * *
2979156 GAAAACCATCATGTCAAACGAGGTATCAAAGAAGTTTGACTAGGGC
1 GAAAACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGGT
* * * *
2979202 GAGAACCATCACGTCAAATAGAGATATCAAAGGAGTTTGACCAGCGT
1 GAAAACCATCACGTCAAACA-AGATATCAAAGAAGTTTGACCAGGGT
* * *
2979249 GAAAACCATCATGTCAAATAAGGTATCAAAGAAGTTTGACCAGGGT
1 GAAAACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGGT
* * * * *
2979295 -AAGAACCATTACGTCAAATAAAATA-CAAAG-AGCTTAACCAGGGTT
1 GAA-AACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGG-T
* * ** * *
2979340 G--AACCATCACGTCAAACGAGAAAGAAAATG-AGTTTGACCAAGGC
1 GAAAACCATCACGTCAAACAAGATATCAAA-GAAGTTTGACCAGGGT
* * *
2979384 GAAAACCATCACGTCAAACAAGGTAT-AAAG-AGTTTGACTAGAGT
1 GAAAACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGGT
* * * ** *
2979428 -TAAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGC
1 GAAAACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGGT
* * * ** * * *
2979473 AAAAACTATCATGTCAAATGAGGTATCAAA-AGAGTTTGACCAAGGC
1 GAAAACCATCACGTCAAACAAGATATCAAAGA-AGTTTGACCAGGGT
* *
2979519 GAGAATCATCACGTCAAAC
1 GAAAACCATCACGTCAAAC
2979538 GAAAGTAAAA
Statistics
Matches: 263, Mismatches: 61, Indels: 24
0.76 0.18 0.07
Matches are distributed among these distances:
43 37 0.14
44 30 0.11
45 34 0.13
46 123 0.47
47 39 0.15
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (46 bp):
GAAAACCATCACGTCAAACAAGATATCAAAGAAGTTTGACCAGGGT
Found at i:2979489 original size:135 final size:136
Alignment explanation
Indices: 2979157--2979537 Score: 371
Period size: 135 Copynumber: 2.8 Consensus size: 136
2979147 TGTTTAAAAG
* ** * * *
2979157 AAAACCATCATGTCAAACGAGGTATCAAAGAAGTTTGACTAGGGCGAGAACCATCACGTCAAATA
1 AAAACCATCACGTCAAACGAGAAATAAAAGAAGTTTGACCAGGGCAAGAACCATCACGTCAAA-A
* * * * *
2979222 GAGATATCAAAGGAGTTTGACC-AGCGTGAAAACCATCATGTCAAATAAGGTATCAAAGAAGTTT
65 GAGA-AACAAAAGAGTTTGACCAAG-GCGAAAACCATCACGTCAAACAAGGTATCAAAGAAGTTT
*
2979286 GACCAGGGT
128 GACCAGAGT
* * * * **
2979295 AAGAACCATTACGTCAAA-TA-AAATACAAAG-AGCTTAACCAGGG-TTGAACCATCACGTCAAA
1 AA-AACCATCACGTCAAACGAGAAATA-AAAGAAGTTTGACCAGGGCAAGAACCATCACGTCAAA
* *
2979356 CGAGAAAGAAAATGAGTTTGACCAAGGCGAAAACCATCACGTCAAACAAGGTAT-AAAG-AGTTT
64 AGAGAAACAAAA-GAGTTTGACCAAGGCGAAAACCATCACGTCAAACAAGGTATCAAAGAAGTTT
*
2979419 GACTAGAGT
128 GACCAGAGT
* * * * * *
2979428 TAAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACTATCATGTCAAATG
1 AAAACCATCACGTCAAACGAGAAATAAAAGAAGTTTGACCAGGGCAAGAACCATCACGTCAAAAG
* * * *
2979493 AGGTATCAAAAGAGTTTGACCAAGGCGAGAATCATCACGTCAAAC
66 A-GAAACAAAAGAGTTTGACCAAGGCGAAAACCATCACGTCAAAC
2979538 GAAAGTAAAA
Statistics
Matches: 197, Mismatches: 37, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
132 14 0.07
133 18 0.09
134 23 0.12
135 86 0.44
136 24 0.12
137 12 0.06
138 7 0.04
139 13 0.07
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (136 bp):
AAAACCATCACGTCAAACGAGAAATAAAAGAAGTTTGACCAGGGCAAGAACCATCACGTCAAAAG
AGAAACAAAAGAGTTTGACCAAGGCGAAAACCATCACGTCAAACAAGGTATCAAAGAAGTTTGAC
CAGAGT
Found at i:2979497 original size:89 final size:90
Alignment explanation
Indices: 2979158--2979514 Score: 342
Period size: 89 Copynumber: 3.9 Consensus size: 90
2979148 GTTTAAAAGA
* ** ** * * *
2979158 AAACCATCATGTCAAACGAGGTATCAAAGAAGTTTGACTAGGGCGAGAACCATCACGTCAAATAG
1 AAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACCATCACGTCAAATA-
* *
2979223 AGATATCAAAGGAGTTTGACCAGCGTGA
65 AGATATCAAA-GAGTTTGACCAGAGT-T
* ** ** ** * * *
2979251 AAACCATCATGTCAAATAAGGTATCAAAGAAGTTTGACCAGGGTAAGAACCATTACGTCAAATAA
1 AAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACCATCACGTCAAATAA
* * * *
2979316 AATA-CAAAGAGCTTAACCAGGGTT
66 GATATCAAAGAGTTTGACCAGAGTT
* * * *
2979340 GAACCATCACGTCAAACGAGAAAGAAAATG-AGTTTGACCAAGGCGAAAACCATCACGTCAAACA
1 AAACCATCACGTCAAACGAGAAAGAAAA-GAAGTTTGACCAGGGCAAAAACCATCACGTCAAATA
* *
2979404 AGGTAT-AAAGAGTTTGACTAGAGTT
65 AGATATCAAAGAGTTTGACCAGAGTT
* * *
2979429 AAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACTATCATGTCAAATGA
1 AAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACCATCACGTCAAATAA
*
2979494 GGTATCAAAAGAGTTTGACCA
66 GATATC-AAAGAGTTTGACCA
2979515 AGGCGAGAAT
Statistics
Matches: 220, Mismatches: 39, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
88 1 0.00
89 127 0.58
90 13 0.06
91 17 0.08
92 4 0.02
93 58 0.26
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.19
Consensus pattern (90 bp):
AAACCATCACGTCAAACGAGAAAGAAAAGAAGTTTGACCAGGGCAAAAACCATCACGTCAAATAA
GATATCAAAGAGTTTGACCAGAGTT
Found at i:2982705 original size:16 final size:16
Alignment explanation
Indices: 2982665--2982705 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2982655 TTCATGCTTT
2982665 TTTCTT-TTTTTTTTC
1 TTTCTTATTTTTTTTC
*
2982680 TTT-TTCATTTTTTTTG
1 TTTCTT-ATTTTTTTTC
2982696 TTTCTTATTT
1 TTTCTTATTT
2982706 AGAGGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 2 0.09
15 3 0.14
16 15 0.68
17 2 0.09
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (16 bp):
TTTCTTATTTTTTTTC
Found at i:2987338 original size:21 final size:20
Alignment explanation
Indices: 2987314--2987364 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2987304 CATGGTCCTA
2987314 TATCGATACATTTCAAACATG
1 TATCGATACA-TTCAAACATG
***
2987335 TATCGATACATTCACTTATG
1 TATCGATACATTCAAACATG
2987355 TATCGATACA
1 TATCGATACA
2987365 AATTGTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATTCAAACATG
Found at i:2991305 original size:96 final size:97
Alignment explanation
Indices: 2991201--2991412 Score: 268
Period size: 97 Copynumber: 2.2 Consensus size: 97
2991191 TCCCTTAGAG
* *
2991201 GAATAGGGTTGGAGTGTCCCCGACGAA-GACAATTTTAG-AAAAATAAAATTTAAATCTTGACAA
1 GAATAGGGTTGGAGTATCCCCGA-GAATGACAATTTAAGCAAAAATAAAATTTAAATCTTGACAA
* *
2991264 GTTTAAAAATGAGGTTAG-AGTATCCCCTCGGAA
65 GTTTAAAAACGAGGTT-GTAGTATCCCCTCGAAA
* * * **
2991297 GAATAGGGTTGGAGTATCCTCGATAATGACAATTTAAGCAAAAATAAGATTTAAATCTTGATGAG
1 GAATAGGGTTGGAGTATCCCCGAGAATGACAATTTAAGCAAAAATAAAATTTAAATCTTGACAAG
* *
2991362 TTTAAAAACGGGGTTGTAGTATTCCCTCGAAA
66 TTTAAAAACGAGGTTGTAGTATCCCCTCGAAA
* *
2991394 GAATGGGGTTAGAGTATCC
1 GAATAGGGTTGGAGTATCC
2991413 GCATGATTGA
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 2 0.02
96 32 0.32
97 66 0.66
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (97 bp):
GAATAGGGTTGGAGTATCCCCGAGAATGACAATTTAAGCAAAAATAAAATTTAAATCTTGACAAG
TTTAAAAACGAGGTTGTAGTATCCCCTCGAAA
Found at i:2994026 original size:21 final size:21
Alignment explanation
Indices: 2994002--2994056 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
2993992 GACATGGTCT
2994002 TGTATCGATACATTTCAAGCA
1 TGTATCGATACATTTCAAGCA
* ***
2994023 TGTATCAATACA-TTCACTTA
1 TGTATCGATACATTTCAAGCA
2994043 TGTATCGATACATT
1 TGTATCGATACATT
2994057 AACTTATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTCAAGCA
Found at i:2994069 original size:21 final size:20
Alignment explanation
Indices: 2994022--2994075 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2994012 CATTTCAAGC
*
2994022 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTAACTT
*
2994042 ATGTATCGATACATTAACTT
1 ATGTATCAATACATTAACTT
2994062 ATTGTATCAATACA
1 A-TGTATCAATACA
2994076 AATTGTAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (20 bp):
ATGTATCAATACATTAACTT
Found at i:2995725 original size:165 final size:165
Alignment explanation
Indices: 2995554--2996024 Score: 433
Period size: 165 Copynumber: 2.8 Consensus size: 165
2995544 AAAATTTCTG
* * * * *
2995554 AAATATTATCATTTA-ATTCCATCAAATCAGTTTTGAGAAATTCTCTTTAATTTTTG-GAGTTAT
1 AAATATTATCATTTATATTACATCAAATCAGTTTTCA-AAAAT-TCATTAATTTTCGTGAGTTAT
* * *
2995617 TG-ATTTTCTTTC-T-GAA-TTCCTCATATTTTC-AAATTATAGGATTTTCTTCTCCATAAATTT
64 TGAATTTT-TTCCTTAAAATTTCCT--T-TTTTCGAAA-TATAGGATTTTCTACTCCATAAATTT
*
2995677 TTTG-GGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATC
124 TTCGAGG-GGATTTTTCTTAATTTTTAATTTTTAAAATTCATC
* * * * *
2995719 AAATATTATTATTTATTTTACATTAAATCAGTTTTCAAAAATTCATTCATTTTCGTGAGTTTTTG
1 AAATATTATCATTTATATTACATCAAATCAGTTTTCAAAAATTCATTAATTTTCGTGAGTTATTG
* *
2995784 AATTTTTTCCTTAAAATTTCCTTTTTTCGAAATATAGTATTTTCTACTCTATAAATTTTTCGAGG
66 AATTTTTTCCTTAAAATTTCCTTTTTTCGAAATATAGGATTTTCTACTCCATAAATTTTTCGAGG
** * *
2995849 GGATTTTTCTTGGTTTTTAATTTTTAAATTTTATC
131 GGATTTTTCTTAATTTTTAATTTTTAAAATTCATC
* * * ** * * * * *
2995884 AAATTTTATCATTTAT-TTCATATTAAATTGGTTTTCAAAAATTAATTCATTTTCTTAAGTTTTT
1 AAATATTATCATTTATATT-ACATCAAATCAGTTTTCAAAAATTCATTAATTTTCGTGAGTTATT
* * * * * *
2995948 GAA-TTTTTCCTTGAAATTTCTCTTTTTTCGAAATACGATG-TTTTCTAATCCGTAAATTTTTTT
65 GAATTTTTTCCTTAAAATTTC-CTTTTTTCGAAATA-TAGGATTTTCTACTCCATAAA-TTTTTC
2996011 GAGGGGATTTTTCT
127 GAGGGGATTTTTCT
2996025 CGGTTTTCGT
Statistics
Matches: 258, Mismatches: 36, Indels: 23
0.81 0.11 0.07
Matches are distributed among these distances:
164 28 0.11
165 174 0.67
166 49 0.19
167 2 0.01
168 5 0.02
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (165 bp):
AAATATTATCATTTATATTACATCAAATCAGTTTTCAAAAATTCATTAATTTTCGTGAGTTATTG
AATTTTTTCCTTAAAATTTCCTTTTTTCGAAATATAGGATTTTCTACTCCATAAATTTTTCGAGG
GGATTTTTCTTAATTTTTAATTTTTAAAATTCATC
Found at i:2996911 original size:21 final size:20
Alignment explanation
Indices: 2996871--2996909 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
2996861 TTAAGCATTA
2996871 ATATTTTTCAAGCATTAAATC
1 ATATTTTTCAA-CATTAAATC
2996892 ATATGTTTTCAA-ATTAAA
1 ATAT-TTTTCAACATTAAA
2996910 ATAACTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 4 0.24
22 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (20 bp):
ATATTTTTCAACATTAAATC
Found at i:2997020 original size:20 final size:21
Alignment explanation
Indices: 2996984--2997022 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2996974 GGGTCAAAAC
2996984 CCTAGATAGTATCGATACAGA
1 CCTAGATAGTATCGATACAGA
*
2997005 CCTAGA-AGTATTGATACA
1 CCTAGATAGTATCGATACA
2997023 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (21 bp):
CCTAGATAGTATCGATACAGA
Found at i:2997049 original size:13 final size:13
Alignment explanation
Indices: 2997031--2997055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2997021 CATATTGCTT
2997031 TGTATCGATACAC
1 TGTATCGATACAC
2997044 TGTATCGATACA
1 TGTATCGATACA
2997056 TAATCTTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2997074 original size:32 final size:33
Alignment explanation
Indices: 2997012--2997075 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
2997002 AGACCTAGAA
* * * *
2997012 GTATTGATACATATTGCTTTGTATCGATACACT
1 GTATCGATACATAATGCTTAGTATCAATACACT
2997045 GTATCGATACATAAT-CTTAGTATCAATACAC
1 GTATCGATACATAATGCTTAGTATCAATACAC
2997076 AACGAGTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (33 bp):
GTATCGATACATAATGCTTAGTATCAATACACT
Found at i:3002660 original size:13 final size:13
Alignment explanation
Indices: 3002642--3002678 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3002632 CAATGACTTA
3002642 GTATCGATACAGT
1 GTATCGATACAGT
*
3002655 GTATCGATACATT
1 GTATCGATACAGT
*
3002668 GTATCTATACA
1 GTATCGATACA
3002679 AGGGCACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:3004191 original size:8 final size:8
Alignment explanation
Indices: 3004178--3004220 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
3004168 CATGAATAAT
3004178 AAAAAATA
1 AAAAAATA
3004186 AAAAAATA
1 AAAAAATA
3004194 AAAAATATA
1 AAAAA-ATA
*
3004203 ATAATAATA
1 A-AAAAATA
*
3004212 AAAATATA
1 AAAAAATA
3004220 A
1 A
3004221 TAATAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 19 0.63
9 8 0.27
10 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAAATA
Found at i:3004206 original size:3 final size:3
Alignment explanation
Indices: 3004172--3004238 Score: 51
Period size: 3 Copynumber: 25.0 Consensus size: 3
3004162 ATTTAACATG
* *
3004172 AAT AAT AA- AA- AAT AA- AAA AAT AA- AA- AAT -AT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3004214 AAT -AT AAT AAT AA- AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
3004239 TAATTAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
2 16 0.30
3 37 0.70
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:3004221 original size:17 final size:17
Alignment explanation
Indices: 3004172--3004226 Score: 78
Period size: 17 Copynumber: 3.3 Consensus size: 17
3004162 ATTTAACATG
3004172 AATAATAAAAA-ATAA-
1 AATAATAAAAATATAAT
*
3004187 AAAAATAAAAAATATAAT
1 AATAAT-AAAAATATAAT
3004205 AATAATAAAAATATAAT
1 AATAATAAAAATATAAT
3004222 AATAA
1 AATAA
3004227 AATAGTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 5 0.14
16 5 0.14
17 20 0.57
18 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAATAAAAATATAAT
Found at i:3004222 original size:14 final size:14
Alignment explanation
Indices: 3004190--3004238 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
3004180 AAAATAAAAA
3004190 AATAA-AAAATATAAT
1 AATAATAAAA-AT-AT
3004205 AATAATAAAAATAT
1 AATAATAAAAATAT
3004219 AATAAT-AAAATAGT
1 AATAATAAAAATA-T
3004233 AATAAT
1 AATAAT
3004239 TAATTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.19
14 15 0.47
15 7 0.22
16 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AATAATAAAAATAT
Found at i:3004238 original size:17 final size:15
Alignment explanation
Indices: 3004172--3004228 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
3004162 ATTTAACATG
*
3004172 AATAATAAAAAATAA
1 AATAATAAAAAATAT
*
3004187 AAAAATAAAAAATAT
1 AATAATAAAAAATAT
3004202 AATAATAATAAAAATAT
1 AATAAT-A-AAAAATAT
3004219 AATAATAAAA
1 AATAATAAAA
3004229 TAGTAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 21 0.57
16 2 0.05
17 14 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAAAAATAT
Found at i:3004827 original size:29 final size:29
Alignment explanation
Indices: 3004738--3004829 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
3004728 ATTAAGCTAA
*
3004738 TGCAATGAAGACAAAAAAGAAACAGCTGC
1 TGCAATGAAGACAAAAAAGAAACAACTGC
* *
3004767 AGCAATGAAGACAAAAAAGAAACAACTAC
1 TGCAATGAAGACAAAAAAGAAACAACTGC
** *
3004796 TGCAATGAAGACACCAACGAAACAACTGC
1 TGCAATGAAGACAAAAAAGAAACAACTGC
3004825 TGCAA
1 TGCAA
3004830 AATGAAATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.52, C:0.21, G:0.17, T:0.10
Consensus pattern (29 bp):
TGCAATGAAGACAAAAAAGAAACAACTGC
Found at i:3008125 original size:52 final size:52
Alignment explanation
Indices: 3008036--3008164 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
3008026 CGAAATATGA
* * *
3008036 AAATTTACCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
3008088 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
3008140 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
3008165 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:3008177 original size:52 final size:51
Alignment explanation
Indices: 3008036--3008184 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
3008026 CGAAATATGA
* *
3008036 AAATTTACCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
3008088 AAATTTGCCTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
3008140 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3008185 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:3008191 original size:13 final size:13
Alignment explanation
Indices: 3008173--3008197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3008163 CAAAGATCAG
3008173 TGTATCGATACAA
1 TGTATCGATACAA
3008186 TGTATCGATACA
1 TGTATCGATACA
3008198 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3012406 original size:19 final size:20
Alignment explanation
Indices: 3012363--3012415 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
3012353 CACACCCAGA
*
3012363 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCAT
*
3012383 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCTGCAT
*
3012402 TGTATCAATACATG
1 TGTATCGATACATG
3012416 GACAAATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTGCAT
Found at i:3016555 original size:20 final size:22
Alignment explanation
Indices: 3016525--3016565 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
3016515 ATTTCCCGTG
3016525 TGAATGTATCGATACA-ATTTT
1 TGAATGTATCGATACATATTTT
3016546 TGAA-GTATCGATACATATTT
1 TGAATGTATCGATACATATTT
3016566 GAAAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (22 bp):
TGAATGTATCGATACATATTTT
Found at i:3021274 original size:15 final size:15
Alignment explanation
Indices: 3021254--3021284 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3021244 ATTTTGTTTG
*
3021254 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3021269 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3021284 G
1 G
3021285 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3024469 original size:32 final size:30
Alignment explanation
Indices: 3024433--3024491 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
3024423 GAAATCAAAT
3024433 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
3024465 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
3024492 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:3024790 original size:13 final size:13
Alignment explanation
Indices: 3024772--3024797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3024762 ATATTTTATG
3024772 TGTATCGATACAT
1 TGTATCGATACAT
3024785 TGTATCGATACAT
1 TGTATCGATACAT
3024798 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3024811 original size:32 final size:34
Alignment explanation
Indices: 3024751--3024815 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
3024741 TACAAGCCAA
3024751 TGTATCAATACATATTTTATGTGTATCGATACAT
1 TGTATCAATACATATTTTATGTGTATCGATACAT
*
3024785 TGTATCGATACATA-TTT-TGTGTATCGATACA
1 TGTATCAATACATATTTTATGTGTATCGATACA
3024816 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 14 0.47
33 3 0.10
34 13 0.43
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (34 bp):
TGTATCAATACATATTTTATGTGTATCGATACAT
Found at i:3024892 original size:20 final size:20
Alignment explanation
Indices: 3024866--3024922 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
3024856 TACATCTTTT
3024866 TCATGTATCGATACTTTGCAA
1 TCATGTATCGATACTTTG-AA
3024887 -CATGTATCGATACTTTGAA
1 TCATGTATCGATACTTTGAA
**
3024906 TTGTGTATCGATACTTT
1 TCATGTATCGATACTTT
3024923 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (20 bp):
TCATGTATCGATACTTTGAA
Found at i:3026190 original size:20 final size:20
Alignment explanation
Indices: 3026162--3026236 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
3026152 TTATACCCTG
3026162 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3026182 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
3026202 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
3026222 ATGTATCGATACATT
1 ATGTATCGATACATT
3026237 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3026229 original size:40 final size:39
Alignment explanation
Indices: 3026162--3026239 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
3026152 TTATACCCTG
* *
3026162 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
3026202 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
3026240 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:3027176 original size:22 final size:22
Alignment explanation
Indices: 3027151--3027205 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
3027141 AGCCTTTAAC
3027151 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
3027173 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
3027195 CATGCATTTTT
1 CATGCATTTTT
3027206 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:3027212 original size:20 final size:21
Alignment explanation
Indices: 3027151--3027212 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
3027141 AGCCTTTAAC
**
3027151 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
**
3027173 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
3027195 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
3027213 CCAGCATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 28 0.74
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:3040291 original size:11 final size:11
Alignment explanation
Indices: 3040271--3040323 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
3040261 CCTTTACACC
3040271 CAAAAAAAAAA
1 CAAAAAAAAAA
3040282 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
3040295 CAAAAAAAAAA
1 CAAAAAAAAAA
* *
3040306 GAAAAAAAAAG
1 CAAAAAAAAAA
3040317 CAAAAAA
1 CAAAAAA
3040324 TAGAAGGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 23 0.62
12 6 0.16
13 8 0.22
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:3040293 original size:13 final size:12
Alignment explanation
Indices: 3040272--3040315 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
3040262 CTTTACACCC
3040272 AAAAAAAAAACA
1 AAAAAAAAAACA
3040284 AAACAAAAAAACA
1 AAA-AAAAAAACA
3040297 AAAAAAAAAGA-A
1 AAAAAAAAA-ACA
3040309 AAAAAAA
1 AAAAAAA
3040316 GCAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:3040298 original size:24 final size:22
Alignment explanation
Indices: 3040271--3040323 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
3040261 CCTTTACACC
*
3040271 CAAAAAAAAAACAAAACAAAAAA
1 CAAAAAAAAAA-AAAAAAAAAAA
*
3040294 -ACAAAAAAAAAAGAAAAAAAAAG
1 CA-AAAAAAAAAA-AAAAAAAAAA
3040317 CAAAAAA
1 CAAAAAA
3040324 TAGAAGGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.08
23 22 0.88
24 1 0.04
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAAAAAAAAAAAAAA
Found at i:3040316 original size:10 final size:10
Alignment explanation
Indices: 3040272--3040328 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
3040262 CTTTACACCC
3040272 AAAAAA-AAA
1 AAAAAAGAAA
* *
3040281 ACAAAACAAA
1 AAAAAAGAAA
*
3040291 AAAACA-AAA
1 AAAAAAGAAA
3040300 AAAAAAGAAA
1 AAAAAAGAAA
*
3040310 AAAAAAGCAA
1 AAAAAAGAAA
*
3040320 AAAATAGAA
1 AAAAAAGAA
3040329 GGGTCTAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
9 13 0.33
10 26 0.67
ACGTcount: A:0.86, C:0.07, G:0.05, T:0.02
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:3040323 original size:1 final size:1
Alignment explanation
Indices: 3040272--3040315 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
3040262 CTTTACACCC
* * * *
3040272 AAAAAAAAAACAAAACAAAAAAACAAAAAAAAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3040316 GCAAAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.91, C:0.07, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:3041584 original size:29 final size:29
Alignment explanation
Indices: 3041542--3042457 Score: 1292
Period size: 28 Copynumber: 31.9 Consensus size: 29
3041532 AATGTTCATC
3041542 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
3041571 CCTTTCAAAGCCCACAAATCAGTGACACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
3041600 TTTTTCAAAACCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3041628 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3041656 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041685 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3041713 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041742 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041770 CCTTTCAAAGTCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041799 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041828 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3041856 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041884 CCTTTCAAAGCCCACAAGTCAATGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3041913 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
3041942 CTTTTTAAAGCCCATAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
3041971 ATTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3041999 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3042028 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042057 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042086 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042114 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042142 CCTTTCAGAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042170 CCTTTCGAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
3042198 CATTGCGAAGCCCACAATTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3042227 -CTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042254 CCTTTTAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * *
3042285 CCTTTTAAAGCTCACGCAAGTCAGTGGTAC-
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
*
3042315 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
3042344 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
3042371 CCTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
3042399 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
3042429 CCTTTTAAAGCCCATGCAAGTCAATGGCA
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCA
3042458 ACCCTTTTCA
Statistics
Matches: 806, Mismatches: 65, Indels: 31
0.89 0.07 0.03
Matches are distributed among these distances:
27 1 0.00
28 396 0.49
29 321 0.40
30 62 0.08
31 26 0.03
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:3041746 original size:114 final size:114
Alignment explanation
Indices: 3041541--3042469 Score: 1339
Period size: 114 Copynumber: 8.1 Consensus size: 114
3041531 GAATGTTCAT
* * **
3041541 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGACACTTTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
3041606 AAAACCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
3041655 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
3041719 AAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCA
66 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
3041769 CCCTTTCAAAGTCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
3041834 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3041883 CCCTTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* * ** *
3041948 AAAGCCCATAAATCAGTGGCACTATTTTCAAAGCCCACAAGTTAGTGGCA
66 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
3041998 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
*
3042063 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3042113 CCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAGAGCCCACAAGTCAGTGGCAC-CCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* * * * *
3042176 GAAGCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
3042225 CTCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAG-CC-CACAAGTCAGTGGCACTCCTT
* * * *
3042289 TTAAAGCTCACGCAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTCAGTGGCA
64 TCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
3042342 CTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGAGTTAGTGGCA-TTCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
* *
3042405 AAAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCATGCAAGTCAATGGCAA
66 AAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGC-A
3042459 CCCTTTTCAAA
1 CCC-TTTCAAA
3042470 TCACCACTGT
Statistics
Matches: 740, Mismatches: 60, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
112 59 0.08
113 54 0.07
114 320 0.43
115 209 0.28
116 14 0.02
117 77 0.10
118 7 0.01
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (114 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTC
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:3043011 original size:20 final size:20
Alignment explanation
Indices: 3042983--3043057 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
3042973 TCATACCCTG
3042983 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
3043003 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
3043023 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
3043043 ATGTATCGATACATT
1 ATGTATCGATACATT
3043058 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:3043050 original size:40 final size:39
Alignment explanation
Indices: 3042983--3043060 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
3042973 TCATACCCTG
* *
3042983 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
3043023 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
3043061 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:3050804 original size:33 final size:32
Alignment explanation
Indices: 3050762--3050823 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
3050752 ACCCAGATGC
* *
3050762 ATCGATACATGCTGCTTTGTATTGATACATTAT
1 ATCGATACATG-TGCATTGTATCGATACATTAT
*
3050795 ATCGATACATGTTCATTGTATCGATACAT
1 ATCGATACATGTGCATTGTATCGATACAT
3050824 GGACAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (32 bp):
ATCGATACATGTGCATTGTATCGATACATTAT
Found at i:3050816 original size:19 final size:19
Alignment explanation
Indices: 3050788--3050845 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
3050778 TTGTATTGAT
* *
3050788 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
3050807 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
3050826 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
3050846 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:3050900 original size:20 final size:19
Alignment explanation
Indices: 3050875--3050927 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
3050865 TATCACTATT
3050875 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
3050895 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
3050915 TGTATCGATACAT
1 TGTATCGATACAT
3050928 AGCTTGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:3053165 original size:34 final size:34
Alignment explanation
Indices: 3053102--3053183 Score: 114
Period size: 34 Copynumber: 2.5 Consensus size: 34
3053092 TTGCTATAAC
*
3053102 AAAAAGA--GAGAAATTTTTTAAAAACAAATTTG
1 AAAAAGAGGGAGAAATATTTTAAAAACAAATTTG
* *
3053134 AAAAAGAGGGAGAAATATTTTGAAAATAAATTTG
1 AAAAAGAGGGAGAAATATTTTAAAAACAAATTTG
*
3053168 AAAAAGGGGGAGAAAT
1 AAAAAGAGGGAGAAAT
3053184 TGTTTTATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 7 0.16
34 37 0.84
ACGTcount: A:0.55, C:0.01, G:0.21, T:0.23
Consensus pattern (34 bp):
AAAAAGAGGGAGAAATATTTTAAAAACAAATTTG
Found at i:3054152 original size:20 final size:20
Alignment explanation
Indices: 3054124--3054175 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
3054114 TCAAATGCAT
*
3054124 GTATCGATACCTTATGAAAA
1 GTATCGATACATTATGAAAA
*
3054144 GTATTGATACATTATGAAAA
1 GTATCGATACATTATGAAAA
3054164 GTATCGATACAT
1 GTATCGATACAT
3054176 AATAACAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
GTATCGATACATTATGAAAA
Found at i:3060738 original size:79 final size:77
Alignment explanation
Indices: 3060464--3060742 Score: 269
Period size: 79 Copynumber: 3.6 Consensus size: 77
3060454 CCGATTATGG
** * * *
3060464 AAAATTGGTGTTCCAGAAATAAAATCGTGGTTGGAGTATCCCC-CCAAAATTAACAGGGTTGGAG
1 AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAA-TAACGGGGTTGGAG
3060528 TATCCCTGA-TTATA
65 TATCCCT-ATTTA-A
* * *
3060542 AAAATCGGTATTTT-GAAAATGAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
1 AAAATTGGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
* *
3060606 TATCCCCGATTGTGA
65 TAT-CCCTATT-TAA
* * ** * * *
3060621 AAAATTGATGATTTAGAAAT-AAGGCTGGGGTTGAAGTATCCCCTTGGAAATAACGGGGTTGGAG
1 AAAATTGGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAG
3060685 TATCTCCTATTTCAA
65 TATC-CCTATTT-AA
* * *
3060700 AAAATTGGTGTTTTGGAAATAAAATCGGAGTAGGAGTATCCCC
1 AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
3060743 GATTGTGGAA
Statistics
Matches: 162, Mismatches: 29, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
77 1 0.01
78 57 0.35
79 99 0.61
80 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (77 bp):
AAAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGT
ATCCCTATTTAA
Found at i:3063280 original size:40 final size:42
Alignment explanation
Indices: 3063236--3063335 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
3063226 GTCCCACTTT
* * *
3063236 TTGAGGACAAAGGAAAAG-AG-AATGAGATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAG-GAAAGTGTCCTGCTCC
* * *
3063276 TTGAGGACTAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTCC
3063318 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
3063336 AGAGTACGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 16 0.33
41 6 0.12
42 22 0.46
43 4 0.08
ACGTcount: A:0.40, C:0.11, G:0.30, T:0.19
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTCC
Found at i:3063630 original size:61 final size:61
Alignment explanation
Indices: 3063473--3063631 Score: 232
Period size: 61 Copynumber: 2.6 Consensus size: 61
3063463 AGGAAGTGTG
* * *
3063473 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCA
*
3063534 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGA-AAAGGCA
* *
3063595 TCCTGCTCTTTAAGGACTTAAAAGTGCCACCAACTTG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTG
3063632 GAAAAATGGA
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
61 82 0.92
62 7 0.08
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCA
Found at i:3063701 original size:54 final size:54
Alignment explanation
Indices: 3063473--3063718 Score: 161
Period size: 61 Copynumber: 4.3 Consensus size: 54
3063463 AGGAAGTGTG
* * * * *
3063473 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
*
3063534 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTGCTCTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG---GCA
* * * ***** ** * *
3063595 TCCTGCTCTTTAAGGACTTAAAAGTGCCACCAACTTG-GAAAAATGGAGAAGGCG
1 TCCTGCTCTTTGAGGA-TTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
3063649 TCCTGCTCTTTGAGGATTGAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
3063703 TCTTGCTCTTTGAGGA
1 TCCTGCTCTTTGAGGA
3063719 CAAAAAGGCG
Statistics
Matches: 145, Mismatches: 35, Indels: 17
0.74 0.18 0.09
Matches are distributed among these distances:
53 16 0.11
54 40 0.28
57 4 0.03
58 5 0.03
60 2 0.01
61 77 0.53
62 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:3063951 original size:60 final size:61
Alignment explanation
Indices: 3063741--3064246 Score: 620
Period size: 60 Copynumber: 8.4 Consensus size: 61
3063731 AGGAGAGAGT
* * *
3063741 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTCAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
3063802 GTCCTACTCTTTGAGGACT-GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GGC
* * * * * * **
3063863 ATCCTACTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGC-TTAGAAGGAGGAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
*
3063923 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
3063984 GTCTTGCTCTTTGAGAACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
3064044 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGAC
1 GTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
3064106 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGC
* *
3064169 GTCCTGCTCTTTGAGGACTGAAGAA-GTACCACCAACTTTTGTGGGCTTT------AAAAGGC
1 GTCCTGCTCTTTGAGGACT-AA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
3064225 GTCCTGCTCTTTGAGGACTAAA
1 GTCCTGCTCTTTGAGGACTAAA
3064247 GGGCGGAAGG
Statistics
Matches: 390, Mismatches: 45, Indels: 27
0.84 0.10 0.06
Matches are distributed among these distances:
54 1 0.00
55 2 0.01
56 25 0.06
59 3 0.01
60 128 0.33
61 103 0.26
62 80 0.21
63 23 0.06
64 23 0.06
65 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:3063964 original size:122 final size:123
Alignment explanation
Indices: 3063741--3064248 Score: 614
Period size: 122 Copynumber: 4.2 Consensus size: 123
3063731 AGGAGAGAGT
* * *
3063741 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGC-TTCAAAAGGAGAAGGCGT
1 GTCCTGCTCTTTGAGGACTA--AAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGT
* * * *
3063804 CCTACTCTTTGAGGACT--GAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGGC
64 CCTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAA-GGC
* * * * **
3063863 ATCCTACTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGC-TT-AGAAGGAGGAGGCGTC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTC
3063926 CTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
65 CTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
* * *
3063984 GTCTTGCTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCC
* * * * *
3064048 TGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGAC
66 TGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
* *
3064106 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGTGT
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAAGGCGT
* * *
3064171 CCTGCTCTTTGAGGACTGAAGAA-GTACCACCAACTTTTGTGGGCTTT------AAAAGGC
64 CCTGCTCTTTGAGGACT-AAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
3064225 GTCCTGCTCTTTGAGGACTAAAGG
1 GTCCTGCTCTTTGAGGACTAAAGG
3064249 GCGGAAGGAG
Statistics
Matches: 343, Mismatches: 34, Indels: 22
0.86 0.09 0.06
Matches are distributed among these distances:
118 5 0.01
119 24 0.07
120 23 0.07
121 79 0.23
122 128 0.37
123 28 0.08
124 5 0.01
125 47 0.14
126 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (123 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGC
Found at i:3064075 original size:182 final size:182
Alignment explanation
Indices: 3063741--3064246 Score: 643
Period size: 182 Copynumber: 2.8 Consensus size: 182
3063731 AGGAGAGAGT
* * *
3063741 GTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTCAAAAGGAGAAGGCGTC
1 GTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
* * * * *
3063805 CTACTCTTTGAGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGGCATCCTAC
65 CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAG-AAAA-GGCGTCCTGC
* ** * *
3063870 TCTTTGAGGACT-GAAGGGTGCCACCAACTCGTGTGGGCTTAG-AAGG-AGGAGGC
128 TCTTTGAGGACTAAAAAAGTGCCACCAACTCGTGTGGGCTTAGAAAGGCA-AAGAC
* *
3063923 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
3063988 TGCTCTTTGAGAACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
66 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTC
* *
3064053 TTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGAC
130 TTTGAGGACTAAAAAAGTGCCACCAACTCGTGTGGGCTTAGAAAGGCAAAGAC
* * *
3064106 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGTGT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGCGT
* * *
3064171 CCTGCTCTTTGAGGACTGAAGAAGTACCACCAACTTTTGTGGGCTTT-----AAAAGGCGTCCTG
64 CCTGCTCTTTGAGGACT-AA-AGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCCTG
3064231 CTCTTTGAGGACTAAA
127 CTCTTTGAGGACTAAA
3064247 GGGCGGAAGG
Statistics
Matches: 287, Mismatches: 28, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
181 51 0.18
182 128 0.45
183 54 0.19
184 6 0.02
185 23 0.08
186 2 0.01
187 23 0.08
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (182 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCT
TTGAGGACTAAAAAAGTGCCACCAACTCGTGTGGGCTTAGAAAGGCAAAGAC
Found at i:3064354 original size:61 final size:60
Alignment explanation
Indices: 3064264--3064585 Score: 320
Period size: 63 Copynumber: 5.3 Consensus size: 60
3064254 AGGAGAGAGT
* *
3064264 GTCCTTCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
3064325 GTCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
1 GTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
3064380 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTT-GAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAA-AGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
3064440 ATCCTGTTCCTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAA--GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAAAAGGC
* * * * *
3064503 GTCCTGCTCTTTTAGGACT-AAATGCGCCACCAACTTGTGTGGGATTTAAAAAGAAAAAAAGAC
1 GTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG--GAAAAGGC
*
3064566 ATCCTGCTCTTTGAGGACTG
1 GTCCTGCTCTTTGAGGACTG
3064586 GAAGGGCTAA
Statistics
Matches: 220, Mismatches: 28, Indels: 23
0.81 0.10 0.08
Matches are distributed among these distances:
54 3 0.01
55 46 0.21
56 1 0.00
59 3 0.01
60 44 0.20
61 43 0.20
62 31 0.14
63 49 0.22
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:3064356 original size:219 final size:213
Alignment explanation
Indices: 3064044--3064464 Score: 537
Period size: 219 Copynumber: 1.9 Consensus size: 213
3064034 AGGAAAAGGC
* *
3064044 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAGACGTC
1 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTC
*
3064109 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCT
66 CTGCTCTTTGAGGACTAAAA-GTGCCACCAACTCGTGTGGGCTTT-----G---AAAGGCGTCCT
** * *
3064174 GCTCTTTGAGGACTGAAGAAGTACCACCAACTTTTGTGGGCTTT-A-A-AAGGCGTCCTGCTCTT
122 GCTCTTTGAGGACTGAAG-AGTACCACCAACTCGTGTGGGCTTTAAGAGAAGGCATCCTGCTCCT
3064236 TGAGGACTAAAGGGCGGAAGGAGAGAGT
186 TGAGGACTAAAGGGCGGAAGGAGAGAGT
* ** *
3064264 GTCCTTCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTC
* *
3064328 TTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
66 CTGCTCTTTGAGGACT--AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
* * *
3064392 GAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGCATCCTGTTCCTTGAGGA
129 GAGGACTGAAGAGTACCACCAACTCGTGTGGGCTTT-AA-GAGAAGGCATCCTGCTCCTTGAGGA
3064457 CTAAAGGG
192 CTAAAGGG
3064465 TGCCACCAAC
Statistics
Matches: 178, Mismatches: 16, Indels: 19
0.84 0.08 0.09
Matches are distributed among these distances:
210 21 0.12
211 28 0.16
212 1 0.01
214 2 0.01
215 27 0.15
219 77 0.43
220 18 0.10
221 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (213 bp):
GTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTC
CTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGA
GGACTGAAGAGTACCACCAACTCGTGTGGGCTTTAAGAGAAGGCATCCTGCTCCTTGAGGACTAA
AGGGCGGAAGGAGAGAGT
Found at i:3064409 original size:55 final size:56
Alignment explanation
Indices: 3064264--3064555 Score: 252
Period size: 55 Copynumber: 5.0 Consensus size: 56
3064254 AGGAGAGAGT
*
3064264 GTCCTTCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAGG--GTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGC
* **
3064325 GTCTTGCTCTTTGAGGACTGGAA-AATGCCACCAACTTGTGTGGGCTTT-G-AAAGGC
1 GTCCTGCTCTTTGAGGACT--AAGGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGC
* *
3064380 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACT-AAGGGTGCCACCAACTTGTGTGGGCTTT--A-GAAAAGGC
* * *
3064440 ATCCTGTTCCTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAGGGTGCCACCAACTTGTGTGGGCTTT----AG--AAAAGGC
* ** * *
3064503 GTCCTGCTCTTTTAGGACTAAATGCGCCACCAACTTGTGTGGGATTTA-AAAAG
1 GTCCTGCTCTTTGAGGACTAAGGGTGCCACCAACTTGTGTGGGCTTTAGAAAAG
3064556 AAAAAAAGAC
Statistics
Matches: 194, Mismatches: 24, Indels: 32
0.78 0.10 0.13
Matches are distributed among these distances:
54 3 0.02
55 51 0.26
56 1 0.01
58 1 0.01
59 1 0.01
60 48 0.25
61 41 0.21
62 26 0.13
63 21 0.11
64 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (56 bp):
GTCCTGCTCTTTGAGGACTAAGGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGC
Found at i:3064465 original size:60 final size:58
Alignment explanation
Indices: 3064264--3064551 Score: 277
Period size: 60 Copynumber: 4.9 Consensus size: 58
3064254 AGGAGAGAGT
*
3064264 GTCCTTCTCTTTGAGGACT--AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGG--GTGCCACCAACTTGTGTGGGCTTT--AAGG-AAAGGC
* *
3064325 GTCTTGCTCTTTGAGGACTGGAAA--ATGCCACCAACTTGTGTGGGCTTT---GAAAGGC
1 GTCCTGCTCTTTGAGGACT--AAAGGGTGCCACCAACTTGTGTGGGCTTTAAGGAAAGGC
* *
3064380 GTCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCGTGTGGGCTTTGAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAGGA-AAGGC
* * * *
3064440 ATCCTGTTCCTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT---AAG--GAAAGGC
* * * *
3064503 GTCCTGCTCTTTTAGGACTAAA-TGCGCCACCAACTTGTGTGGGATTTAA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAA
3064552 AAAGAAAAAA
Statistics
Matches: 191, Mismatches: 21, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
53 2 0.01
55 46 0.24
56 1 0.01
59 4 0.02
60 48 0.25
61 40 0.21
62 25 0.13
63 23 0.12
64 1 0.01
65 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (58 bp):
GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAGGAAAGGC
Found at i:3071008 original size:51 final size:51
Alignment explanation
Indices: 3070949--3071062 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
3070939 AAATAACGGG
** * * * *
3070949 GTTGGAGTATCCCTTATTGTGAAAAATTGGTGTTTTGGAAAAAAAACTGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAAAAAAACCGGA
* * *
3071000 GTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAAAAAAACCGGA
3071051 GTTGGAGTATCC
1 GTTGGAGTATCC
3071063 TCTCGGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAAAAAAACCGGA
Found at i:3071009 original size:79 final size:79
Alignment explanation
Indices: 3070707--3071013 Score: 266
Period size: 79 Copynumber: 3.9 Consensus size: 79
3070697 TGGAGATAAC
* * * ** * *
3070707 AACGGGGCTGGAGTAT-CCTCGATTATGGAAAATTGGTGTTCCAGAAATAAAATTGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCT-GATTATGAAAAATTGATGTTTTAGAAAAAAAACTGGGGTTGGAG
*
3070771 T-TACCCCTCGAAAAT
65 TAT-CCCCTTGAAAAT
** * *
3070786 AATAGGGTTGGAGTATCCCTGATTAT-AAAAATTGATATTTT-GAAAATGAAA-TCGGGGTTGGA
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAAA-AAAACT-GGGGTTGGA
3070848 GTAT-CCCTTCGAAAAT
64 GTATCCCCTT-GAAAAT
* * * * * * ** ** *
3070864 AACGGGGTTGGAGTTTCTCTGATTGTGAAAAATCGATGATTTAGAAATAAGGCCAGGGTTGAAGT
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAAAAAAACTGGGGTTGGAGT
*
3070929 ATCCCCTTGGAAAT
66 ATCCCCTTGAAAAT
* * * * *
3070943 AACGGGGTTGGAGTATCCCTTATTGTGAAAAATTGGTGTTTTGGAAAAAAAACTGGAGTTGGAGT
1 AACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAAAAAAACTGGGGTTGGAGT
3071008 ATCCCC
66 ATCCCC
3071014 GATTATGGAA
Statistics
Matches: 178, Mismatches: 41, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
77 9 0.05
78 51 0.29
79 106 0.60
80 12 0.07
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAAAAAAACTGGGGTTGGAGT
ATCCCCTTGAAAAT
Found at i:3074599 original size:20 final size:19
Alignment explanation
Indices: 3074574--3074636 Score: 81
Period size: 20 Copynumber: 3.2 Consensus size: 19
3074564 ATGCTTGAAT
*
3074574 TATCGATACATTGTAAAATG
1 TATCGATACAATG-AAAATG
*
3074594 TATCGATACAATGAGCAATG
1 TATCGATACAATGA-AAATG
3074614 TATCGATACAATGCAAAATG
1 TATCGATACAATG-AAAATG
3074634 TAT
1 TAT
3074637 ACATCTGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 1 0.03
20 36 0.95
21 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAAAATG
Found at i:3074697 original size:14 final size:14
Alignment explanation
Indices: 3074678--3074704 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3074668 ACAAAGATCG
3074678 ATGTATCGATACAA
1 ATGTATCGATACAA
3074692 ATGTATCGATACA
1 ATGTATCGATACA
3074705 TTTCCTTAAC
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
ATGTATCGATACAA
Found at i:3082648 original size:53 final size:52
Alignment explanation
Indices: 3082572--3082679 Score: 162
Period size: 53 Copynumber: 2.1 Consensus size: 52
3082562 TACTATGCAT
***
3082572 AAAAAAATGAATGACAATGCTTGGATGAAAATTTGAAAGGGCATTCAAGTAA
1 AAAAAAATGAATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCAAGTAA
**
3082624 AAAAAAATTGAATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCGGGTAA
1 AAAAAAA-TGAATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCAAGTAA
3082677 AAA
1 AAA
3082680 TATCAAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
52 7 0.14
53 43 0.86
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.20
Consensus pattern (52 bp):
AAAAAAATGAATGACAATGCTTGGATGAAAACCCGAAAGGGCATTCAAGTAA
Found at i:3083481 original size:78 final size:78
Alignment explanation
Indices: 3083356--3083546 Score: 188
Period size: 78 Copynumber: 2.4 Consensus size: 78
3083346 TCTTATATGT
* * * * * **
3083356 TAGATGATATTAGTACATCACAAGGCCAAAGAGGGTACTTCCTACACAATCCCAATCATATCTTT
1 TAGATGATATTGGTGCATCACATGGCCAAAGAAGGTACTTCCCACACAATCCCAATCATATCCAT
* *
3083421 CTTTCCCAAATAC
66 CCTTCCCAAACAC
* **
3083434 TAGATGATATTGGTGCATCACATGGCC-AAGAAGG-ACGTTTCCCACACATTCCCAATTGTATCC
1 TAGATGATATTGGTGCATCACATGGCCAAAGAAGGTAC--TTCCCACACAATCCCAATCATATCC
*
3083497 ATCCTTCCTAAACAC
64 ATCCTTCCCAAACAC
* * * *
3083512 TAAATGGTATTGATGCATCACATGACCATAAGAAG
1 TAGATGATATTGGTGCATCACATGGCCA-AAGAAG
3083547 TACATCCTAC
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
76 2 0.02
77 6 0.07
78 78 0.85
80 6 0.07
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.27
Consensus pattern (78 bp):
TAGATGATATTGGTGCATCACATGGCCAAAGAAGGTACTTCCCACACAATCCCAATCATATCCAT
CCTTCCCAAACAC
Found at i:3084203 original size:53 final size:53
Alignment explanation
Indices: 3084135--3084238 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
3084125 TGCCTGTCAG
* *
3084135 CTCAGACTCAAGAGACTCCTTCATCTTTCATCTGCTCATTGACTTAGACCCAA
1 CTCAGACTCAAGAGACTCCTTCATCTTTCATCTACCCATTGACTTAGACCCAA
** * * *
3084188 CTCAGACTCGGGAGACTCTTTCATCTTTCGTCTACCCATTGGCTTAGACCC
1 CTCAGACTCAAGAGACTCCTTCATCTTTCATCTACCCATTGACTTAGACCC
3084239 GGAAGACTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (53 bp):
CTCAGACTCAAGAGACTCCTTCATCTTTCATCTACCCATTGACTTAGACCCAA
Found at i:3084255 original size:42 final size:42
Alignment explanation
Indices: 3084191--3084346 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
3084181 GACCCAACTC
* * * *
3084191 AGACTCGGGAGACTCTTTCATCTTTCGTCTACCCATTGGCTT
1 AGACCCGGAAGACTCTTGCATCTTTCGTCTACCCGTTGGCTT
**
3084233 AGACCCGGAAGACTCTTGCATCTTTCGTCTACCCGTCAGCTT
1 AGACCCGGAAGACTCTTGCATCTTTCGTCTACCCGTTGGCTT
** * * * *
3084275 AGACCTAGAAGACTTTTTG-GTCTTTCGTTTACCTGTTGGCTT
1 AGACCCGGAAGAC-TCTTGCATCTTTCGTCTACCCGTTGGCTT
* *
3084317 AAACCCGGGAGACTCCTT-CATCTTTCGTCT
1 AGACCCGGAAGACT-CTTGCATCTTTCGTCT
3084347 GCCTGTCAGC
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.01
42 85 0.94
43 4 0.04
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (42 bp):
AGACCCGGAAGACTCTTGCATCTTTCGTCTACCCGTTGGCTT
Found at i:3084607 original size:85 final size:84
Alignment explanation
Indices: 3084468--3084637 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 84
3084458 CCGTTGGCTT
* * * * *
3084468 AGACCCGGGAGACTTCTTCATCCATCATCTGCTCGTCGGGTGGATCCTGAGAGACTTTCTTTATC
1 AGACCCGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTCGATCATGAGAGAC-TTCTTCATC
3084533 AATCATCTACCCATCGACTC
65 AATCATCTACCCATCGACTC
* * * * *
3084553 AGACTCGGGAGATTTTTTCATCCATTATCTACTCGTCGGCTCGCTCATCG-GAGACTTCTTCATC
1 AGACCCGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTCGATCAT-GAGAGACTTCTTCATC
* *
3084617 AATCGTCTACCCATCGGCTC
65 AATCATCTACCCATCGACTC
3084637 A
1 A
3084638 AACACGAGAA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 27 0.38
85 44 0.61
86 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (84 bp):
AGACCCGGGAGACTTCTTCATCCATCATCTACTCGTCGGCTCGATCATGAGAGACTTCTTCATCA
ATCATCTACCCATCGACTC
Found at i:3085030 original size:13 final size:13
Alignment explanation
Indices: 3085012--3085036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3085002 CATTATGCTT
3085012 TGTATCGATACAA
1 TGTATCGATACAA
3085025 TGTATCGATACA
1 TGTATCGATACA
3085037 TATTCACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3085055 original size:32 final size:33
Alignment explanation
Indices: 3084990--3085055 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
3084980 TACACACCCA
** *
3084990 AATGTATCGATACATTATGCTTTGTATCGATAC
1 AATGTATCGATACATTATGCACTATATCGATAC
*
3085023 AATGTATCGATACA-TATTCACTATATCGATAC
1 AATGTATCGATACATTATGCACTATATCGATAC
3085055 A
1 A
3085056 TATCCAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATTATGCACTATATCGATAC
Found at i:3085071 original size:20 final size:19
Alignment explanation
Indices: 3085025--3085075 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
3085015 ATCGATACAA
*
3085025 TGTATCGATACATATTCAC
1 TGTATCGATACATATCCAC
* *
3085044 TATATCGATACATATCCAAT
1 TGTATCGATACATATCC-AC
3085064 TGTATCGATACA
1 TGTATCGATACA
3085076 AGAAACTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATATCCAC
Found at i:3085150 original size:33 final size:33
Alignment explanation
Indices: 3085107--3085171 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3085097 TACCACTGTT
3085107 TGTATCGATACATGA-CACATTGTATCAATACAA
1 TGTATCGATACATGATCA-ATTGTATCAATACAA
* * *
3085140 TGTATTGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATCAATTGTATCAATACA
3085172 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATCAATTGTATCAATACAA
Found at i:3095732 original size:16 final size:16
Alignment explanation
Indices: 3095696--3095732 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
3095686 GATAAAAATG
*
3095696 TCCAAATTGAGGAAGC
1 TCCAAAATGAGGAAGC
3095712 T-CAAAATGAGGAAGC
1 TCCAAAATGAGGAAGC
3095727 TCCAAA
1 TCCAAA
3095733 CAAAATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (16 bp):
TCCAAAATGAGGAAGC
Found at i:3097823 original size:13 final size:13
Alignment explanation
Indices: 3097805--3097840 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3097795 TTTTTCTTTG
*
3097805 TATCGATACATTA
1 TATCGATACACTA
*
3097818 TATCGATACACTG
1 TATCGATACACTA
3097831 TATCGATACA
1 TATCGATACA
3097841 GGGGGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:3100456 original size:34 final size:34
Alignment explanation
Indices: 3100413--3100492 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
3100403 ACACTAAGTA
3100413 TGTATCGATACAACGTATCGATACACCAAAAAAT
1 TGTATCGATACAACGTATCGATACACCAAAAAAT
3100447 TGTATCGATACAACGTATCGATACACCAAAAAAT
1 TGTATCGATACAACGTATCGATACACCAAAAAAT
3100481 TGTATCGATACA
1 TGTATCGATACA
3100493 TTGGCTTGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.25
Consensus pattern (34 bp):
TGTATCGATACAACGTATCGATACACCAAAAAAT
Found at i:3102815 original size:23 final size:25
Alignment explanation
Indices: 3102770--3102817 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
3102760 TTTTTAACTG
*
3102770 TTTATCAAGGGGGAGAAATTTTTTT
1 TTTATCAAGAGGGAGAAATTTTTTT
3102795 TTTATCAA-AGGGA-AAATTTTTTT
1 TTTATCAAGAGGGAGAAATTTTTTT
3102818 AATGAGAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 4 0.18
25 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (25 bp):
TTTATCAAGAGGGAGAAATTTTTTT
Found at i:3103412 original size:13 final size:13
Alignment explanation
Indices: 3103394--3103420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3103384 ACATTATGCT
3103394 TTGTATCGATACA
1 TTGTATCGATACA
3103407 TTGTATCGATACA
1 TTGTATCGATACA
3103420 T
1 T
3103421 GTTCACTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3103454 original size:20 final size:19
Alignment explanation
Indices: 3103402--3103458 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
3103392 CTTTGTATCG
3103402 ATACATTGTATCGATACAT
1 ATACATTGTATCGATACAT
* * * *
3103421 GTTCACTATATCGATACAT
1 ATACATTGTATCGATACAT
3103440 ATACAATTGTATCGATACA
1 ATAC-ATTGTATCGATACA
3103459 AGAAACTGGC
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (19 bp):
ATACATTGTATCGATACAT
Found at i:3103533 original size:33 final size:33
Alignment explanation
Indices: 3103490--3103552 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
3103480 TACCACTGTT
3103490 TGTATCGATACATGA-CACATTGTATCGATATAA
1 TGTATCGATACATGATCA-ATTGTATCGATATAA
* *
3103523 TGTATTGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATCAATTGTATCGATA
3103553 CATTGCTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGATCAATTGTATCGATATAA
Found at i:3106008 original size:17 final size:18
Alignment explanation
Indices: 3105977--3106020 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
3105967 GAGTTTTTTA
*
3105977 ATTTTTTTCTTGAAATTCT
1 ATTTTTTTC-TGAAATACT
*
3105996 CTTTTTTTC-GAAATACT
1 ATTTTTTTCTGAAATACT
3106013 ATTTTTTT
1 ATTTTTTT
3106021 TACTTTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTTTCTGAAATACT
Found at i:3106262 original size:164 final size:166
Alignment explanation
Indices: 3105951--3106314 Score: 479
Period size: 164 Copynumber: 2.2 Consensus size: 166
3105941 TTTATTTCAT
* * *
3105951 ATTAAATCATTTTCATGAGTTTTTTAATTTTTTTCTTGAAATTCTCTTTTTTTCGAAATACTATT
1 ATTAATTCATTTTCATGAGTTTTTT-ATTTTTTTCTTAAAACTCTCTTTTTTTCGAAATACTATT
* * * ** *
3106016 TTTTTTACTTTGTAAATTTTTTCGAGGGGATTTTTCTCGGTTTTAAATTTTTAAAATTCATCAAA
65 TTTTCTACTCTGTAAATTTTTTCGAGGGGAGTTTTCTCAATTTTAAATTTTTAAAATTAATCAAA
* *
3106081 CATCATTATTTGATTCATATTAAATTAGTCTTAAAAA
130 CATCATTATTGGATTCATATTAAATCAGTCTTAAAAA
3106118 ATTAATTCATTTTCATGAGTTTTTTATTTTTTTCTTTAAAACTC-CTAATTTTTT-GAAATA-TG
1 ATTAATTCATTTTCATGAGTTTTTTATTTTTTTC-TTAAAACTCTCT--TTTTTTCGAAATACT-
* * *
3106180 GTTTTTTCTACTCTGT-AATTTTTT-GAGGGGAGTTTTCTTAATTTTAAATTTTT-ATATTAATC
62 ATTTTTTCTACTCTGTAAATTTTTTCGAGGGGAGTTTTCTCAATTTTAAATTTTTAAAATTAATC
*
3106242 AAACATCATTATTGGATTCATATTAAATCAGTTTTAAAAA
127 AAACATCATTATTGGATTCATATTAAATCAGTCTTAAAAA
* **
3106282 ATTAATTCATTTTCTTGAGTTTTGGATTTTTTT
1 ATTAATTCATTTTCATGAGTTTTTTATTTTTTT
3106315 TGTTGAAATT
Statistics
Matches: 175, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
164 74 0.42
165 25 0.14
166 20 0.11
167 50 0.29
168 6 0.03
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (166 bp):
ATTAATTCATTTTCATGAGTTTTTTATTTTTTTCTTAAAACTCTCTTTTTTTCGAAATACTATTT
TTTCTACTCTGTAAATTTTTTCGAGGGGAGTTTTCTCAATTTTAAATTTTTAAAATTAATCAAAC
ATCATTATTGGATTCATATTAAATCAGTCTTAAAAA
Found at i:3107931 original size:127 final size:128
Alignment explanation
Indices: 3107757--3107999 Score: 283
Period size: 126 Copynumber: 1.9 Consensus size: 128
3107747 AACTAATGTC
** *
3107757 AATCATTTTGTCAATCTTTTATATTCCTATGGGTATCCGTAAAGGTATAAAAAATTTTAAAAAAC
1 AATCATTTTGTCAATCTTTTATATTCCTACAGATATCCGTAAAGGTATAAAAAA-TTTAAAAAAC
* * *
3107822 TTTTCATATTTTTTTGGGTTTCCATTAAGGTACGAAAAAATTTTTTCAAAAATAAATAAATATT
65 TTTTCATATCTTTTCGGGTTTCCATTAAAGTACGAAAAAATTTTTTCAAAAATAAATAAATATT
* * ** * * * **
3107886 AATCATTTT-T-AATTTTTTATATTCCTACAGATATCTGTAGGGGTATGAAAGATTTCAAAAGTT
1 AATCATTTTGTCAATCTTTTATATTCCTACAGATATCCGTAAAGGTATAAAAAATTTAAAAAACT
* * ** *
3107949 TTTCATATCTTTTCGGGTTTTCATTAAAGTACGTAACGATTTTTTGAAAAA
66 TTTCATATCTTTTCGGGTTTCCATTAAAGTACGAAAAAATTTTTTCAAAAA
3108000 AATAATTAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
126 51 0.54
127 33 0.35
128 1 0.01
129 9 0.10
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (128 bp):
AATCATTTTGTCAATCTTTTATATTCCTACAGATATCCGTAAAGGTATAAAAAATTTAAAAAACT
TTTCATATCTTTTCGGGTTTCCATTAAAGTACGAAAAAATTTTTTCAAAAATAAATAAATATT
Done.